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2002 overview

Massachusetts Water Resources Authority · from the MWRA · 96 pages · 3.9 MB
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2002 outfall monitoring overview 
Massachusetts Water Resources Authority
Environmental Quality Department
Report ENQUAD 2003-12

Citation:
Werme C, Hunt CD. 2003. 2002 Outfall monitoring overview. Boston:
Massachusetts Water Resources Authority. Report ENQUAD 2003-12.
80p.

2002
Outfall Monitoring Overview 
submitted to
Massachusetts Water Resources Authority
Environmental Quality Department
100 First Avenue
Charlestown Navy Yard
Boston, MA 02129
prepared by
Christine Werme
Berkeley, CA 94708
and
Carlton D. Hunt
Battelle
397 Washington Street
Duxbury, MA 02332
November 15, 2003

2002 OUTFALL MONITORING OVERVIEW I
Table of Contents 
List of Figures .................................................................................................................... iii
List of Tables ...................................................................................................................... v
Summary ........................................................................................................................... vii
1. Introduction..................................................................................................................... 1
Background ..................................................................................................................... 1
Outfall Permit.................................................................................................................. 3
Monitoring Program........................................................................................................ 4
Contingency Plan ............................................................................................................ 7
Data Management ........................................................................................................... 8
Reporting......................................................................................................................... 9
Outfall Monitoring Overview ......................................................................................... 9
2. Effluent ......................................................................................................................... 11
Background ................................................................................................................... 11
Pollution Prevention and Wastewater Treatment ..................................................... 11
Environmental Concerns........................................................................................... 11
Monitoring Design ........................................................................................................ 13
Results........................................................................................................................... 16
Contingency Plan Thresholds ....................................................................................... 19
3. Water Column............................................................................................................... 21
Background ................................................................................................................... 21
Circulation and Water Properties.............................................................................. 21
Environmental Concerns........................................................................................... 22
Monitoring Design ........................................................................................................ 24
Results........................................................................................................................... 27
Physical Conditions .................................................................................................. 27
Water Quality............................................................................................................ 29
Phytoplankton Communities..................................................................................... 35
Zooplankton Communities........................................................................................ 36
Evaluation of Monitoring Program Design............................................................... 37
Contingency Plan Thresholds ....................................................................................... 37
4. Sea Floor ....................................................................................................................... 40
Background ................................................................................................................... 40
Bottom Characteristics and Sediment Transport ...................................................... 40
Environmental Concerns........................................................................................... 40
Monitoring Design ........................................................................................................ 41
Results........................................................................................................................... 47
Sediment Contaminants ............................................................................................ 47
Sediment Profile Imaging ......................................................................................... 47
Soft-bottom Communities......................................................................................... 48
Hard-bottom Communities ....................................................................................... 51
Contingency Plan Thresholds ....................................................................................... 51
5. Fish and Shellfish.......................................................................................................... 53

2002 OUTFALL MONITORING OVERVIEW II 
Background ................................................................................................................... 53
Monitoring Design ........................................................................................................ 54
Winter Flounder ........................................................................................................ 55
Lobster ...................................................................................................................... 55
Blue Mussel .............................................................................................................. 55
Results........................................................................................................................... 56
Winter Flounder ........................................................................................................ 56
Lobster ...................................................................................................................... 57
Blue Mussel .............................................................................................................. 58
Contingency Plan Thresholds ....................................................................................... 60
6. Special Studies .............................................................................................................. 62
Background ................................................................................................................... 62
Improved Water Quality in Boston Harbor .................................................................. 62
Nutrient Flux................................................................................................................. 65
Marine Mammal Observations ..................................................................................... 66
Plankton Studies............................................................................................................ 66
Revisions to the Monitoring Plan ................................................................................. 68
Water Column........................................................................................................... 68
Sea Floor ................................................................................................................... 68
Fish and Shellfish...................................................................................................... 69
7. Stellwagen Bank National Marine Sanctuary ............................................................... 70
Background ................................................................................................................... 70
Monitoring Design ........................................................................................................ 70
Results........................................................................................................................... 72
Water Column........................................................................................................... 72
Sea Floor ................................................................................................................... 74
References......................................................................................................................... 75
List of Acronyms .............................................................................................................. 80

2002 OUTFALL MONITORING OVERVIEW III
List of Figures 
Figure 1-1. Map of Massachusetts and Cape Cod bays ...................................................... 2
Figure 2-1. Annual effluent flow ...................................................................................... 16
Figure 2-2. Annual solids, nitrogen, and metals discharges ............................................. 17
Figure 2-3. Monthly average TSS and monthly BOD from 1994-2002 ........................... 18
Figure 3-1. General circulation on Georges Bank and in the Gulf of Maine during the
summer, stratified season......................................................................................... 21
Figure 3-2. Nearfield sampling stations............................................................................ 25
Figure 3-3. Farfield geographic regions and sampling stations........................................ 26
Figure 3-4. Above: Charles River discharge, 1990-early 2003; Below: 2002 discharge
compared to the12-year historic mean..................................................................... 28
Figure 3-5. Nearfield surface and bottom water temperature and salinity, 1992-2002 ... 29
Figure 3-6. Above: 2002 nearfield ammonia concentrations compared to baseline range
and mean; Below: annual mean ammonia concentrations in Massachusetts Bay
regions...................................................................................................................... 30
Figure 3-7. Above: 2002 nearfield nitrate concentrations compared to baseline range and
mean; Below: annual mean nitrate concentrations in Massachusetts Bay regions. 31
Figure 3-8. Above: 2002 nearfield chlorophyll concentrations compared to baseline range
and mean; Below: annual mean chlorophyll concentrations in Massachusetts
Bay regions .............................................................................................................. 33
Figure 3-9. Above: 2002 nearfield dissolved oxygen concentrations compared to baseline
range and mean; Below: Stellwagen Basin dissolved oxygen concentrations
compared to baseline range and mean ..................................................................... 34
Figure 3-10. Total phytoplankton abundance by area, 1992-2002 ................................... 35
Figure 3-11. Zooplankton abundance by area, 1992-2002 ............................................... 36
Figure 4-1. Locations of nearfield soft-bottom stations.................................................... 42
Figure 4-2. Locations of farfield soft-bottom stations ...................................................... 43
Figure 4-3. Locations of hard-bottom stations.................................................................. 44
Figure 4-4. Example of a sediment profile image............................................................. 46
Figure 4-5. Apparent color RPD depth for all data from nearfield stations ..................... 47
Figure 4-6. Community parameters in the nearfield, 1992-2002...................................... 50
Figure 5-1. Sampling areas for fish and shellfish monitoring .......................................... 54
Figure 5-2. Prevalence of centrotubular hydropic vacuolation normalized for age ......... 56
Figure 5-3. Selected contaminant concentrations in flounder fillets and livers................ 57
Figure 5-4. Selected contaminants concentrations in lobster hepatopancreas................. 58
Figure 5-5. Selected contaminant concentrations in mussels ........................................... 59
Figure 6-1. Spatial patterns of changes in the water column during the first and second
years after transfer of discharge from Boston Harbor ............................................. 64
Figure 7-1. Water column stations, including the additional Stellwagen Bank National
Marine Sanctuary stations sampled in August and October 2001 and 2002 ........... 71
Figure 7-2. Survey mean dissolved oxygen concentrations in Stellwagen Basin, baseline
mean and range and post discharge years, 2001 and 2002 ...................................... 72

2002 OUTFALL MONITORING OVERVIEW IV 
Figure 7-3. Survey mean nitrate and chlorophyll in and near the Stellwagen Bank
National Marine Sanctuary and other regions of Massachusetts and Cape Cod bays,
1992-2002 ................................................................................................................ 73
Figure 7-4. Abundance of individuals at stations within the boundary region,
1992-2002 ................................................................................................................ 74

2002 OUTFALL MONITORING OVERVIEW V
List of Tables 
Table 1. Summary of monitoring questions and status as of the end of 2002 ................. viii
Table 2. Summary of contingency plan thresholds and exceedances as of 2002. ............. xi
Table 1-1. Roster of panel and committee members .......................................................... 4
Table 1-2. Public concerns and possible environmental responses .................................... 5
Table 1-3. Summary of the monitoring program ................................................................ 6
Table 1-4. Contingency plan threshold parameters ............................................................ 8
Table 1-5. List of monitoring reports submitted to OMSAP .............................................. 9
Table 2-1. Monitoring questions related to effluent monitoring...................................... 12
Table 2-2. Reporting requirements of the outfall permit .................................................. 14
Table 2-3. Monitoring plan parameters for effluent ......................................................... 15
Table 2-4. Projected vs. measured contaminant loadings................................................. 19
Table 2-5. Contingency plan threshold values and 2002 results for effluent monitoring. 20
Table 3-1. Monitoring questions related to the water column ......................................... 23
Table 3-2. Contingency plan threshold values for water column monitoring .................. 38
Table 4-1. Monitoring questions related to the sea floor .................................................. 41
Table 4-2. No contingency plan baseline and threshold values for sea floor monitoring
were exceeded in 2002. ............................................................................................. 52
Table 5-1. Monitoring questions related to fish and shellfish .......................................... 53
Table 5-2. Contingency plan baseline, threshold, and 2002 values for fish and shellfish
monitoring ................................................................................................................. 60
Table 6-1. Significant changes in the water column during the first and second years
following discharge. .................................................................................................. 63
Table 6-2. Monitoring questions related to nutrient flux.................................................. 65
Table 6-3. Monitoring questions related to zooplankton ................................................. 66

2002 OUTFALL MONITORING OVERVIEW VII
Summary 
During 2002, the second full year of discharge from the Massachusetts Bay outfall, the
Deer Island treatment plant operated as designed, with no detectable negative effects on
the health of Massachusetts and Cape Cod bays. Total loads of many parameters
measured within the effluent, including solids and metals, are low. The treatment plant
earned the Association of Metropolitan Sewerage Agencies Silver Award for facilities
that had five or fewer permit violations during the year.
After nine years of baseline monitoring and two years of post-discharge monitoring,
MWRA has been able to answer many of the questions that were posed when the
program began (Table 1). Overall, conditions within the bays have not changed from
baseline conditions.
There were, however, five contingency plan exceedances during the year (Table 2).
As required by the permit, field tests conducted in 2001 confirmed that the outfall’s
minimum dilution is equal to the minimum dilution that had been predicted when it was
designed. This confirmation was achieved by comparing field results to model
predictions. The “minimum” dilution (1:70) described in the permit is that dilution
predicted by the model for a selected set of combined worst-case conditions. Since those
conditions would rarely exist in the field, the actual field results were compared to model
predictions made under corresponding conditions. The field measurements made under
stratified conditions in July found an initial dilution of about 1:100, and the model gave
similar results. EPA and MADEP approved the certification of the outfall in October
2002.
No effects of the outfall on the Stellwagen Bank National Marine Sanctuary have been
detected. Plume tracking, water column, and sea floor studies suggested that no effects
of the outfall on the sanctuary are likely.
During 2002, MWRA initiated an overall review of the monitoring program and began
plans to focus it on the potential for long-term chronic effects. The review evaluated the
nearly ten years of baseline monitoring, which provided abundant data to use in
evaluating possible effects of the outfall, and two years of post-discharge monitoring,
which have documented minimal short-term effects of the relocated discharge.

2002 OUTFALL MONITORING OVERVIEW VIII 
Table 1. Summary of monitoring questions and status as of the end of 2002 
Monitoring Question Status
Do effluent pathogens exceed the permit limits? Pathogenic viruses detectable in the final effluent
but at very low numbers: secondary treatment
effectively removes pathogens.
Does acute or chronic toxicity of effluent exceed
the permit limit?
General compliance.
Do effluent contaminant concentrations exceed
permit limits?
Compliance with permit limits. Discharges of
priority pollutants well below SEIS predictions and
in most cases meet receiving water quality criteria
even before dilution.
Do conventional pollutants in the effluent
exceed permit limits?
General compliance: discharges of solids and BOD
have decreased by 80% compared to the old
treatment plant.
What are the concentrations of contaminants in
the influent and effluent and their associated
variability?
Ongoing monitoring. 
Do levels of contaminants in water outside the
mixing zone exceed water quality standards?
Water quality standards not exceeded, confirmed
by plume studies conducted in 2001 and ongoing
effluent monitoring.
Are pathogens transported to shellfish beds at
levels that might affect shellfish consumer
health?
Dilution is sufficient to for pathogens to reach
background concentrations before reaching
shellfish beds, confirmed by plume studies
conducted in 2001.
Are pathogens transported to beaches at levels
that might affect swimmer health?
Dilution is sufficient for pathogens to reach
background concentrations before reaching
beaches, confirmed by plume studies conducted in
2001.
Has the clarity and/or color of the water around
the outfall changed?
No observed changes.
Has the amount of floatable debris around the
outfall changed?
Floatable debris of concern is rare in the effluent.
Effluent can occasionally be detected in the field.
Are the model estimates of short-term (less
than 1 day) effluent dilution and transport
accurate?
Model estimates accurate, confirmed by plume
studies conducted in 2001.
What are the nearfield and farfield water
circulation patterns?
Flow is controlled by general circulation in the Gulf
of Maine, affected by tides and local wind. Bottom
currents around the outfall can flow in any direction
with no mean flow.
What is the farfield fate of dissolved,
conservative, or long-lived effluent
constituents?
Changes in farfield concentrations of salinity and
other dissolved components not detected within
tens of meters of outfall and not observed in farfield
sediments.
Have nutrient concentrations changed in the
water near the outfall; have they changed at
farfield stations in Massachusetts Bay or Cape
Cod Bay, and, if so, are they correlated with
changes in the nearfield?
Changes have been consistent with model
predictions. The effluent signature is clearly
observed in the vicinity or the outfall but is diluted
over a few days and 10s of kilometers.
Do the concentrations (or percent saturation) of
dissolved oxygen in the water column meet the
state water quality standards?
Conditions have not changed from background.
Have the concentrations (or percent saturation)
of dissolved oxygen in the vicinity of the outfall
or at selected farfield stations in Massachusetts
Bay or Cape Cod Bay changed relative to pre-
discharge baseline or a reference area? If so,
can changed be correlated with effluent or
ambient water nutrient concentrations, or can
farfield changes be correlated with nearfield
changes?
Conditions have not changed from background.

2002 OUTFALL MONITORING OVERVIEW IX 
Monitoring Question Status
Has the phytoplankton biomass changed in the
vicinity of the outfall or at selected farfield
stations in Massachusetts Bay or Cape Cod
Bay, and, if so, can these changes be
correlated with effluent or ambient water
nutrient concentrations, or can farfield changes
be correlated with nearfield changes?
No substantial change has been detected.
Have the phytoplankton production rates
changed in the vicinity of the outfall or at
selected farfield stations, and, if so, can these
changes be correlated with effluent or ambient
water nutrient concentrations, or can farfield
changes be correlated with nearfield changes?
Timing of the fall blooms in the nearfield appears to
be different, but this change does not appear to be
associated with the discharge. Productivity
patterns in Boston Harbor may be changing, as the
area transitions from eutrophic conditions to a more
typical coastal regime.
Has the abundance of nuisance or noxious
phytoplankton changed in the vicinity of the
outfall?
No change has been detected.
Has the species composition of phytoplankton
or zooplankton changed in the vicinity of the
outfall or at selected farfield stations in
Massachusetts Bay or Cape Cod Bay? If so,
can these changes be correlated with effluent of
ambient water nutrient concentrations, or can
farfield changes be correlated with nearfield
changes?
No change has been detected.
What is the level of sewage contamination and
its spatial distribution in Massachusetts and
Cape Cod bays sediments before discharge
through the new outfall?
Historic inputs from Boston Harbor and other
sources detected.
Has the level of sewage contamination or its
spatial distribution in Massachusetts and Cape
Cod bays sediments changed after discharge
through the new outfall?
Effluent signal can be detected in Clostridium
perfringens spores, the most sensitive sewage
tracers.
Has the concentration of contaminants in
sediments changed?
No general increase in contaminants in nearby
sediments. Effluent signal can be detected in
silver, a sensitive sewage tracer, in sediment traps
and in Clostridium perfringens spores in sediments
with 2 km of the diffuser.
Has the soft-bottom community changed? Possible localized change reflected by high number
of animals in the nearfield in 2002. No other
changes detectable.
Have the sediments become more anoxic; that
is, has the thickness of the sediment oxic layer
decreased?
No change in total organic carbon or sediment RPD
detected.
Are any benthic community changes correlated
with changes in levels of toxic contaminants (or
sewage tracers) in sediments?
No change has been detected.
Has the hard-bottom community changed? Small increase in sediment drape on hard-bottom
surfaces detected at a subset of stations in 2001
and 2002; not yet known whether these changes
are related to the outfall.
How do the sediment oxygen demand, the flux
of nutrients from the sediment to the water
column, and denitrification influence the levels
of oxygen and nitrogen in the water near the
outfall?
Described by baseline monitoring; conditions do
not suggest adverse changes will result from
moving outfall offshore.
Have the rates of these processes changed? No short-term changes.
Has the level of contaminants in the tissues of
fish and shellfish around the outfall changed
since discharge began?
No short-term changes in flounder or lobster
contaminant body burdens. Detectable increases
in PAHs and chlordane in mussels deployed at the
outfall.

2002 OUTFALL MONITORING OVERVIEW X 
Monitoring Question Status
Do the levels of contaminants in the edible
tissue of fish and shellfish around the outfall
represent a risk to human health?
No short-term changes that would pose a threat to
human health.
Are the contaminant levels in fish and shellfish
different between the outfall, Boston Harbor,
and a reference site?
Differences documented during baseline
monitoring. Regional patterns have persisted since
the diversion.
Has the incidence of disease and/or
abnormalities in fish or shellfish changed?
No short-term changes.

2002 OUTFALL MONITORING OVERVIEW XI 
Table 2. Summary of contingency plan thresholds and exceedances as of 2002. (NA = not
applicable, D = no exceedance, C = caution level exceedance, W = warning level exceedance) 
Location/
Parameter
Type
Parameter 2000 2001 2002
Effluent 
pH W D D 
Fecal coliform bacteria,
monthly D D D 
Fecal coliform bacteria,
weekly D D D 
Fecal coliform bacteria, daily D W D 
Fecal coliform bacteria,
3 consecutive days D D D 
Chlorine residual, daily W D D 
Chlorine residual, monthly D D D 
Total suspended solids,
weekly D D W 
Total suspended solids,
monthly D D W 
cBOD, weekly D D D 
cBOD, monthly D D D 
Acute toxicity, mysid shrimp D D D 
Acute toxicity, fish D D D 
Chronic toxicity, fish D W D 
Chronic toxicity, sea urchin D W D 
PCBs D D D 
Plant performance D D D 
Flow NA D D 
Total nitrogen load NA D D 
Floatables NA NA NA 
Oil and grease D D D 
Water Column
Dissolved oxygen
concentration C D D Nearfield
bottom water Dissolved oxygen saturation C D D 
Dissolved oxygen
concentration D D D Stellwagen Basin
bottom water Dissolved oxygen saturation D D D 
Nearfield
bottom water
Dissolved oxygen depletion
rate (June-October) NA D D 
Annual NA D D 
Winter/spring NA D D 
Summer NA D D 
Nearfield chlorophyll
Autumn C D D 
Winter/spring NA D D 
Summer NA D C 
Nearfield nuisance
algae Phaeocystis
pouchetii Autumn D D D 
Winter/spring NA D D 
Summer NA D D Nearfield nuisance
algae Pseudonitzchia Autumn D D D 
Nearfield nuisance Any sample D D D

2002 OUTFALL MONITORING OVERVIEW XII 
Location/
Parameter
Type
Parameter 2000 2001 2002
algae Alexandrium
fundyense 
Farfield shellfish PSP toxin extent D D D 
Plume Initial dilution NA D Completed 
Sea Floor
Acenaphthene NA D D 
Acenaphylene NA D D 
Anthracene NA D D 
Benz(a)pyrene NA D D 
Benzo(a)pyrene NA D D 
Cadmium NA D D 
Chromium NA D D 
Chrysene NA D D 
Copper NA D D 
Dibenzo(a,h)anthracene NA D D 
Fluoranthene NA D D 
Fluorene NA D D 
Lead NA D D 
Mercury NA D D 
Naphthalene NA D D 
Nickel NA D D 
p,p’-DDE NA D D 
Phenanthrene NA D D 
Pyrene NA D D 
Silver NA D D 
Total DDTs NA D D 
Total HMW PAH NA D D 
Total LMW PAH NA D D 
Total PAH NA D D 
Total PCBs NA D D 
Nearfield sediment
contaminants
Zinc NA D D 
Nearfield sediment RPD depth NA D D 
Species per sample NA D D 
Fisher’s log-series alpha NA D D 
Shannon diversity NA D D 
Nearfield benthic
diversity
Pielou’s evenness NA D D 
Nearfield species
composition Percent opportunists NA D D 
Fish and Shellfish
Total PCBs NA D D 
Mercury NA D D 
Chlordane NA D D 
Dieldrin NA D D 
Nearfield flounder
tissue
Total DDTs NA D D 
Nearfield flounder Liver disease (CHV) NA D D 
Total PCBs NA D D 
Mercury NA D D 
Nearfield lobster
tissue
Chlordane NA D D

2002 OUTFALL MONITORING OVERVIEW XIII 
Location/
Parameter
Type
Parameter 2000 2001 2002
Dieldrin NA D D 
Total DDTs NA D D 
Total PCBs NA D D 
Lead NA D D 
Mercury NA D D 
Chlordane NA C C 
Dieldrin NA D D 
Total DDTs NA D D 
Nearfield mussel
tissue
Total PAHs NA C C

2002 OUTFALL MONITORING OVERVIEW 1
1. Introduction
Background 
Since its creation in 1985, the Massachusetts Water Resources Authority
(MWRA) has worked to end long-standing violations of the Clean Water
Act and to minimize the effects of wastewater discharge on the marine
environment. In 1991, MWRA ended discharge of municipal sludge into
Boston Harbor. Steps to minimize effects of effluent discharge have
included source reduction to prevent pollutants from entering the waste
stream, improved treatment before discharge, and better dilution once the
effluent enters the marine environment.
Source reduction has included projects to lessen household hazardous
waste disposal and minimize mercury discharges from hospitals and
dentists. An industrial pretreatment/pollution prevention program ensures
that toxic contaminants are removed before they reach the sewer system.
In addition, best management practices are employed at sewer facilities to
mitigate accidental discharge of pollutants. Operator training programs
and process control and maintenance tracking systems are also in place.
Improved treatment began in 1995, when a new primary treatment plant at
Deer Island was brought on line, and disinfection facilities were
completed. (Primary treatment involves removal of solids through
settlement and disinfection.) The first and second batteries of secondary
treatment (which includes bacterial decomposition as well as settlement
and disinfection) went on line in 1997 and 1998. Also during 1998,
discharge from the Nut Island Treatment Plant into Quincy Bay ceased,
and all wastewater was conveyed to Deer Island for treatment, ending
effluent discharge to the southern part of the harbor. A final battery of
secondary treatment became operational in 2001.
Better dilution was achieved in 2000, by diverting the effluent discharge
from Boston Harbor to a new outfall and diffuser system, located 9.5 miles
offshore in Massachusetts Bay (Figure 1-1). The outfall site was selected
because it had a water depth and current patterns that would promote
effective dilution, it was the least likely to affect sensitive resources, and it
was feasible to construct an outfall tunnel to the location.

2002 OUTFALL MONITORING OVERVIEW 2 
Figure 1-1. Map of Massachusetts and Cape Cod bays 
The outfall tunnel is bored through bedrock and has a diffuser system
made up of 53 risers, each with five or six open ports, along its final 1.25
miles. Discharge from the diffuser heads is at the sea floor, at water
depths of about 100 feet. Initial dilution at the outfall is about 5 times that
of the Boston Harbor outfall, which was shallower, in 50 feet of water.
The offshore location of the new outfall diffuser ensures that effluent will
not reach beaches or shellfish beds within a tidal cycle, even if currents are
shoreward.
For many of the components of MWRA’s work, there was little or no
argument that the project benefited the marine environment and the people
of the region. One aspect of the project, moving the effluent outfall from
the harbor to Massachusetts Bay, raised some concerns, which were
expressed as general questions:

2002 OUTFALL MONITORING OVERVIEW 3 
ƒ Is it safe to eat fish and shellfish? 
ƒ Are natural/living resources protected? 
ƒ Is it safe to swim? 
ƒ Are aesthetics being maintained?
These concerns were recognized by MWRA and by the joint permit for the
outfall issued by the U.S. Environmental Protection Agency (EPA) and the
Massachusetts Department of Environmental Protection (MADEP). 
Outfall Permit 
The permit issued by EPA and MADEP under the National Pollutant
Discharge Elimination System (NPDES) became effective on August 9,
2000. It limits discharges of pollutants and requires reporting on the
treatment plant operation and maintenance. The permit requires MWRA
to continue an ongoing pollution prevention program that encompasses
industrial, commercial, and residential users of the system and to employ
best management practices aimed at preventing accidental discharge of
pollutants to the sewer system.
The permit requires MWRA to monitor the effluent and the ambient
receiving waters for compliance with permit limits and in accordance with
a monitoring plan (MWRA 1991, 1997a) developed in response to the
EPA Supplemental Environmental Impact Statement (SEIS, EPA 1988).
The permit requires MWRA to update, maintain, and run the three-
dimensional Bays Eutrophication Model and to measure the dilution at the
discharge. MWRA must implement a contingency plan (MWRA 1997b,
2001), which identifies relevant environmental quality parameters and
thresholds, which, if exceeded, would require a response.
EPA and MADEP have established an independent panel of scientists to
review monitoring data and provide advice on key scientific issues related
to the permit. This panel, the Outfall Monitoring Science Advisory Panel
(OMSAP, Table 1-1), conducts peer reviews of monitoring reports,
evaluates the data, and advises EPA and MADEP on its implications.
OMSAP also provides advice concerning any proposed modifications to
the monitoring or contingency plans.
OMSAP may form specialized focus groups when specific technical issues
require expanded depth or breadth of expertise. Two standing sub-
committees also advise OMSAP. The Public Interest Advisory Committee
(PIAC) represents local, non-governmental organizations and
environmental groups and advises OMSAP on values and uses of the
harbor and the bays. The Inter-agency Advisory Committee (IAAC)

2002 OUTFALL MONITORING OVERVIEW 4 
represents state and federal agencies and provides OMSAP with advice
concerning environmental regulations. 
Table 1-1. Roster of panel and committee members 
OMSAP as of December 2002 
Andrew Solow, Woods Hole Oceanographic Institution (chair)
Robert Beardsley, Woods Hole Oceanographic Institution
Norbert Jaworski, retired
Robert Kenney, University of Rhode Island
Scott Nixon, University of Rhode Island
Judy Pederson, MIT Sea Grant
Michael Shiaris, University of Massachusetts, Boston
James Shine, Harvard School of Public Health
Juanita Urban-Rich, University of Massachusetts, Boston
Catherine Coniaris, MA Department of Environmental Protection
(OMSAP staff) 
IAAC as of December 2002 
MA Coastal Zone Management
Christian Krahforst
Jan Smith (alternate)
MA Department of Environmental Protection
Russell Isaac
Steven Lipman (alternate)
MA Division of Marine Fisheries
Jack Schwartz
James Fair (alternate)
National Marine Fisheries Service
David Dow (alternate)
Stellwagen Bank National Marine Sanctuary
Ben Haskell
US Army Corps of Engineers
Thomas Fredette
US Environmental Protection Agency
Matthew Liebman
David Tomey (alternate)
US Geological Survey
Michael Bothner 
PIAC as of December 2002 
Patty Foley (chair, representative of Save the
Harbor/Save the Bay)
Association for the Preservation of Cape Cod
Maggie Geist
Bays Legal Fund
Wayne Bergeron
The Boston Harbor Association
Vivian Li
Joan LeBlanc (alternate)
Cape Cod Commission
John Lipman
Steve Tucker (alternate)
Center for Coastal Studies
Peter Borrelli
Conservation Law Foundation
Anthony Chatwin
New England Aquarium
Marianne Farrington
Massachusetts Audubon Society
Robert Buchsbaum
MWRA Advisory Board
Joseph Favaloro
Safer Waters in Massachusetts
Salvatore Genovese
Polly Bradley (alternate)
Save the Harbor/Save the Bay
Bruce Berman (alternate)
Wastewater Advisory Committee
Edward Bretschneider 
Monitoring Program 
EPA and MADEP require monitoring to ensure compliance with the
permit, to assess whether the outfall has effects beyond the area identified
in the SEIS as acceptable, and to collect data useful for outfall
management. In anticipation of these requirements, MWRA began some
studies during 1989-1991, and implemented a broad baseline-monitoring
program in 1992. Outfall ambient monitoring plans were developed and
refined were developed by MWRA, under the direction of an Outfall
Monitoring Task Force (OMTF), made up of scientists, regulators, and

2002 OUTFALL MONITORING OVERVIEW 5 
environmental advocacy groups (MWRA 1991, 1997a). The OMTF was
disbanded upon creation of OMSAP in 1998.
The outfall ambient monitoring plan expands the general questions of
public concern by translating them into possible “environmental
responses” to the outfall (Table 1-2). To answer those questions, the
monitoring program focuses on critical constituents in treatment plant
effluent, such as nutrients, organic material, toxic contaminants,
pathogens, and solids. Presence and potential effects of these constituents
are evaluated within the context of four environmental measurement areas:
effluent, water column, sea floor, and fish and shellfish (Table 1-3). 
Table 1-2. Public concerns and possible environmental responses (MWRA 1991) 
Public Concern: Is it safe to eat fish and shellfish? 
ƒ Will toxic chemicals accumulate in the edible tissues of fish and shellfish, and
thereby contribute to human health problems? 
ƒ Will pathogens in the effluent be transported to shellfishing areas where they
could accumulate in the edible tissues of shellfish and contribute to human health
problems? 
Public Concern: Are natural/living resources protected? 
ƒ Will nutrient enrichment in the water column contribute to an increase in primary
production? 
ƒ Will enrichment of organic matter contribute to an increase in benthic respiration
and nutrient flux to the water column? 
ƒ Will increased water-column and benthic respiration contribute to depressed
oxygen levels in the water? 
ƒ Will increased water-column and benthic respiration contribute to depressed
oxygen levels in the sediment? 
ƒ Will nutrient enrichment in the water column contribute to changes in plankton
community structure? (Such changes could include stimulation of nuisance or
noxious algal blooms and could affect fisheries.) 
ƒ Will benthic enrichment contribute to changes in community structure of soft-
bottom and hard-bottom macrofauna, possibly also affecting fisheries? 
ƒ Will the water column near the diffuser mixing zone have elevated levels of some
contaminants? 
ƒ Will contaminants affect some size classes or species of plankton and thereby
contribute to changes in community structure and/or the marine food web? 
ƒ Will finfish and shellfish that live near or migrate by the diffuser be exposed to
elevated levels of some contaminants, potentially contributing to adverse health
in some populations? 
ƒ Will the benthos near the outfall mixing zone and in depositional areas farther
away accumulate some contaminants? 
ƒ Will benthic macrofauna near the outfall mixing zone be exposed to some
contaminants, potentially contributing to changes in community structure? 
Public Concern: Is it safe to swim? 
ƒ Will pathogens in the effluent be transported to waters near swimming beaches,
contributing to human health problems? 
Public Concern: Are aesthetics being maintained? 
ƒ Will changes in water clarity and/or color result from the direct input of effluent
particles or other colored constituents, or indirectly through nutrient stimulation of
nuisance plankton species? 
ƒ Will the loading of floatable debris increase, contributing to visible degradation?

2002 OUTFALL MONITORING OVERVIEW 6 
Table 1-3. Summary of the monitoring program 
Task Objective Sampling Locations
And Schedule Analyses
Effluent
Monthly Toxicity
Weekly Nutrients
Daily Organic material (cBOD)
Several times monthly Toxic contaminants
3x/day Bacterial indicators, total
chlorine residual
Effluent sampling Characterize wastewater
discharge from Deer Island
Treatment Plant
Daily Solids
Water Column
Nearfield surveys Collect water quality data near
outfall location
17 surveys/year
21 stations
Farfield surveys Collect water quality data
throughout Massachusetts and
Cape Cod bays
6 surveys/year
26 stations
Temperature
Salinity
Dissolved oxygen
Nutrients
Solids
Chlorophyll
Water clarity
Photosynthesis
Respiration
Plankton
Marine mammal observations
Moorings (GoMOOS
and USGS)
GoMOOS near Cape Ann and
USGS near outfall provide
continuous oceanographic
data near outfall location
Continuous monitoring
GoMOOS at one location
USGS at two locations
3 depths
Currents
Temperature
Salinity
Water clarity
Chlorophyll
Remote sensing Provides oceanographic data
on a regional scale through
satellite imagery
Available daily (cloud-cover
permitting)
Surface temperature
Chlorophyll
Sea Floor
Soft-bottom studies Evaluate sediment quality and
benthos in Boston Harbor and
Massachusetts Bay
1 survey/year
20 nearfield stations
11 farfield stations
Sediment chemistry
Sediment profile imagery
Community composition
Hard-bottom studies Characterize marine benthic
communities in rock and
cobble areas
1 survey/year
21 stations on 6 transects
Topography
Substrate
Community composition
Fish and Shellfish
Winter flounder Determine contaminant body
burden and population health
1 survey/year
5 locations
Tissue contaminant
concentrations
Physical abnormalities,
including liver histopathology
American lobster Determine contaminant body
burden
1 survey/year
3 locations
Tissue contaminant
concentrations
Physical abnormalities
Blue mussel Evaluate biological condition
and potential contaminant
bioaccumulation
1 survey/year
4 locations
Tissue contaminant
concentrations 
The basic program is augmented by special studies that are conducted in
response to specific permit requirements, scientific questions, and
environmental concerns. The monitoring program is designed to compare
environmental quality of the Massachusetts Bay system, including Boston
Harbor and Cape Cod Bay, before and after the outfall location moved
from the harbor to the bay.
Baseline monitoring was initially planned to last for a minimum of three
years, as the outfall was originally planned for completion in 1995.
Delays in outfall construction allowed a relatively long period for baseline

2002 OUTFALL MONITORING OVERVIEW 7 
studies. Consequently, MWRA was able to document greater natural
variability and develop a better understanding of the system than would
have been possible in a briefer baseline period. MWRA was also able to
evaluate the response in Boston Harbor to other facilities improvements
(Leo et al. 1995, Pawlowski et al. 1996, Rex and Connor 1997, Rex 2000,
Rex et al. 2002, Taylor 2002, 2003). The extended period also meant that
the discharge to Massachusetts Bay, when it did begin, had the benefit of
nearly complete implementation of secondary treatment.
The monitoring plan is a “living document.” That is, every effort is made
to incorporate new scientific information and improved understanding
resulting from the monitoring program into appropriate continued
measurements. MWRA’s NPDES permit allows an annual list of
proposed changes to the monitoring plan. 
Contingency Plan 
The MWRA contingency plan (MWRA 1997b, 2001, and available at
www.mwra.com) describes how, if monitoring results indicate a possible
environmental problem, MWRA and the regulatory agencies will respond
to determine the cause of the problem and to specify the corrective actions
that should be taken if the problem appears to be related to the discharge.
The contingency plan identifies the parameters that represent
environmentally significant components of the effluent or the ecosystem
and that, if specific threshold levels are exceeded, indicate a potential for
environmental risk (Table 1-4). The plan provides a process for
evaluating parameters that exceed thresholds and formulating appropriate
responses.
Threshold values, the measurements selected as indicators of the need for
action, are based on permit limits, state water quality standards, and expert
opinion. To alert MWRA to any changes, some parameters have
“caution” as well as “warning” thresholds. Exceeding caution or warning
thresholds could indicate a need for increased attention or study. If a
threshold is exceeded, MWRA, with guidance from OMSAP and the
regulatory agencies, may expand the monitoring to track effluent quality
and environmental conditions. The data are examined to determine
whether it is likely that an unacceptable effect resulting from the outfall
has occurred.
Exceeding warning levels could, in some circumstances, indicate a need
for a response to avoid potential adverse environmental effects. If a
threshold is exceeded at a warning level, the response includes early
notification to EPA and MADEP and, if the outfall has contributed to
adverse environmental effects, the quick development of a response plan.
Response plans include a schedule for implementing actions, such as

2002 OUTFALL MONITORING OVERVIEW 8 
making adjustments in plant operations or undertaking an engineering
feasibility study regarding specific potential corrective activities. 
Table 1-4. Contingency plan threshold parameters 
Monitoring
Area
Parameter
pH
Fecal coliform bacteria
Residual chlorine
Total suspended solids
Biological oxygen demand
Toxicity
PCBs
Petroleum hydrocarbons
Plant performance
Effluent
Total nitrogen load
Floatables
Dissolved oxygen concentration and saturation
Dissolved oxygen depletion rate
Chlorophyll
Nuisance and noxious algae
Water Column
Effluent dilution
Benthic community structure
Sediment oxygen
Sea Floor
Sediment toxic metal and organic chemicals
Mercury, PCBs, and lipid-normalized toxic
compounds in mussels and flounder and lobster
meat
Lead in mussels
Fish and Shellfish
Liver disease in flounder 
Every effort is made to incorporate new scientific information and
improved understanding resulting from the monitoring program into
appropriate thresholds. A process for modifying the contingency plan is
set forth in MWRA’s NPDES permit. Revision 1 to the contingency plan
was approved during 2001. 
Data Management 
The monitoring program has generated extensive data sets. Data quality is
maintained through program-wide quality assurance and quality control
procedures. After validation, data from field surveys and laboratory
analyses are loaded into a centralized project database. Data handling
procedures are automated to the maximum extent possible to reduce
errors, ensure comparability, and minimize reporting time. Data that are
outside the expected ranges are flagged for review. Data reported by the
laboratory as suspect (for example, because the sample bottle was cracked
in transit) are marked as such and not used in interpretation or threshold
calculations, although they are retained in the database and included in

2002 OUTFALL MONITORING OVERVIEW 9 
raw data reports. Any corrections are documented. Each data report notes
any special data quality considerations associated with the data set.
As monitoring results become available, they are compared with
contingency plan thresholds. Computer programs calculate each threshold
parameter value from the data, compare it to the threshold, and notify the
project staff if any caution or warning levels are exceeded. 
Reporting 
MWRA’s NPDES permit requires regular reports on effluent quality and
extensive reporting on the monitoring program. A variety of reports are
submitted to OMSAP for review (Table 1-5). Changes to the monitoring
program or contingency plan must be reviewed by regulators and
published in the Environmental Monitor . Data that exceed contingency
plan thresholds, and corrective actions, must also be reported. Data that
exceed thresholds must be reported within five days after the results
become available, and MWRA must make all reasonable efforts to report
all data within 90 days of each sampling event.
Reports are posted on MWRA’s web site (www.mwra.com), with copies
placed in repository libraries in Boston and on Cape Cod. OMSAP also
holds public workshops where outfall monitoring results are presented. 
Table 1-5. List of monitoring reports submitted to OMSAP 
Report Description/Objectives
Outfall Monitoring Plan
Phase I—Baseline Studies (MWRA
1991)
Phase II—Discharge Ambient
Monitoring (MWRA 1997a)
Discusses goals, strategy, and design of
baseline and discharge monitoring programs.
Contingency Plan (MWRA 1997b,
2001)
Describes development of threshold
parameters and values and MWRA’s planned
contingency measures.
Program Area Synthesis Reports Summarize, interpret, and explain annual
results for effluent, water column, benthos,
and fish and shellfish monitoring areas.
Special Studies Reports Discuss, analyze, and cross-synthesize data
related to specific issues in Massachusetts
and Cape Cod bays.
Outfall Monitoring Overviews Summarize monitoring data and include
information relevant to the contingency plan. 
Outfall Monitoring Overview 
Among the many reports that MWRA completes, this report, the Outfall
Monitoring Overview, is prepared for each year of the monitoring
program (Gayla et al. 1996, 1997a, 1997b, Werme and Hunt 2000a, 2000b,
2001, 2002). The report includes a scientific summary of each year of

2002 OUTFALL MONITORING OVERVIEW 10 
monitoring. Overviews for 1995-1999 included only baseline information.
With the outfall operational, subsequent reports include information
relevant to the contingency plan, such as data that exceed thresholds,
responses, and corrective activities. When data suggest that monitoring
activities, parameters, or thresholds should be changed, the report
summarizes those recommendations.
This year’s outfall monitoring overview presents monitoring program
results for effluent and field data for 2002. It compares all results to
contingency plan thresholds. The overview also includes a section on data
relevant to the Stellwagen Bank National Marine Sanctuary.
This year’s report also presents plans for revisions to the monitoring plan.
At the end of 2002, MWRA had completed nearly ten years of baseline
monitoring and two years of post-discharge monitoring, which have
documented minimal short-term effects of the relocated discharge.
Therefore, MWRA has begun to review the program and refocus it on the
potential for long-term chronic effects.

2002 OUTFALL MONITORING OVERVIEW 11
2. Effluent
Background
Pollution Prevention and Wastewater Treatment 
Ensuring that the final treated effluent is as clean as possible is the most
important element in MWRA’s strategy to improve the environmental
quality of Boston Harbor without degrading Massachusetts and Cape Cod
bays. MWRA ensures the cleanest possible effluent through a vigorous
pretreatment program and by maintaining and operating the treatment
plant well.
The MWRA Toxic Reduction and Control Program sets and enforces
limits on the types and amounts of pollutants that industries can discharge
into the sewer system. The program minimizes the contaminants present
in the effluent and in the sludge (which is removed during treatment). In
addition to regulating industrial discharges, MWRA has implemented
programs to reduce mercury from dental facilities and to educate the
public about proper disposal of hazardous wastes.
Secondary treatment further reduces the concentrations of contaminants of
concern, except for nutrients. The Deer Island Treatment Plant removes
approximately 85-90% of the suspended solids and biochemical oxygen
demand (BOD), 50-90% of the toxic compounds, and 18-22% of the
nitrogen from the influent.
To mitigate accidental discharge of pollutants to the system, MWRA has
implemented best management practice plans for the treatment plant, its
headworks facilities, the combined sewer overflow facilities, and the
sludge pelletizing plant. The plans include daily visual inspections and
immediate corrective actions. Effectiveness of best management practices
is assessed by non-facility staff. 
Environmental Concerns 
Sewage effluent contains a variety of contaminants that can, at too high
levels, affect the marine environment, public health, and aesthetics. The
MWRA permit set limits on these contaminants so as to ensure that the
environment, public health, and aesthetics would be protected. Several
specific questions in the MWRA ambient monitoring plan respond to
public concerns and possible environmental responses by addressing
whether the effluent is meeting permit limits (Table 2-1). Other questions
require the use of effluent data in conjunction with plume studies (Hunt et

2002 OUTFALL MONITORING OVERVIEW 12 
al. 2002a, 2002b) and water column monitoring (see Section 3. Water
Quality). 
Table 2-1. Monitoring questions related to effluent monitoring 
Is it safe to eat fish and shellfish? 
Will pathogens in the effluent be transported to shellfishing areas where they could
accumulate in the edible tissues of shellfish and contribute to human health problems? 
ƒ Do effluent pathogens exceed the permit limit? 
ƒ Are pathogens transported to shellfish beds at levels that might affect shellfish
consumer health? 
Are natural/living resources protected? 
Will the water column near the diffuser-mixing zone have elevated levels of some
contaminants? 
ƒ Do effluent contaminant concentrations exceed permit limits? 
ƒ What are the concentrations of contaminants and characteristic tracers of
sewage in the influent and effluent and their associated variability? 
Will finfish and shellfish that live near or migrate by the diffuser be exposed to elevated
levels of some contaminants, potentially contributing to adverse health in some
populations? 
ƒ Does acute or chronic toxicity of effluent exceed permit limits? 
ƒ Do levels of contaminants in water outside the mixing zone exceed state water
quality standards? 
Is it safe to swim? 
Will pathogens in the effluent be transported to waters near swimming beaches,
contributing to human health problems? 
ƒ Do effluent pathogens exceed the permit limit? 
ƒ Are pathogens transported to beaches at levels that might affect swimmer
health? 
Are aesthetics being maintained? 
Will changes in water clarity and/or color result from the direct input of effluent particles or
other colored constituents, or indirectly through nutrient stimulation of nuisance plankton
species?
Will the loading of floatable debris increase, contributing to visible degradation? 
ƒ Do conventional pollutants in the effluent exceed permit limits? 
ƒ Has the clarity and/or color of the water around the outfall changed? 
ƒ Has the amount of floatable debris around the outfall changed? 
The effluent constituents of greatest concern include pathogens, toxic
contaminants, organic material, solid material, nutrients, oil and grease,
and “floatables,” that is, plastic and other debris. The MWRA permit also
sets limits for chlorine and pH.
Pathogens, including bacteria, viruses, and protozoa, are found in human
and animal waste and can cause disease. Human exposure to water-borne
pathogens can occur through consumption of contaminated shellfish or
through ingestion or physical contact while swimming.
Toxic contaminants include heavy metals, such as copper and lead,
polychlorinated biphenyls (PCBs), pesticides, polycyclic aromatic
hydrocarbons (PAHs), and petroleum hydrocarbons. Toxic contaminants
can lower survival and reproduction of marine organisms. Some toxic
contaminants can accumulate in marine life, potentially affecting human
health through seafood consumption.

2002 OUTFALL MONITORING OVERVIEW 13 
Organic material, a major constituent of sewage, consumes oxygen as it
decays. Even under natural conditions, oxygen levels decline in bottom
waters during the late summer, so any effluent component that might
further decrease oxygen levels is a concern. Too much organic material
could also disrupt sea floor communities.
Suspended solids, small particles in the water column, decrease water
clarity and consequently affect growth and productivity of algae and other
marine plants. Excess suspended solids also detract from people’s
aesthetic perception of the environment.
In marine waters, nitrogen is the limiting nutrient that controls growth of
algae and other aquatic plants. Excess nitrogen can be detrimental,
leading to eutrophication and low levels of dissolved oxygen, excess
turbidity, and nuisance algal blooms. Nutrients, particularly dissolved
forms, are the only components of sewage entering the treatment plant that
are not substantially reduced by secondary treatment.
Oil and grease slicks and floating debris pose aesthetic concerns. Plastic
debris can also be harmful to marine life, as plastic bags are sometimes
mistaken for food and clog the digestive systems of turtles and marine
mammals. Plastic and other debris can also entangle animals and cause
them to drown.
Sewage effluent is disinfected by addition of a form of chlorine, sodium
hypochlorite, which is the active ingredient in bleach. Unfortunately,
while sodium hypochlorite is effective in destroying pathogens, at high
enough concentrations, it is also harmful to marine life. MWRA
dechlorinates the effluent with sodium bisulfite before discharge.
Seawater is noted for its buffering capacity, that is, its ability to neutralize
acids and bases. However, state water quality standards dictate that
effluent discharges not change the pH of the ambient seawater more than
0.5 standard units. Consequently, the outfall permit sets both upper and
lower values for pH of the effluent. 
Monitoring Design 
The main purpose of effluent monitoring is to measure the concentrations
and variability of constituents of the effluent. Effluent monitoring is
designed to assess compliance with NPDES permit limits, which are based
on state and federal water quality standards and criteria, ambient
conditions, and the dilution at the outfall. Effluent monitoring also
provides accurate mass loads of effluent constituents, so that fate,
transport, and risk of contaminants can be assessed.

2002 OUTFALL MONITORING OVERVIEW 14 
The permit includes numeric limits (Table 2-2) for suspended solids, fecal
coliform bacteria, pH, chlorine, PCBs, and carbonaceous biochemical
oxygen demand (cBOD). In addition, state water quality standards
establish limits for 158 pollutants, and the permit prohibits any discharge
that would cause or contribute to exceeding any of those limits. The
permit also prohibits discharge of nutrients in amounts that would cause
eutrophication. The permit requires MWRA to test the toxicity of the
effluent as a whole on sensitive organisms and establishes limits based on
the tests. Allowable concentrations of contaminants were based on the
predicted dilution at the outfall, which was verified in the field during
2001. 
Table 2-2. Reporting requirements of the outfall permit 
Parameter Sample Type Frequency Limit
Flow Flow meter Continuous Report only
Flow dry day Flow meter Continuous 436 MGD annual
average
CBOD 24-hr composite 1/day 40 mg/l weekly
25 mg/l monthly
TSS 24-hr composite 1/day 45 mg/l weekly
30 mg/l monthly
pH Grab 1/day Not <6 or >9
Fecal coliform bacteria Grab 3/day 14,000 col/100ml
Total chlorine residual Grab 3/day 631 ug/l daily
456 ug/l monthly
PCB, Aroclors 24-hr composite 1/month 0.045 ng/l
Toxicity LC50 24-hr composite 2/month 50%
Toxicity C-NOEC 24-hr composite 2/month 1.5%
Settleable solids Grab 1/day
Chlorides (influent only) Grab 1/day
Mercury 24-hr composite 1/month
Chlordane 24-hr composite 1/month
4,4’ – DDT 24-hr composite 1/month
Dieldrin 24-hr composite 1/month
Heptachlor 24-hr composite 1/month
Ammonia-nitrogen 24-hr composite 1/month
Total Kjeldahl nitrogen 24-hr composite 1/month
Total nitrate 24-hr composite 1/month
Total nitrite 24-hr composite 1/month
Cyanide, total Grab 1/month
Copper, total 24-hr composite 1/month
Total arsenic 24-hr composite 1/month
Hexachlorobenzene 24-hr composite 1/month
Aldrin 24-hr composite 1/month
Heptachlor epoxide 24-hr composite 1/month
Total PCBs 24-hr composite 1/month
Volatile organic
compounds Grab 1/month
Report only

2002 OUTFALL MONITORING OVERVIEW 15 
Most parameters are measured in 24-hour composite samples, and some
must meet daily, weekly, or monthly limits (Table 2-3). Flow is measured
continuously. Nutrient measurements include total Kjeldahl nitrogen,
ammonia, nitrate, and nitrite. Organic material is monitored by measuring
the cBOD. Monitoring for toxic contaminants includes analyses for heavy
metals of concern, chlorinated pesticides, PCBs, volatile organic
compounds, PAHs, total residual chlorine, and cyanide. Toxicity is tested
using whole effluent samples. Tests for acute toxicity include 48-hour
survival of mysid shrimp ( Americamysis bahia , formerly known as 
Mysidopsis bahia ) and inland silverside fish ( Menidia beryllina ). Chronic
toxicity is assessed through inland silverside growth-and-survival and sea
urchin ( Arbacia punctulata ) one-hour-fertilization tests. Pathogen
monitoring consists of enumeration of fecal coliform bacteria. Total
suspended solids (TSS) and settleable solids are also measured.
The contingency plan also sets limits for overall plant performance, annual
nitrogen load, floatables, and oil and grease. Methods for measuring
floatables remain under development. 
Table 2-3. Monitoring plan parameters for effluent 
Parameter Sample Type Frequency
NUTRIENTS
Total Kjeldahl nitrogen Composite Weekly
Ammonia Composite Weekly
Nitrate Composite Weekly
Nitrite Composite Weekly
Total phosphorus Composite Weekly
Total phosphate Composite Weekly
Acid base neutrals Composite Bimonthly
Volatile organic compounds Grab Bimonthly
LOW-DETECTION-LIMIT ANALYSES
Cadmium 24-hour composite Weekly
Copper 24-hour composite Weekly
Chromium 24-hour composite Weekly
Mercury 24-hour composite Weekly
Lead 24-hour composite Weekly
Molybdenum 24-hour composite Weekly
Nickel 24-hour composite Weekly
Silver 24-hour composite Weekly
Zinc 24-hour composite Weekly
17 chlorinated pesticides 24-hour composite Weekly
Extended list of PAHs 24-hour composite Weekly
LABs 24-hour composite Weekly
20 PCB congeners 24-hour composite Weekly 
Beyond the requirements of ordinary discharge monitoring, the MWRA
monitoring plan requires additional nutrient measurements and non-

2002 OUTFALL MONITORING OVERVIEW 16 
standard, low-detection methods to measure toxic contaminants. These
measurements are made to better interpret field-monitoring results.
The monitoring plan also calls for an evaluation of indicators of human
pathogens, but does not explicitly describe how MWRA must carry out
this evaluation. To date, MWRA has collected data on anthropogenic
viruses, viral indicators, and Enterococcus bacteria in the influent and
effluent.
The monitoring plan further calls for an evaluation of effluent tracers. On
an ongoing basis, MWRA evaluates proposals to study potential effluent
tracers. Currently, MWRA is co-sponsoring with SeaGrant, a University
of Massachusetts and Tufts University study of endocrine disruptors in
influent, effluent, Boston Harbor, and the vicinity of the outfall site.
MWRA has also measured sulfur and nitrogen isotope patterns in effluent
to help determine whether nitrogen isotopes may be useful tracers.
MWRA has also provided samples to other investigators using this tool to
trace the effluent signature in the bay. 
Results 
Average daily flow of effluent from the Deer Island treatment plant in
2002 was slightly less than 2000 and 2001, reflecting a continuing drought
(Figure 2-1). Approximately 98% of the flow received secondary
treatment, the greatest percentage ever. 
Figure 2-1. Annual effluent flow 
For many parameters, total loads decreased or remained at approximately
the 2001 level (Figure 2-2). Nitrogen loads, while decreasing with the
implementation of secondary treatment, have increased since 1998, but 
M W RA Prim ary and S econdary Flow s 1990-2002
0
50
100
150
200
250
300
350
400
450
90 91 92 93 94 95 96 97 98 99 00 01 02
Million gallons per day 
P rim ary-treated Flows Secondary-treated Flows

2002 OUTFALL MONITORING OVERVIEW 17 
have remained below threshold values. About 80% of the total nitrogen is
dissolved inorganic nitrogen, mostly ammonia. 
Figure 2-2. Annual solids, nitrogen, and metals discharges 
Deer Island Treatm ent Plant Nitrogen Discharges 1996-2002
0
2000
4000
6000
8000
10000
12000
14000
1996 1997 1998 1999 2000 2001 2002
Metric tons per year 
Dissolved Inorganic N itrogen Other Nitrogen Species Caution Level 
MW RA Solids Discharges 1988-2002
0
20
40
60
80
1 00
1 20
1 40
1 60
1 80
88 89 9 0 91 92 9 3 94 95 96 97 98 9 9 00 01 02
Year
Tons per day 
Sludge
Nut Island
Deer Island 
MWR A M etals Discharges 1988-2002
0
200
400
600
800
1000
1200
89 90 91 92 93 9 4 95 96 97 98 99 00 01 02
Average pounds per day
Silver
N ick el
C hrom ium
Lea d
C opper
Zinc

2002 OUTFALL MONITORING OVERVIEW 18 
Total solids discharged in the effluent remained low. Solids removal has
steadily increased over the past 10 years. The discharge (load) of selected
metals continued to decrease in 2002. TSS and cBOD concentrations
remained low except during a treatment plant upset in August, reflecting
the high level of secondary treatment (Figure 2-3). 
Figure 2-3. Monthly average TSS and monthly BOD (measured as cBOD since
1997) from 1994-2002 
During the more than two years of discharge monitoring, measured
contaminant concentrations have been lower than had been expected
during the outfall planning process (Table 2-4). Even during 2000, when a
relatively low percentage of the effluent received secondary treatment,
concentrations of metals and organic compounds were lower than had
been projected by the SEIS (EPA 1988). 
Monthly Average TSS, Deer Island, 1994-2002
0
10
20
30
40
50
60
70
80
90
100
1994 1995 1996 1997 1998 1999 2000 2001 2002 2003
Year
TS S (m g/L)
TSS
TSS Permit Lim it
Outfall Startup 
. 
Monthly Average BOD, Deer Island, 1994-2002
0
20
40
60
80
100
120
140
160
180
1994 1995 1996 1997 1998 1999 2000 2001 2002 2003
Year
B OD
BOD
cBO D
cBO D Permit Lim it
Outfall Startup

2002 OUTFALL MONITORING OVERVIEW 19 
Table 2-4. Projected vs. measured contaminant loadings (pounds per day unless
noted) 
SEIS
Projection
2000 actual
(relatively low
percentage
secondary)
2002 actual
(relatively high
percentage
secondary)
Flow (MGD) 390 381 336
Percent secondary 100 85 96
Cadmium 4.2 0.4 0.2
Chromium 2102 5.1 3.8
Copper 72 60.1 40.3
Lead 29.9 <10.4 <5.5
Mercury 1.3 0.11 0.07
Nickel 53.8 10.7 8.3
Silver 1.8 1.9 1.2
Zinc 207.9 124.8 84.7
Total DDT 0.033 0.005 0.004
Total PCB 0.3 0.02 0.006 
Contingency Plan Thresholds 
The Deer Island Treatment Plant had few permit violations during 2002
(Table 2-5), earning it the Association of Metropolitan Sewerage Agencies
Silver Award for facilities that have had five or fewer violations during the
year.
There were two exceedances of weekly limits and one exceedance of the
monthly limit for total suspended solids. The elevated levels occurred
when MWRA allowed the discharge of high-sulphate wastewater through
the Alford Street Pumping Station as part of a study to determine the
effect of a particular industrial discharge on odor and corrosion in
MWRA’s Framingham Extension Sewer and downstream sewers. The
high sulfate influent caused a microbiological imbalance in the secondary
treatment and a growth of filamentous bacteria, which impaired the ability
of the plant to remove solids. There was no concurrent exceedance of
BOD levels, indicating that secondary treatment, although compromised,
was still removing oxygen-demanding constituents.

2002 OUTFALL MONITORING OVERVIEW 20 
Table 2-5. Contingency plan threshold values and 2002 results for effluent monitoring 
Parameter Caution Level Warning Level 2002 Results
pH None <6 or >9 Not exceeded
Fecal coliform bacteria None
14,000 fecal coliforms/100
ml (monthly 90 th percentile,
weekly geometric mean,
maximum daily geometric
mean, and minimum of 3
consecutive samples)
Not exceeded
Chlorine, residual None 631 ug/l daily,
456 ug/l monthly Not exceeded
Total suspended solids None 45 mg/l weekly
30 mg/l monthly
Two weekly exceedances,
one monthly exceedance
cBOD None 40 mg/l weekly,
25 mg/l monthly Not exceeded
Toxicity None
Acute: effluent LC50<50%
for shrimp and fish
Chronic: effluent NOEC for
fish survival and growth and
sea urchin fertilization
<1.5% effluent
Not exceeded
PCBs Aroclor=0.045 ng/l Not exceeded
Plant performance 5 violations/year Noncompliance >5% of the
time, Not exceeded
Flow None Flow >436 for annual
average of dry days Not exceeded
Total nitrogen load 12,500 mtons/year 14,000 mtons/year Not exceeded
Floatables Threshold revision
pending
Oil and grease None 15 mg/l weekly Not exceeded

2002 OUTFALL MONITORING OVERVIEW 21
3. Water Column
Background
Circulation and Water Properties 
Circulation, water properties, and consequently, the biology of
Massachusetts and Cape Cod bays are driven by the larger pattern of water
flow in the Gulf of Maine (Figure 3-1). A general coastal current flows
southwestward and may enter the bays by Cape Ann to the north of
Boston. Water flows back out of the bays to the north of Race Point at the
tip of Cape Cod. During much of the year, a weak counterclockwise
circulation persists within eastern Massachusetts Bay and Cape Cod Bay. 
Figure 3-1. General circulation on Georges Bank and in the Gulf of Maine during the summer,
stratified season (from Beardsley et al. 1997)

2002 OUTFALL MONITORING OVERVIEW 22 
The water quality and biology of the bays follow an annual cycle typical
for coastal waters, although meteorological and oceanographic conditions
greatly influence the timing, magnitudes, and spatial extent of the annual
events. According to the typical cycle, waters in the winter are well
mixed, and nutrient levels are high. As light levels increase in the early
spring, phytoplankton often begin a period of rapid growth known as a
spring bloom. During the years in which there are spring blooms, they
begin in the shallowest waters of Cape Cod Bay. Blooms in the deeper
Massachusetts Bay waters begin two to three weeks later. Spring
phytoplankton blooms are typically followed by an increase in
zooplankton abundance. These zooplankton populations are food for
many animals, including the endangered right whale.
Later in the spring, the surface waters warm, and the water column
stratifies. Inputs of freshwater from rivers contribute to the stratification,
with lighter, less saline water remaining at the surface. Stratification
effectively separates the surface and bottom waters, preventing
replenishment of nutrients to the surface and oxygen to the bottom.
Phytoplankton in the surface waters deplete the available nutrients and
then undergo senescence, sinking through the pycnocline to the bottom.
While oxygen levels remain high in the surface waters throughout the
year, bottom-dwelling animals respire, and bacteria use up oxygen as they
decompose the phytoplankton. Bottom-water oxygen levels are typically
lowest during the late summer or early fall.
Cooling surface waters and strong winds during the autumn months
promote mixing of the water column. Oxygen is replenished in the bottom
waters, and nutrients brought to the surface can stimulate a fall
phytoplankton bloom. Typically, fall blooms end in the early winter,
when declining light levels limit photosynthesis. Plankton die and decay,
replenishing nutrients in the water column. 
Environmental Concerns 
Water-column monitoring questions focus on the effects of nutrients,
organic matter, pathogens, and floatable debris from wastewater on the
water quality of Massachusetts Bay (MWRA 1991, Table 3-1). Because
organic material and toxic contaminants are effectively removed by
secondary treatment, but nutrients are not, nutrient issues cause the
greatest concern. The monitoring program looks extensively at possible
effects of discharging nutrient-rich effluent into Massachusetts Bay.

2002 OUTFALL MONITORING OVERVIEW 23 
Table 3-1. Monitoring questions related to the water column 
Is it safe to eat fish and shellfish? 
Will pathogens in the effluent be transported to shellfishing areas where they could
accumulate in the edible tissues of shellfish and contribute to human health
problems? 
ƒ Are pathogens transported to shellfish beds at levels that might affect
shellfish consumer health? 
Are natural/living resources protected? 
Will nutrient enrichment in the water column contribute to an increase in primary
production?
Will nutrient enrichment in the water column contribute to changes in plankton
community structure? 
ƒ Have nutrient concentrations changed in the water near the outfall; have
they changed at farfield stations in Massachusetts Bay or Cape Cod Bay,
and, if so, are they correlated with changes in the nearfield? 
ƒ Has the phytoplankton biomass changed in the vicinity of the outfall or at
selected farfield stations in Massachusetts Bay or Cape Cod Bay, and, if so,
can changes be correlated with effluent or ambient water nutrient
concentrations, or can farfield changes be correlated with nearfield
changes? 
ƒ Have the phytoplankton production rates changed in the vicinity of the outfall
or at selected farfield stations, and, if so, can these changes be correlated
with effluent or ambient water nutrient concentrations, or can farfield
changes be correlated with nearfield changes? 
ƒ Has the abundance of nuisance or noxious phytoplankton species changed
in the vicinity of the outfall? 
ƒ Has the species composition of phytoplankton or zooplankton changed in
the vicinity of the outfall or at selected farfield stations in Massachusetts Bay
or Cape Cod Bay? If so, can these changes be correlated with effluent or
ambient water nutrient concentrations, or can farfield changes be correlated
with nearfield changes? 
Will increased water-column and benthic respiration contribute to depressed oxygen
levels in the water? 
ƒ Do the concentrations (or percent saturation) of dissolved oxygen in the
vicinity of the outfall and at selected farfield stations meet the state water
quality standard? 
ƒ Have the concentrations (or percent saturation) of dissolved oxygen in the
vicinity of the outfall or at selected farfield stations in Massachusetts Bay or
Cape Cod Bay changed relative to predischarge baseline or a reference
area? If so, can changes correlated with effluent or ambient water nutrient
concentrations, or can farfield changes be correlated with nearfield
changes? 
Is it safe to swim? 
Will pathogens in the effluent be transported to waters near swimming beaches,
contributing to human health problems? 
ƒ Are pathogens transported to beaches at levels that might affect swimmer
health? 
Are aesthetics being maintained? 
Will changes in water clarity and/or color result from the direct input of effluent
particles or other colored constituents, or indirectly through nutrient stimulation of
nuisance plankton species?
Will the loading of floatable debris increase, contributing to visible degradation? 
ƒ Has the clarity and/or color of the water around the outfall changed? 
ƒ Has the amount of floatable debris around the outfall changed? 
Information on transport and fate necessary to answer all the questions 
ƒ Are model estimates of short-term (less than 1 day) effluent dilution and
transport accurate? 
ƒ What are the nearfield and farfield water circulation patterns? 
ƒ What is the farfield fate of dissolved, conservative, or long-lived effluent
constituents?

2002 OUTFALL MONITORING OVERVIEW 24 
One concern is that excess nutrients, particularly nitrogen, could promote
algal blooms followed by low levels of dissolved oxygen when the
phytoplankton die, sink, and decompose. Another concern is that changes
in the relative levels of nutrients could stimulate growth of undesirable
algae. Three nuisance or noxious species are of particular concern: the
dinoflagellate Alexandrium fundyense (the A. fundyense/tamarense species
group), the diatom Pseudo-nitzschia multiseries , and the colonial flagellate 
Phaeocystis pouchetii . Alexandrium fundyense can cause paralytic
shellfish poisoning, known as PSP or red tide. Its toxin, when sufficiently
concentrated, can be fatal to marine mammals, fish, and humans. Pseudo-
nitzschia multiseries is one of a group of species that at high
concentrations (more than 1 million cells per liter) may produce sufficient
quantities of domoic acid to cause a condition known as amnesic shellfish
poisoning. Toxin-forming species occur with and appear identical to non-
toxin forming species. Phaeocystis pouchetii is not toxic, but individual
cells can aggregate in gelatinous colonies that are poor food for
zooplankton.
Although it is effectively removed by secondary treatment, potential
effects of organic material from the wastewater effluent remain a focus of
study. Decomposition of organic matter consumes oxygen. Because of
the concern that low levels of dissolved oxygen could affect animals in the
vicinity of the outfall, it was important during the baseline-monitoring
period to develop an understanding of the natural fluctuations of oxygen
levels within the system. Modeling and measurements showed that the
periods of low oxygen that are typical in bottom waters correlate with
saltier bottom waters.
Due to source reduction and treatment, toxic contaminants discharged in
the MWRA effluent are present at extremely low concentrations.
Therefore, most monitoring for the effects of toxic contaminants is
focused not on the water column, but on the sediments, which are known
to be contaminant sinks, and on fish and shellfish, which could accumulate
organic compounds or metals. 
Monitoring Design 
Water-column monitoring includes assessments of water quality,
phytoplankton, and zooplankton in Massachusetts and Cape Cod bays.
Regular monitoring includes four major components: nearfield surveys,
farfield surveys, continuous recording, and remote sensing. Plume-
tracking studies, conducted in 2001, confirmed the assumptions that
bacteria and toxic contaminant concentrations are very low.
Nearfield surveys provide vertical and horizontal profiles of physical,
chemical, and biological characteristics of the water column in the area

2002 OUTFALL MONITORING OVERVIEW 25 
around the outfall where some effects of the effluent are expected (Figure
3-2). Farfield surveys assess differences across the bays and seasonal
changes over a large area (Figure 3-3). Five of the farfield stations mark
the boundary of the monitoring area and are in or near the Stellwagen
Bank National Marine Sanctuary. Two of these stations form the
“northern boundary,” representing water entering Massachusetts Bay from
the Gulf of Maine. Other stations are in Boston Harbor, “coastal” and
“offshore” regions, and in Cape Cod Bay. During 2002, 17 surveys of the
nearfield and 6 surveys of the farfield were conducted. 
Figure 3-2. Nearfield sampling stations

2002 OUTFALL MONITORING OVERVIEW 26 
Figure 3-3. Farfield geographic regions and sampling stations

2002 OUTFALL MONITORING OVERVIEW 27 
Parameters measured in the water column include dissolved inorganic and
organic nutrients, particulate forms of nutrients, chlorophyll, total
suspended solids, dissolved oxygen, productivity, respiration,
phytoplankton abundance and species composition, and zooplankton
abundance and species composition. Nutrient measurements include the
major forms of nitrogen, phosphorus and silica. The measurements focus
on the dissolved inorganic forms, which are readily used by
phytoplankton. Since 1999, the surveys have also included observations
and net tows in the outfall area to assess the presence of floatables.
The continuous recording components of the program, the USGS and Gulf
of Maine Ocean Observing System (GoMOOS) moorings, capture
temporal variations in water quality between nearfield water quality
surveys. Remote sensing by satellite captures spatial variations in water
quality on a regional scale. 
Results
Physical Conditions 
Dry conditions, which began in the fall of 2001, continued into 2002.
Drought and unusual wind conditions in 2002 resulted in a delay in the
onset of stratification until June and a decrease in transport of Gulf of
Maine waters into Massachusetts Bay in the spring. Freshwater flow from
the two principal sources influencing the bays, the Charles (Figure 3-4)
and Merrimack (not shown) rivers, was unusually low in early 2002
(Libby et al. 2003). The summer and fall were also dry, and overall 2002
was the driest year of the decade, with about 65% of the normal freshwater
flow.
Air temperatures in early 2002 continued a warmer than average period,
which had begun during the fall of 2001. Surface water temperatures were
also unusually warm through April, close to average during the summer,
and warm during the fall (Figure 3-5, top). Bottom water temperatures
remained above average through the summer and fall.

2002 OUTFALL MONITORING OVERVIEW 28 
Figure 3-4. Above: Charles River discharge, 1990-early 2003 (recorded data from a gauge at
Waltham and 3-month moving average); Below: 2002 discharge compared to the12-year historic
mean 
In 2001, salinity measurements had shown a normal seasonal progression,
as the drought had not persisted for long enough to affect salinity patterns.
In 2002, however, surface and bottom salinity measurements were the
highest measured in the monitoring program (Figure 3-5, bottom).
Because of a lack of freshwater input and the warm bottom water
temperatures, stratification was unusually weak during the first half of
2002. Waters were not stratified until June.
Southerly winds promoted upwelling conditions during the winter and
spring, but were generally unfavorable to upwelling during the summer.
These conditions differed from the usual pattern of winter winds from the
northeast, which induce downwelling, and regular upwelling events during
the summer. The southerly winds that occurred during the winter and
spring decreased the flow of Gulf of Maine waters into Massachusetts
Bay.

2002 OUTFALL MONITORING OVERVIEW 29 
Figure 3-5. Nearfield surface and bottom water temperature and salinity, 1992-
2002 (Surface measurements are the upper line for temperature and the lower
line for salinity.) 
Water Quality 
Water quality measurements during 2002 continued to confirm predictions
that it would be possible to detect localized effects of the discharge for
some parameters, but that there would be no adverse effects on the farfield
(Libby et al. 2003).
Similar to 2001, elevated concentrations of ammonia, the form of nitrogen
most readily taken up by phytoplankton, were observed in the nearfield
over much of the year (Figure 3-6, top). These elevated levels were
anticipated, because a large portion of the dissolved inorganic nitrogen in
treated effluent is ammonia, and ammonia has proven to be a good short-
term tracer of the effluent plume. During the same period, 2001-2002,
concentrations of ammonia in Boston Harbor, remained low, reflecting the
dramatic drop in concentration following effluent diversion to
Massachussetts Bay (Taylor 2003). Averaged over the entire year, the

2002 OUTFALL MONITORING OVERVIEW 30 
increase in ammonia concentrations in the vicinity of the outfall was small
in comparison to the large decrease in ammonia concentrations in the
harbor (Figure 3-6, bottom). Ammonia concentrations have also declined
at the coastal stations compared to 1998-2000. 
0
1
2
3
4
5
Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec
NH4 ( μ M) 
Baseline Range
Baseline Mean
2001
2002 
0
2
4
6
8
10
12
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
NH4 ( μ M)
Boston Harbor Nearfield N. Boundary Cape Cod
Coastal Offshore Outfall Startup 
Figure 3-6. Above: 2002 nearfield ammonia concentrations compared to
baseline range and mean; Below: annual mean ammonia concentrations in
Massachusetts Bay regions 
Concentrations of nitrate, another form of nitrogen readily used by
phytoplankton and present in the effluent, continued to fall into the general
range and show the same seasonal pattern that had been established during
baseline monitoring (Figure 3-7, top). Just as during the baseline period,
maximum nitrate concentrations were observed during the early part of the
year. Seasonal stratification led to typical, persistent nutrient depletion in

2002 OUTFALL MONITORING OVERVIEW 31 
the surface waters, with no evidence of inputs from the outfall. The fall
increase in nitrate concentrations was somewhat different in timing but
within the same range as had been observed during the baseline period.
The annual averages of nitrate concentrations showed no increase in the
nearfield and no measurable effects on the farfield, with annual
concentrations of nitrate falling within the baseline range for the boundary
stations and in Cape Cod Bay (Figure 3-7, bottom). 
Figure 3-7. Above: 2002 nearfield nitrate concentrations compared to baseline
range and mean; Below: annual mean nitrate concentrations in Massachusetts
Bay regions 
0
1
2
3
4
5
6
7
8
9
10
Jan Feb M ar A pr M ay Jun Jul Aug S ep O ct N ov Dec
N O 3 ( μ M ) 
Baseline R ange
Baseline Mean
2001
2002 
0
2
4
6
8
10
12
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
NO 3 ( μ M )
N earfie ld B ost on H arbor N. B ound ary C ape C od
C oastal Offsho re Outfa ll Sta rtu p

2002 OUTFALL MONITORING OVERVIEW 32 
The typical pattern persisted, with highest concentrations at the northern
boundary, lowest in Cape Cod Bay, and intermediate levels in the
nearfield. The annual concentration of nitrate in Boston Harbor was the
lowest measured for the monitoring program.
Concentrations of chlorophyll, a measure of phytoplankton biomass,
continued to show no response to nutrient enrichment of the outfall, even
in the nearfield (Figure 3-9, top). During most nearfield surveys,
concentrations of chlorophyll were at or below the baseline mean. The
annual (Figure 3-9, bottom) and seasonal (not shown) chlorophyll
concentrations showed no response to the outfall in the nearfield or any
region of the farfield.
Measurements of concentrations (Figure 3-9) and percent saturation (not
shown) of dissolved oxygen in 2002 also showed no response to nutrient
enrichment or addition of organic matter from the outfall. The seasonal
cycle of higher concentrations during the winter and spring and lower
concentrations in the summer and fall, returning to higher concentrations
following a fall overturn continued. Survey mean concentrations and
percent saturation of dissolved oxygen in bottom waters of the nearfield
and Stellwagen Basin were relatively low in 2002, but within the range for
the baseline period. The relatively low measurements were similar to
those made in 1999, when drought conditions also predominated.
Minimum concentrations and percent saturation were found in October, as
is typical.

2002 OUTFALL MONITORING OVERVIEW 33 
Figure 3-8. Above: 2002 nearfield chlorophyll concentrations compared to
baseline range and mean; Below: annual mean chlorophyll concentrations in
Massachusetts Bay regions 
0
100
200
300
400
500
Jan Feb Mar Apr M ay Jun Jul Aug Sep Oct Nov D ec
Ch lo rophyll (m g m -2 ) 
Baseline R ange
Baseline Mean
2000
2001
2002 
0
20
40
60
80
100
120
140
160
180
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Y ear
C hloro phyll (m g m -2 )
N e arfie ld B ost on H arbo r N . Boun dary C ape Cod
C oa st al Offs hore O utf all S ta rtup

2002 OUTFALL MONITORING OVERVIEW 34 
Figure 3-9. Above: 2002 nearfield dissolved oxygen concentrations compared to
baseline range and mean; Below: Stellwagen Basin dissolved oxygen
concentrations compared to baseline range and mean 
5
6
7
8
9
10
11
12
13
Ja n F eb Mar Apr May Jun Jul Aug Sep Oct N ov Dec
DO (m gL -1 ) 
Baseline
R ange
Baseline Mean
2001
2002 
5
6
7
8
9
10
11
12
13
Jan Feb M ar Apr M ay Jun Jul Aug Sep Oct N ov Dec
DO (m g L -1 ) 
B aseline
Range
B aseline M ean
2001
2002

2002 OUTFALL MONITORING OVERVIEW 35
Phytoplankton Communities 
Abundance of phytoplankton and community structure during 2002 fell
within the baseline range (Libby et al. 2003, Figure 3-10). Assemblages
during both post-diversion years were generally similar to those found
during baseline monitoring, with total nearfield abundance at or slightly
below the baseline mean. A relatively early fall bloom occurred, possibly
because a ctenophore bloom was present and decimated zooplankton
populations (see Zooplankton Communities, below). 
Figure 3-10. Total phytoplankton abundance by area, 1992-2002 
Abundance of dinoflagellates in the genus Ceratium was lower than the
baseline range from March until early August. Ceratium usually
dominates screened-water samples during the warmer months. This result
does not appear to be related to the outfall. Rather, the genus is dependent
on well-stratified conditions, which were not present in 2002.
There continued to be no detectable increases in nuisance species
compared to the baseline. Alexandrium fundyense was present during the
late spring and early summer, but at levels well below what was
periodically seen during the baseline period. Phaeocystis pouchetii 
occurred during the spring, and Pseudo-nitzschia multiseries appeared in
the fall, both at levels lower than had been detected in baseline years. 
0
2
4
6
8
10
12
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
10 6 Cells L -1
Nearfield H arbor C ape Cod B ay Coastal N. B oundary O utfall Startup

2002 OUTFALL MONITORING OVERVIEW 36
Zooplankton Communities 
For the first half of 2002, zooplankton abundance and community
structure were similar to those of the baseline period (Libby et al. 2003,
Figure 3-11). There was, however, a precipitous decrease in zooplankton
abundance in August, with the nearfield mean falling from 96,000 animals
m -3 to 24,000 animals m -3 . This sharp decline was primarily due to the
presence of unusually abundant ctenophores. Ctenophores Mnemiopsis
leidyi were present during July-November, a longer period than they were
present in 2000, the only other year in which Mnemiopsis occurred in the
bay. Their presence is unlikely to be related to the outfall, as ctenophores
were also abundant in Buzzards Bay and the Cape Cod Canal during 2000
and 2002. 
Figure 3-11. Zooplankton abundance by area, 1992-2002 
No effects of the outfall on the typical zooplankton communities, which
are dominated by copepod nauplii and copepodites and adults of the small
copepod Oithonus similis , were seen. Broader-scale studies suggest that
zooplankton communities may be shaped by wide-scale forcing factors,
such as the North Atlantic Oscillation, rather than by local forces such as
the MWRA outfall (Kropp et al. 2003). 
0
50,000
100,000
150,000
200,000
250,000
300,000
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Anim als m -3
Nearfield Harbor C ape Cod Bay
Coastal Boundary O utfall S tartup

2002 OUTFALL MONITORING OVERVIEW 37
Evaluation of Monitoring Program Design 
As part of a review of the monitoring program, the chlorophyll and bottom
water dissolved oxygen data were analyzed, using a linear mixed model
regression analysis and analysis of residual variance. The regression
analysis attempted to find seasonal patterns in the data and to identify
long-term linear trends (for example, an increase in chlorophyll through
time), outfall effects, and random effects. After accounting for any of
these possible trends or effects, the analysis of residual variance was
conducted to determine the extent of spatial and temporal redundancy in
the data (MWRA 2003b).
The analysis of residual variance found a high level of spatial redundancy
in both the chlorophyll and the dissolved oxygen data. On average, the
chlorophyll and dissolved oxygen data from one nearfield station were
very similar to data from nearby stations. The results indicated that two-
thirds of the nearfield stations could be eliminated without greatly
decreasing the ability of the monitoring program to detect changes.
Similarly, the analysis detected a moderately strong level of temporal
redundancy in the data, that is, on average, data from adjacent surveys
were somewhat similar. The results indicated that decreasing the number
of nearfield surveys from 17 to 12 per year would have minimal effects on
the monitoring results. 
Contingency Plan Thresholds 
Threshold parameters for water-column monitoring include minimum
dissolved oxygen concentrations and percent saturation in nearfield and
Stellwagen Bank bottom waters, dissolved oxygen depletion rate in
nearfield bottom waters, chlorophyll levels, abundance of nuisance algal
species, geographic extent of PSP toxin, and initial dilution.
There was an exceedance of the summer Phaeocystis threshold (Table 3-
2). This measurement was made at the end of a typical spring Phaeocystis 
bloom, and the exceedance was more likely an artifact of the sampling
schedule and the extremely low summer threshold rather than an
indication of an effect of the outfall. The number of cells was far below
levels that have negative environmental effects. Pseudo-nitzschia
pseudodelicatissima , a potentially toxic diatom that is not currently
included in Pseudo-nitzschia threshold calculations, was present and at
times abundant. All other monitoring results were within ranges that met
the thresholds.

2002 OUTFALL MONITORING OVERVIEW 38 
Table 3-2. Contingency plan threshold values for water column monitoring 
Location/
Parameter
Specific
Parameter Baseline Caution Level Warning
Level
2002
Results
Dissolved
oxygen
concentration
Background 5 th
percentile
5.75 mg/l
Lower than 6.5
mg/l for any
survey (June-
October) unless
background
conditions are
lower
Lower than 6.0
mg/l for any
survey (June-
October) unless
background
conditions are
lower
Lowest
survey
mean =
6.43 mg/l
Bottom water
nearfield
Dissolved
oxygen percent
saturation
Background 5 th
percentile
64.3%
Lower than 80%
for any survey
(June-October)
unless
background
conditions are
lower
Lower than 75%
for any survey
(June-October)
unless
background
conditions are
lower
Lowest
survey
mean =
71.3%
Dissolved
oxygen
concentration
Background 5 th
percentile
6.2 mg/l
6.5 mg/l for any
survey (June-
October) unless
background
conditions lower
Lower than 6.0
mg/l for any
survey (June-
October) unless
background
conditions are
lower
Lowest
survey
mean =
7.01 mg/l
Bottom water
Stellwagen
Basin
Dissolved
oxygen percent
saturation
Background 5 th
percentile
66.3%
Lower than 80%
for any survey
(June-October)
unless
background
conditions
Lower than 75%
for any survey
(June-October)
unless
background
conditions are
lower
Lowest
survey
mean =
75.1%
Bottom water
nearfield
DO depletion
rate (June-
October)
0.024 mg/l/d 0.037 mg/l/d 0.049 mg/l/d 0.020
mg/l/d
Annual 71 mg/m 2 107 mg/m 2 143 mg/m 2 82 mg/m 2
Winter/spring 81 mgml 2 182 mg/m 2 None 112 mg/m 2
Summer 51 mg/m 2 80 mg/m 2 None 50 mg/m 2
Chlorophyll
nearfield
Autumn 90 mg/m 2 161 mg/m 2 None 100 mg/m 2
Winter/spring 470,000 cells/l 2,020,000 cells/l None 269,000
cells/l
Summer 72 cells/l 334 cells/l None 14,900
cells/l
Nuisance
algae
nearfield 
Phaeocystis
pouchetii Autumn 300 cells/l 2,370 cells/l None 0 cells/l
Winter/spring 6,200 cells/l 21,000 cells/l None 900 cells/l
Summer 13,000 cells/l 38,000 cells/l None 200 cells/l
Nuisance
algae
nearfield 
Pseudo-
nitzschia 
Autumn 9,700 cells/l 37,900 cells/l None 2,300 cells/l
Nuisance
algae
nearfield 
Alexandrium
fundyense 
Any nearfield
sample
Baseline
maximum =
163 cells/l
100 cells/l None 7.5 cells/l
maximum
Farfield PSP toxin
extent Not applicable New incidence None
No toxicity
or shellfish
closures

2002 OUTFALL MONITORING OVERVIEW 39 
The 2001 revision to the contingency plan (MWRA 2001) required
MWRA to prepare a report on zooplankton populations and evaluate
whether a scientifically valid threshold could be developed. That report
(Kropp et al. 2003) found that zooplankton populations tend to respond to
large-scale environmental factors on regional scales that dwarf the
responses to local events. The report determined that no simple,
meaningful threshold was possible. However, MWRA will continue to
evaluate the zooplankton community and to report on possible outfall-
related events. (See additional information about the report in Section 6.
Special Studies.)

2002 OUTFALL MONITORING OVERVIEW 40
4. Sea Floor
Background
Bottom Characteristics and Sediment Transport 
The sea floor of Massachusetts and Cape Cod bays was originally shaped
by the glaciers, which sculpted the bottom and deposited debris, forming
knolls, banks, and other features. Within Massachusetts Bay, the sea floor
ranges from mud in depositional basins to coarse sand, gravel, and
bedrock on topographic highs. The area around the outfall is marked by
underwater drumlins, which are elongated hills about 10 meters high, with
crests covered by gravel and boulders. Long-term sinks for fine-grained
sediments include Boston Harbor, Cape Cod Bay, and Stellwagen Basin
(USGS 1997a, 1998).
Sediment transport in the region occurs primarily during storms.
Typically, waves during storms with winds from the northeast resuspend
sediments, which are transported by shallow currents from western
Massachusetts Bay toward Cape Cod Bay and by deeper currents to
Stellwagen Basin. Cape Cod Bay is partially sheltered from large waves
by the arm of Cape Cod, and storm waves are rarely large enough to
resuspend sediments in Stellwagen Basin, which is the deepest feature in
the region. 
Environmental Concerns 
Within Boston Harbor, studies of the sediments have documented
recovery following the cessation of sludge discharge, improvements to
combined sewer overflow (CSO) systems, and improved sewage effluent
treatment. Conversely, relocating the outfall has raised concerns about
potential effects on the offshore sea floor. Concern has focused on three
issues: eutrophication and related low levels of dissolved oxygen,
accumulation of toxic contaminants in depositional areas, and smothering
of animals by particulate matter (Table 4-1).

2002 OUTFALL MONITORING OVERVIEW 41 
Table 4-1. Monitoring questions related to the sea floor 
Are natural/living resources protected? 
Will benthic enrichment contribute to changes in community structure of soft-bottom
and hard-bottom macrofauna, possibly affecting fisheries?
Will benthic macrofauna near the outfall mixing zone be exposed to some
contaminants, potentially contributing to changes in the community?
Will the benthos near the outfall mixing zone and in depositional areas farther away
accumulate some contaminants? 
ƒ What is the level of sewage contamination and its spatial distribution in
Massachusetts and Cape Cod bays sediments before discharge through the
new outfall? 
ƒ Has the level of sewage contamination or its spatial distribution in
Massachusetts or Cape Cod bays sediments changed after discharge
through the new outfall? 
ƒ Have the concentrations of contaminants in sediments changed? 
ƒ Has the soft-bottom community changed? 
ƒ Are any benthic community changes correlated with changes in levels of
toxic contaminants (or sewage tracers) in sediments? 
ƒ Has the hard-bottomed community changed? 
Will increased water-column and benthic respiration contribute to depressed oxygen
levels in the sediment? 
ƒ Have the sediments become more anoxic; that is, has the thickness of the
sediment oxic layer decreased? 
If transfer of the nutrient loads to offshore were to cause eutrophication,
depressed levels of dissolved oxygen could affect bottom communities.
Increasing the amount of particles and organic matter to the bottom could
disrupt normal benthic community structure in the vicinity of the
discharge. Although source control and treatment plant performance are
designed to keep effluent contaminant concentrations too low to affect the
sediments, the location of the outfall in an area of considerable sediment
transport causes concern about accumulation of toxic contaminants in
Cape Cod Bay and Stellwagen Basin. Similarly, concentrations of
particulate matter are expected to be low, but there remains some concern
that bottom communities near the outfall could be affected by deposition. 
Monitoring Design 
Sea floor monitoring includes several components: measurements of
contaminant concentrations and other chemistry parameters in sediments,
sediment profile imaging to provide a rapid assessment of potential effects
on benthic communities and sediment quality, studies of nearfield and
farfield soft-bottom communities (sampling sites in Figures 4-1 and 4-2),
and study of hard-bottom communities (sampling sites in Figure 4-3).

2002 OUTFALL MONITORING OVERVIEW 42 
Figure 4-1. Locations of nearfield soft-bottom stations (NF12 and NF17 are also sampled by
USGS.)

2002 OUTFALL MONITORING OVERVIEW 43 
Figure 4-2. Locations of farfield soft-bottom stations

2002 OUTFALL MONITORING OVERVIEW 44 
Figure 4-3. Locations of hard-bottom stations

2002 OUTFALL MONITORING OVERVIEW 45 
The core of sediment contaminant monitoring consists of annual, mid-
August sampling of sediments at 31 stations throughout Massachusetts
and Cape Cod bays. Replicate field samples are taken at all farfield and
selected nearfield stations. Single samples are taken at the remaining
nearfield stations. Samples are analyzed for PAHs, PCBs, chlorinated
pesticides, metals, grain size, total organic carbon (TOC), Clostridium
perfringens spores, and linear alkyl benzenes.
Annual sediment-contaminant monitoring is complemented by two special
studies. One study is a collaborative effort between MWRA and USGS to
investigate sediment transport and contaminant levels in Boston Harbor,
Massachusetts Bay, and Cape Cod Bay. USGS has periodically sampled
four stations within Boston Harbor since 1977 and has taken sediment
cores three times a year from two stations, one sandy and one muddy, near
the Massachusetts Bay outfall since 1989 (USGS 1997b; Figure 4-1).
Since 1992, these stations have also been occupied by MWRA. USGS
also uses a mooring in the nearfield to collect hydrographic data and
samples of suspended matter that deposits in sediment traps. Suspended
matter samples are analyzed for metals, grain size, TOC, and effluent
tracers.
The second special study was a 2-year program of more frequent sampling
at three nearfield stations and one farfield station. These stations were
selected because they had a high percentage of fine-grained material, with
that percentage remaining stable throughout the baseline period, they had
high TOC levels, and they were within the zone of effluent particle
deposition predicted by the Bays Eutrophication Model. The data from
this study were to provide an early indication of rapid organic carbon or
contaminant build-up, should those conditions occur.
Sediment-profile image monitoring is conducted in August of each year at
23 nearfield stations to give an area-wide assessment of sediment quality
and benthic community status. The sediment-profile images (for example,
Figure 4-4) provide more rapid assessments of benthic habitat conditions
than is possible from traditional faunal analyses. A system called “Quick
Look,” which uses digital video cameras along with film, provides an even
faster assessment. A real-time narration of the videotape describes the
substrate and estimates depth to which oxygen penetrates, known as the
oxidation-reduction potential discontinuity (RPD). Later, complete
analyses of films provide information on prism penetration, surface relief,
apparent color RPD depth, sediment grain size, sediment layering, fauna
and structures, and successional stage of the soft-bottom animal
communities.

2002 OUTFALL MONITORING OVERVIEW 46 
Figure 4-4. Example of a sediment profile image (Station NF24 in 2002) 
Monitoring the benthic infauna also consists of annual surveys conducted
in August. Sampling of 23 nearfield stations provides spatial coverage
and local detail about the fauna in depositional areas located within eight
kilometers of the diffuser. Farfield sampling of eight additional stations in
Massachusetts and Cape Cod bays contributes regional data on soft-
bottom habitats. Samples are collected in a 0.044 m 2 Young-Van Veen
benthic grab, sieved on 300μm mesh, and fixed in formalin in the field,
then transferred to alcohol and stained with Rose Bengal in the lab.
Animals are sorted, identified, and counted.
Most pollutant-effect monitoring studies of benthic communities,
including the MWRA monitoring program, focus on the soft-bottom areas
with finer-grained sediments, but such depositional areas are few in the
vicinity of the outfall. Therefore, MWRA also conducts video and
photographic surveys of the hard-bottom habitats found on the tops and
flanks of drumlins in western Massachusetts Bay. Video and still
photographs are taken at 21 stations or waypoints, including diffuser head
#44 of the outfall (which was not opened), and diffuser head #2. These
annual surveys are conducted in June. Photographs are examined for
substrate type (top or flank of the drumlin, with relief defined by presence
of boulders and cobbles), amount of sediment drape (the degree to which
there is a layer of fine material on the hard surface), and biota (taxa
identified to species or species groups and counted).

2002 OUTFALL MONITORING OVERVIEW 47
Results
Sediment Contaminants 
Baseline sampling at nearfield stations found that the area around the
outfall was composed of heterogeneous sediments that had received
historic inputs of contaminants from Boston Harbor and other sources. In
the nearfield, contaminant concentrations have been correlated with grain
size, with the muddier stations having more organic carbon and higher
concentrations of contaminants.
Data from 2002 continued to show no rapid increase in contaminant
concentrations following startup of the outfall. Using the most sensitive
sewage tracers, silver and Clostridium perfringens spores, an effluent
signal could be detected, but the signal was not pronounced. No
generalized increase in contaminants in nearby sediments has been
detected since the outfall began operation. These results indicate that, as
predicted, the outfall has had a modest, localized effect on the sediments,
but that concentrations of contaminants in the area have not increased. 
Sediment Profile Imaging 
Sediment profile imaging measurements in 2002 also showed no effects
from the outfall (Figure 4-5). 
Figure 4-5. Apparent color RPD depth (cm) for all data from nearfield stations.

2002 OUTFALL MONITORING OVERVIEW 48 
As in previous years, the deepest RPD layers were associated with mixed
fine-sand-silt-clay sediments that had high levels of biogenic activity. At
stations with coarse sediments, the apparent color RPD depths were
deeper than prism penetration depths. There were no regional trends that
could associate RPD depth with the outfall location. Neither the color nor
the texture of the sediments in the images showed any changes that might
have resulted from increased sedimentation of organic matter. 
Soft-bottom Communities 
The soft-bottom communities have also shown no response to the outfall.
During the baseline period, multivariate analyses indicated that sediment
grain size was the dominant factor in structuring the benthic communities
(Maciolek et al. 2003). In the nearfield, stations with fine sediments are
dominated by polychaete worms, such as Prionospio steenstrupi , Spio
limicola , Mediomastus californiensis , and Aricidea catherinae . Sandier
stations are inhabited by the polychaetes Exogenes hebes and E. verugera 
and the amphipods Crassicorophium crasssicorne and representatives of
the genus Unciola .
The benthic communities of the farfield differ from those in the nearfield,
as the farfield stations span a greater depth range, are geographically
widespread, and generally have finer sediments than those in the nearfield
(Maciolek et al. 2003). Polychaete worms, including Eucone incolor , 
Aricidea quadrilobata , and Levinsenia gracilus , predominate at most
stations. Prionospio steenstrupi, which is dominant at many nearfield
stations, is also common at some of the farfield station. Another
polychaete, Cossura longicirrata , dominates at a station in Cape Cod Bay.
The nine years of baseline monitoring provided a broad base for
understanding the potential responses of the benthic communities to the
discharge. During the baseline period, some stations were severely
affected by winter storms, while other, deeper stations exhibited more
stability over time. While the two years of post-discharge monitoring
have shown no patterns that can be related to the discharge, they have
provided additional data to evaluate the broader patterns that had been
detected in baseline monitoring.
Most dramatically, the abundance of soft-bottom fauna has increased 60%
from 1992-2002 (Figure 4-6, top). The number of species (species
richness) and log-series alpha (another measure of species richness) have
also increased, suggesting a sine-wave pattern with an apparent seven-year
cycle (Figure 4-6, middle and bottom).
Sophisticated statistical analyses (of a type known as generalized linear
models) were carried out on the long-term benthic monitoring data. These
analyses confirmed the significant increase in animal abundance and

2002 OUTFALL MONITORING OVERVIEW 49 
species richness and supported the apparent cycle in species richness that
were observed in the raw data. The analyses did not detect a significant
effect that could be attributed to the outfall. The analyses would have
detected a potential outfall effect of as little as a 5% change in the average
abundance or diversity. A significant change consistent with an outfall
effect was found for a similar statistical analysis of the diversity measure
that is sensitive to how evenly individual organisms are distributed among
species. This extremely small change appears to represent be statistically
but not ecologically significant, indicative of the sensitivity of the analyses
and the monitoring design (MWRA 2003c, Maciolek et al. 2003).
Additional analyses were carried out to determine whether a discharge-
related change in community composition could be detected. This
evaluation found that the rates of change in benthic species and there
patterns of relative abundance were moderately slow, requiring decades
before a changeover in the dominant species would be observed. No
difference in these rates were found between the baseline and the
discharge monitoring data, documenting a lack of detectable effect of the
outfall on the community composition in the nearfield (MWRA 2003c,
Maciolek et al. 2003).
These highly sensitive analyses were strong arguments that the level of
sampling in both the nearfield and the farfield could be reduced without
unduly affecting the integrity of the monitoring program.
Population densities of specific organisms have also fluctuated. Although
the numerically dominant species at many stations have tended not to
change, one species ( Spio limicola ), which was dominant during siting
studies and the early years of the monitoring program, has been replaced
by another spionid polychaete ( Spio steenstrupi ).
There are several possible explanations for the long-term changes that
have been observed (Maciolek et al. 2003): 
ƒ The perfect-storm hypothesis : Infauna communities are continuing
to recover from the severe winter storms that occurred in 1992,
after which nearfield infaunal abundances decreased dramatically. 
ƒ The productivity hypothesis: A long-term increase in the supply of
organic matter to the benthos has led to increased abundance of
infaunal organisms. 
ƒ The climate-change hypothesis : Infaunal communities are
responding to long-term changes, perhaps related to the North
Atlantic Oscillation. 
ƒ The chance hypothesis : Larvae of Prionospio steenstrupi settle
earlier and/or outcompete Spio limicola and other possible
dominants.

2002 OUTFALL MONITORING OVERVIEW 50 
Figure 4-6. Community parameters in the nearfield, 1992-2002 
30
40
50
60
70
80
90
100
1991 1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002 2003
Year
Species per S am ple
Mean +/-1S D
Baseline Mean: 65
Outfall Startup
0
1000
2000
3000
4000
5000
6000
1991 1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002 2003
Y ear
To tal Abunda nce per Sam ple
M ean +/-1SD
Baselin e M ean: 2242
O utfall Startup
4
6
8
10
12
14
16
18
20
1991 1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002 2003
Year
Log-Series Alpha
M ean +/-1SD
Baseline M ean:13.06
Ou tfall startup

2002 OUTFALL MONITORING OVERVIEW 51
Hard-bottom Communities 
Rocky environments in the vicinity of MWRA’s outfall support
communities of algae and invertebrates similar to those found throughout
northern New England. Near the outfall, these environments and the
communities they support are stable from year to year, but vary over
relatively short distances, on the scale of tens of meters, ranging from
large boulders to cobbles to gravel pavements. These patterns persisted in
2002, with only modest changes that could suggest some influence from
the outfall. Several stations to the north of the outfall had an increased
amount of sediment drape during 2001 and 2002, and it is possible that the
increases could be due to the outfall. Nevertheless, lush epifaunal growth
continues to thrive on the diffuser heads that are surveyed (Maciolek et al. 
2003).
Several trends that appear to be regional rather than outfall-related have
also been observed. Abundance of the green sea urchin 
Strongylocentrotus droebachiensis declined during 1996-2000 and then
increased slightly in 2001 and 2002. Crabs in the genus Cancer and the
cod Gadus morhua have increased in numbers since the mid 1990s. A
general increase in the abundance of lobsters has also been noted. 
Contingency Plan Thresholds 
No contingency plan threshold parameters for sea floor monitoring were
exceeded in 2002. Those parameters include contaminant concentrations,
RPD depth, and benthic diversity and species composition in soft-bottom
communities (Table 4-2).

2002 OUTFALL MONITORING OVERVIEW 52 
Table 4-2. No contingency plan baseline and threshold values for sea floor monitoring were
exceeded in 2002. 
Location Parameter Caution Level Warning Level 2002 Results
Acenaphthene None 500 ppb dry 45.6 ppb dry
Acenaphylene None 640 ppb dry 83.4 ppb dry
Anthracene None 1100 ppb dry 264 ppb dry
Benzo(a)anthracene None 1600 ppb dry 362 ppb dry
Benzo(a)pyrene None 1600 ppb dry 300 ppb dry
Cadmium None 9.6 ppm dry 0.0909 ppm dry
Chromium None 370 ppm dry 78.9 ppm dry
Chrysene None 2800 ppb dry 362 ppb dry
Copper None 270 ppm dry 25.1 ppm dry
Dibenzo(a,h)anthracene None 260 ppb dry 59.1 ppb dry
Fluoranthene None 5100 ppb dry 821 ppb dry
Fluorene None 540 ppb dry 75.5 ppb dry
Lead None 218 ppm dry 68 ppm dry
Mercury None 0.71 ppm dry 0.202 ppm dry
Naphthalene None 2100 ppb dry 103 ppb dry
Nickel None 51.6 ppb dry 17.2 ppb dry
p,p’-DDE None 27 ppm dry 0.64 ppm dry
Phenanthrene None 1500 ppb dry 630 ppb dry
Pyrene None 2600 ppb dry 847 ppb dry
Silver None 3.7 ppm dry 0.486 ppm dry
Total DDTs None 46.1 ppb dry 2.3 ppb dry
Total HMWPAH None 9600 ppb dry 4820 ppb dry
Total LMWPAH None 3160 ppb dry 2140 ppb dry
Total PAH None 44792 ppb dry 6950 ppb dry
Total PCBs None 180 ppb dry 18.2 ppb dry
Sediment toxic
contaminants,
nearfield
Zinc None 410 ppm dry 64.2 ppm dry
Sediments,
nearfield RPD depth 1.18 cm None 2.5 cm
Species per sample <47.97 or >81.09 None 73
Fisher’s log-series
alpha <10.13 or >15.58 None 13.84
Shannon diversity <3.32 or >4.02 None 3.60
Benthic
diversity,
nearfield
Pielou’s evenness <0.56 or >0.67 None 0.58
Species
composition,
nearfield
Percent opportunists 10% 25% 0.14%

2002 OUTFALL MONITORING OVERVIEW 53
5. Fish and Shellfish
Background 
MWRA monitors fish and shellfish because of concerns for public health
and because some fish and shellfish species are good indicators of effects
of pollutants on overall marine health (Table 5-1). The fish and shellfish
industry is an important part of the regional identity and economy of
Massachusetts. Concerns have been expressed that the relocation of
sewage effluent into the relatively clean waters of Massachusetts Bay
could result in chemical contamination of the fisheries, rendering them
unfit for human consumption. Another concern about relocating sewage
effluent offshore, into relatively clean waters, is that contaminants could
adversely affect resource species through direct damage to the fishery
stocks. 
Table 5-1. Monitoring questions related to fish and shellfish 
Is it safe to eat fish and shellfish? 
Will toxic chemicals accumulate in the edible tissues of fish and shellfish, and thereby
contribute to human health problems? 
ƒ Has the level of contaminants in the tissues of fish and shellfish around the
outfall changed since discharge began? 
ƒ Do the levels of contaminants in the edible tissue of fish and shellfish around
the outfall represent a risk to human health? 
ƒ Are the contaminant levels in fish and shellfish different between outfall,
Boston Harbor, and a reference site? 
Are natural/living resources protected? 
Will fish and shellfish that live near or migrate by the diffuser be exposed to elevated
levels of some contaminants, potentially contributing to adverse health in some
populations? 
ƒ Has the level of contaminants in the tissues of fish and shellfish around the
outfall changed since discharge began? 
ƒ Are the contaminant levels in fish and shellfish different between the outfall,
Boston Harbor, and a reference site? 
ƒ Are the contaminant levels in fish and shellfish different between outfall,
Boston Harbor, and a reference site? 
ƒ Has the incidence of disease and/or abnormalities in fish or shellfish
changed? 
Because many toxic contaminants adhere to particles, animals that live on
the bottom, in contact with sediments, and animals that eat bottom-
dwelling organisms are most likely to be affected. Exposure to
contaminated sediments could result in fin erosion, black gill disease, or
other, subtler, abnormalities in flounder, lobster, or other bottom-dwelling
animals. Shellfish that feed by filtering suspended matter from large
volumes of water are also potential bioaccumulators of toxic
contaminants. These shellfish are themselves resource species and are

2002 OUTFALL MONITORING OVERVIEW 54 
prey to other fisheries species. Consumption of these animals by predators
could result in transferring contaminants up the food chain and ultimately
to humans. 
Monitoring Design 
The monitoring program focuses on three indicator species: winter
flounder, lobster, and blue mussel (Figure 5-1). Winter flounder and
lobster are important resource species in the region. The blue mussel is
also a fishery species and, when deployed in caged arrays, is a common
biomonitoring organism. 
Figure 5-1. Sampling areas for fish and shellfish monitoring. (See text for
sample locations of individual species.)

2002 OUTFALL MONITORING OVERVIEW 55
Winter Flounder 
Like all flatfish, winter flounder live on and eat food from the bottom,
often lying with all but their eyes buried in the sediments. Consequently,
flounder can be exposed to contaminants directly, through contact with the
sediments, or indirectly, by ingesting contaminated prey. Flounder are
collected from five locations to obtain specimens for age determination,
gross examination of health, and liver histology: Deer Island Flats, Broad
Sound, off Nantasket Beach, the outfall site, and eastern Cape Cod Bay.
Livers are examined to quantify three types of vacuolation (centrotubular,
tubular, and focal, representing increasing severity), microphage
aggregation, biliary duct proliferation, and neoplasia or tumors. Neoplasia
and vacuolation have been associated with chronic exposure to
contaminants.
Chemical analyses of winter flounder tissues from Deer Island Flats, the
outfall site, Cape Cod Bay, Broad Sound, and Nantasket were also made
to determine tissue burden and to evaluate whether contaminant burdens
approach human health consumption limits. Chemical analyses of
composite samples of fillets and livers include PCBs, pesticides, mercury,
and lipids. Liver samples are also analyzed for PAHs, lead, silver,
cadmium, chromium, copper, nickel, and zinc. 
Lobster 
Lobsters live on a variety of surfaces within the region, including mud,
sand, gravel, and rock outcrops. Commercial lobstermen collect lobsters
for the monitoring program, with on-board scientists verifying the
sampling locations. Lobsters are taken from Deer Island Flats, the area
near the new outfall, and eastern Cape Cod Bay to determine specimen
health and tissue contaminant burden. Chemical analyses are performed
on composite samples. Meat (from the tail and claw) and hepatopancreas
are analyzed for lipids, PCBs, pesticides, and mercury. Hepatopancreas
samples are also analyzed for PAHs, lead, silver, cadmium, chromium,
copper, nickel, and zinc. 
Blue Mussel 
Like other filter feeders, blue mussels process large volumes of water and
can concentrate toxic metals and organic compounds in their tissues.
Mussels can be readily maintained in fixed cages, so they are convenient
monitoring tools. Mussels are collected from clean reference sites (which
have included Rockport, Gloucester, and Sandwich, Massachusetts and in
2002, Harpswell, Maine). They are placed in cages and deployed in
replicate arrays at as many as four sites, including Boston Inner Harbor,
Deer Island, the outfall site, and Cape Cod Bay. After a minimum
deployment of 40 days or a preferred deployment of 60 days, chemical
analyses are performed on composite samples of mussel tissue. Tissues
are analyzed for PCBs, pesticides, PAHs, lipids, mercury, and lead.

2002 OUTFALL MONITORING OVERVIEW 56 
Results
Winter Flounder 
Fifty sexually mature (at least three years old) winter flounder were taken
from each of five sampling sites in April and May 2002 (Pala et al. 2003).
Each of the fish was examined for physical characteristics. Fifteen fish
from each site were designated for chemical analyses. All fish were used
for histological and age analyses.
Overall, the fish appeared healthy, with no evidence of effects of
relocating the discharge. Tumors were absent and incidence of fin erosion
was low. As in previous years, the milder centrotubular hydropic
vacuolation (CHV) was the most common form of vacuolation.
The increase in CHV prevalence at Deer Island Flats that had been
detected in 2000 and 2001 was not sustained, while prevalence at the
outfall site rose from a low in 2001 to a level approximately the same as
the baseline mean (Figure 5-2). 
Figure 5-2. Prevalence of centrotubular hydropic vacuolation (CHV) normalized for age
(DIF = Deer Island Flats, OS = Outfall Site, ECCB = Eastern Cape Cod Bay, NB =
Nantasket Beach, and BS = Broad Sound) 
Hydropic vacuolation index (HV %/Age) for each station in each year
0
2
4
6
8
10
12
14
16
18
1990 1991 1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002 2003
Year
H ydropic vacuolatio n/ M ean age
DIF
OS
EC C B
NB
BS
Outfall S tartup

2002 OUTFALL MONITORING OVERVIEW 57 
Body burdens of organic contaminants in edible tissues were similar to
burdens in previous years, and no response to the relocated outfall was
detected (Figure 5-3). No concentrations of contaminants in flounder
fillets taken from the outfall site were significantly different from those
taken during baseline monitoring. Concentrations of contaminants in
flounder livers were also within the baseline ranges. 
Figure 5-3. Selected contaminant concentrations in flounder fillets and livers. (DIF = Deer
Island Flats, OS = Outfall Site, BS = Broad Sound, NB = Nantasket Beach, and ECCB = Eastern
Cape Cod Bay) 
Lobster 
Fourteen lobsters from Deer Island Flats and fifteen from each of the other
stations, the outfall site and eastern Cape Cod Bay, were purchased from
commercial lobstermen in 2002 (Pala et al. 2002). The lobsters were
approximately the same size at all sites, but those from eastern Cape Cod
Bay weighed about 100 g less. Only males were collected at eastern Cape
Cod Bay and mostly females were taken at the other two sites. No gross
abnormalities were noted in any of the lobsters collected during 2002.
As in previous years, contaminant concentrations in lobster meat were
low, and no effects of relocating the outfall were detected. For most
contaminants, concentrations fell below the baseline range. Similarly, 
Total PC B in Flounder Fillets 1992-2002
0
100
200
300
400
500
600
700
800
1992 1 993 1 994 1 995 19 96 19 97 19 98 199 9 200 0 200 1 200 2
Year
ng/g dry weight 
DIF
OS
EC CB
NB
BS
Outfa ll Startup 
Total D DT in Floun der Fillets 1992-2002
0
10
20
30
40
50
60
70
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
ng/g dry weight 
DIF
OS
ECCB
NB
BS
Outfall Startup 
Total PCB in Flounder Livers 1992-2002
0
2,00 0
4,00 0
6,00 0
8,00 0
10,00 0
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
ng/g dry weight 
DIF
OS
ECCB
NB
BS
Ou tfall Startup 
Total DD T in Flounder Livers 1992-2002
0
10 0
20 0
30 0
40 0
50 0
60 0
70 0
80 0
90 0
100 0
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
ng/g dry weight 
DIF
O S
ECCB
NB
BS
O utfall Sta rtup

2002 OUTFALL MONITORING OVERVIEW 58 
concentrations of contaminants in lobster hepatopancreas were low, with
most results being well within the baseline range (Figure 5-4). 
Figure 5-4. Selected contaminants concentrations in lobster hepatopancreas. (DIF = Deer
Island Flats, OS = Outfall Site, and ECCB = Eastern Cape Cod Bay) 
Blue Mussel 
Full mussel arrays were recovered after 40 and 60 days (Pala et al. 2002).
Survival was high, ranging from 98 to 100% for both 40- and 60-day
deployments.
Historically, the Boston Inner Harbor and Deer Island sites have shown
the highest concentrations of contaminants, and the Cape Cod Bay and
outfall sites were the lowest. Overall, the inner harbor site still shows the
greatest degree of bioaccumulation (Figure 5-5). 
Total PCB in Lobster Hepatopancreas 1992-2002
0
2,000
4,000
6,000
8,000
10,000
12,000
14,000
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
ng/g dry weight 
DIF
OS
ECCB
Outfall Startup 
Total DD T in Lobster Hepato pancreas 1992-2002
0.00
2 00.00
4 00.00
6 00.00
8 00.00
1,0 00.00
1,2 00.00
1,4 00.00
1,6 00.00
1,8 00.00
2,0 00.00
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
ng/g dry weight 
DIF
OS
ECCB
Outfall Startup 
Silver in L obster Hepatopancreas 1992-2002
0
10
20
30
40
50
60
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
ug/g dry weight 
DIF
O S
ECCB
O utfall Startup 
C opper in Lobster Hepatopancreas 1992-2002
0
20 0
40 0
60 0
80 0
100 0
120 0
140 0
160 0
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
ug/g dry weight 
D IF
O S
ECCB
O utfall Startu p

2002 OUTFALL MONITORING OVERVIEW 59 
Figure 5-5. Selected contaminant concentrations in mussels. (IH = Inner Harbor, DIL =
Deer Island Light, OS = Outfall Site, CCB = Cape Cod Bay) 
Total PAH s in M ussels 1991-2002
0
500
1000
1500
2000
2500
3000
3500
4000
1991 1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
ng/g dry weight
P redeployment
IH
D IL
O S
C CB
O utfall Startup
Total Chlordane in Mussels 1991-2002
0
10
20
30
40
50
60
1991 1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
ng/g dry w eight
Predeployment
IH
D IL
O S
C CB
O utfall Startup
Total PCB in Mussels 1991-2002
0
100
200
300
400
500
600
700
800
900
1991 1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
ng/g dry w eight
P redeployment
IH
D IL
O S
C CB
O utfall Startup

2002 OUTFALL MONITORING OVERVIEW 60 
Contingency Plan Thresholds 
Threshold parameters for fish and shellfish include levels of toxic
contaminants in flounder, lobster, and mussels and liver disease in
flounder (Table 5-2). Some thresholds are based on U.S. Food and Drug
Administration (FDA) limits for maximum concentrations of specific
contaminants in edible portions of food. Others are based on the baseline
monitoring. 
Table 5-2. Contingency plan baseline, threshold, and 2002 values for fish and shellfish
monitoring 
Parameter
Type/
Location
Parameter Baseline Caution
Level
Warning
Level
2002
Results
PCB 0.033 ppm 1 ppm wet weight 1.6 ppm wet
weight 0.024 ppm Flounder
tissue
nearfield Mercury 0.074 ppm 0.5 ppm wet
weight
0.8 ppm wet
weight 0.065 ppm
Chlordane 242 ppb 484 ppb None 73.7 ppb
Dieldrin 63.7 ppb 127 ppb None 10.6 ppb
Flounder
tissue, lipid
normalized,
nearfield DDT 775.9 ppb 1552 ppb None 254 ppb
Flounder
nearfield
Liver disease
(CHV) 24.4% 44.9% None 24%
PCB 0.015 ppm 1 ppm wet weight 1.6 ppm wet
weight 0.0086 ppm
Lobster tissue
nearfield Mercury 0.148 ppm 0.5 ppm wet
weight
0.8 ppm wet
weight 0.113 ppm
Chlordane 75 ppb 150 ppb None 48.1 ppb
Dieldrin 161 ppb 322 ppb None 132 ppb
Lobster
tissue, lipid
normalized,
nearfield DDT 341.3 ppb 683 ppb None 289 ppb
PCB 0.011 ppm 1 ppm wet weight 1.6 ppm wet
weight 0.0084 ppm
Lead 0.415 ppm 2 ppm wet weight 3 ppm wet
weight 0.33 ppm
Mussel tissue
nearfield
Mercury 0.019 ppm 0.5 ppm wet
weight
0.8 ppm wet
weight 0.023 ppm
Chlordane 102.3 ppb 205 ppb None
210 ppb,
caution level
exceedance
Dieldrin 25 ppb 50 ppb None 25.6 ppb
DDT 241.7 ppb 483 ppb None 223 ppb
Mussel tissue,
lipid
normalized,
nearfield
PAH 1080 ppb 2160 ppb None
3140 ppb,
caution level
exceedance

2002 OUTFALL MONITORING OVERVIEW 61 
During 2002, the caution thresholds for PAHs and chlordane were
exceeded in mussels. Similar exceedances in 2001 had prompted
evaluation of treatment plant operations, the mussel deployments, and the
chemical analyses (Hunt et al. 2002c). The review found that the
exceedances did not represent a problem with the discharge, rather that the
initial expectations of mussel uptake were based on outdated information,
and that the chlordane and PAH concentrations did not present a risk to
human health or marine organisms. Even in the undiluted effluent,
concentrations of chlordane were, at most, near the water quality criteria
for marine receiving waters.
A focus group was convened to evaluate the 2001 and 2002 threshold
exceedances. That panel concluded that the chlordane and PAH
concentrations measured in the mussels were very low (OMSAP 2003).

2002 OUTFALL MONITORING OVERVIEW 62
6. Special Studies
Background 
Besides monitoring the effluent and the water column, sea floor, and fish
and shellfish in Massachusetts Bay and the surrounding area, MWRA
conducts special studies in response to specific permit requirements,
scientific questions, and public concerns. During 2002, MWRA continued
to monitor water quality in Boston Harbor, study nutrient cycling in
Boston Harbor and Massachusetts Bay, and make observations of marine
mammals. As directed by the 2001 contingency plan (MWRA 2001),
MWRA conducted an evaluation of zooplankton communities. Also,
MWRA began to prepare for refocusing the monitoring program onto the
potential for long-term effects. 
Improved Water Quality in Boston Harbor 
Since 1993, MWRA has monitored the recovery of Boston Harbor in
response to the Boston Harbor Project (Taylor 2003). Ten stations within
the harbor have been sampled weekly from May through October and
once every two weeks from November through April. Table 6-1 and
Figure 6-1 summarize the changes in the harbor during the two years since
effluent discharge to the harbor was ended.
During those two years, there have been significant reductions in average
concentrations of nitrogen, phosphorus, and the molar ratios of nitrogen to
phosphorus. Nitrogen concentrations decreased more than phosphorus,
and for all three variables, the decreases were larger in the dissolved
inorganic fraction. The decreases were significant for the harbor as a
whole and for all ten individual stations.
During the first year after diversion, there was a significant decrease in
chlorophyll, a measure of phytoplankton biomass. That change was not
sustained in the second year, when chlorophyll concentrations did not
differ from the baseline. At two stations in the outer harbor,
concentrations were significantly elevated during a localized bloom of
centric diatoms that occurred during the spring of 2002.
Increases in midsummer bottom-water dissolved oxygen compared to the
baseline were detected in 2001 and were more pronounced in 2002. In
2002, improvements were significant throughout the harbor, and percent
dissolved oxygen saturation was also significantly elevated.

2002 OUTFALL MONITORING OVERVIEW 63 
Salinity was also slightly elevated over baseline levels, particularly in
2002 when drought conditions prevailed. This increase was in the same
order as had been predicted and was significant at nine of the ten stations
sampled. 
Table 6-1. Significant changes in the water column during the first and second years
following discharge. (Solid arrows indicate that changes were significant at all stations;
hollow arrows indicate that changes were significant only at specific stations; black
arrows indicate that the changes can be considered improvements.TN=total nitrogen;
DIN=dissolved inorganic nitrogen; TP=total phosphorus; Chl-a=chlorophyll a;
PC=particulate organic carbon; k=light attenuation coefficient; DO=dissolved oxygen.)

2002 OUTFALL MONITORING OVERVIEW 64 
Figure 6-1. Spatial patterns of changes in the water column during the first and second
years after transfer of discharge from Boston Harbor to Massachusetts Bay. (Shaded
areas enclose stations at which changes were significant.)

2002 OUTFALL MONITORING OVERVIEW 65
Nutrient Flux 
One public concern about the outfall was that diversion of effluent from
Boston Harbor to Massachusetts Bay might increase loads of organic
matter to the nearfield, enhancing benthic respiration and nutrient fluxes.
Higher rates of benthic respiration or sediment oxygen demand might lead
to lower levels of oxygen in the sediments and the water column. The
monitoring plan (MWRA 1991) required that MWRA measure the rates of
denitrification, sediment oxygen demand, and the flux of nutrients in the
vicinity of the outfall and assess the importance of these processes on
nutrient and oxygen levels (Table 6-2). 
Table 6-2. Monitoring questions related to nutrient flux 
Are natural/living resources protected? 
How do the sediment oxygen demand, the flux of nutrients from the sediment to the
water column, and denitrification influence the levels of oxygen and nitrogen in the
water near the outfall?
Have the rates of these processes changed? 
ƒ Will increased water-column and benthic respiration contribute to depressed
oxygen levels in the water? 
ƒ Will increased water-column and benthic respiration contribute to depressed
oxygen levels in the sediment? 
ƒ Will enrichment of organic matter contribute to an increase in benthic
respiration and nutrient flux to the water column? 
MWRA has been monitoring the sediment-water interface since 1992. In
2002, studies were conducted at four sites in the harbor, three sites in the
nearfield, and one site in Stellwagen Basin (Tucker et al. 2003). In the
years since the outfall came on line, MWRA has detected no changes that
could be attributed to the organic matter enrichment at the nearfield or in
Stellwagen Basin. Rates of benthic respiration and nutrient fluxes have
been well within the baseline ranges.
There have been small, but inconsistent, changes in measures of sediment
organic matter. Organic matter content in surface sediments in the
nearfield has increased since the outfall began operation, but has remained
within the baseline range. Small increases in total organic carbon at the
farfield station included in the study suggest that the changes may be
region-wide rather than related to the outfall.
While little or no change has been detected in Massachusetts Bay, positive
changes have been evident in Boston Harbor. Decreases in total organic
carbon have been measured at some stations. Sediment chlorophyll
concentrations decreased at two harbor stations in 2002. At three stations,
sediment oxygen demand and nutrient fluxes were lower than at any
previous time during the monitoring period, and large variability among
harbor stations had essentially vanished. These changes, along with the
water quality data, reflect the ongoing recovery of Boston Harbor
following the diversion of effluent discharge.

2002 OUTFALL MONITORING OVERVIEW 66 
Marine Mammal Observations 
Several endangered or threatened species of whales and turtles visit
Massachusetts and Cape Cod bays, including the right, humpback,
finback, sei, and blue whales. Marine mammals that are not endangered
or threatened also occur, including the minke whale, harbor porpoise, gray
seal, harbor seal, and several species of dolphins.
Since 1995, MWRA has included endangered species observers on
monitoring surveys. In 2002, observers were included on 29 surveys
(McLeod et al. 2003). Besides providing observational data, the presence
of trained marine mammal observers addresses a request by the National
Marine Fisheries Service (NMFS) that MWRA take active steps to
minimize the chances of a collision of one of its survey vessels with a
right whale.
During the 2002 surveys, 16-18 individual whales, 4 harbor porpoise, and
10-13 Atlantic white-sided dolphins were directly observed by the trained
observers and other members of the monitoring team. The total number of
whales sighted during 2001 and 2002 is lower than in earlier years.
Although the MWRA program is not designed to be able to detect
differences among years, the Whale Center of New England sighting
records showed that numbers of humpback and minke whales in
Massachusetts Bay were low in 2002. Surveys conducted by the Center
for Coastal Studies indicated that abundance of right whales was lower
and duration of stay was shorted in 2002 than in recent years, but not as
low as 1999, a pre-discharge year (Brown et al. 2002). 
Plankton Studies 
Another concern about the effluent discharge into Massachusetts Bay was
that it would adversely change the zooplankton community. A change in
zooplankton abundance or community parameters could alter the food web
in the bays (MWRA 1991, Table 6-3). 
Table 6-3. Monitoring questions related to zooplankton 
Are natural/living resources protected? 
Will nutrient enrichment in the water column contribute to changes in plankton
community structure? 
ƒ Has the species composition of phytoplankton or zooplankton changed in
the vicinity of the outfall or at selected farfield stations in Massachusetts Bay
or Cape Cod Bay? If so, can these changes be correlated with effluent or
ambient water nutrient concentrations, or can farfield changes be correlated
with nearfield changes? 
Initially, MWRA planned for a contingency plan threshold that would
monitor a shift in the community from species typically found in offshore

2002 OUTFALL MONITORING OVERVIEW 67 
habitats to those found inshore (MWRA 1997a, 1997b). Specifically, a
threshold was developed to measure an increase in two species of
copepods, Acartia hudsonica and Acartia tonsa , which were abundant in
Boston Harbor but not present in the bays.
Subsequent research found, however, that presence of the two Acartia 
species would not be a good indicator of nutrient enrichment in the bays.
The two species are restricted to harbors and estuaries not because of a
competitive advantage in a nutrient-rich environment but because their
development requires a lower salinity environment.
Therefore, in the revised contingency plan (MWRA 2001), EPA and
MADEP approved deletion of the existing zooplankton threshold and
directed MWRA to prepare a report on zooplankton populations that
evaluated whether an appropriate new threshold could be developed. As
part of this evaluation, OMSAP recommended analyzing data spatially and
temporally to contrast the northern boundary stations with those in Cape
Cod Bay. The idea, dubbed the “conveyor belt hypothesis,” was that a
population of zooplankton would be advected into Massachusetts Bay at
the northern boundary, transported through the nearfield (potentially being
affected by nutrients) and ultimately arrive in Cape Cod Bay. A
sequential timing of peaks in zooplankton species could reflect this
conveyer belt system of transport.
MWRA used graphical analyses to examine seasonal variations and the
conveyer belt hypotheses, principal components analyses to evaluate
biotic and abiotic variables, and cluster analyses to compare similarities
among samples and species (Kropp et al. 2003).
The graphical analyses did not confirm a link between abundance at the
northern boundary and in Cape Cod Bay that would support the conveyer
belt hypothesis. No large-scale transport of species from north to south
was detected.
The principal components analyses found that temperature is probably the
most important abiotic factor affecting the zooplankton community in
Massachusetts Bay. Dissolved oxygen concentrations also influenced the
community, but other abiotic factors, including salinity, fluorescence, and
transmissivity, did not.
Cluster analyses indicated that zooplankton populations in the harbor
differed from those in Massachusetts Bay and that the nearfield and Cape
Cod Bay were similar. An analysis of nearfield stations showed no
difference between pre- and post-discharge samples. Samples from the
fall of 2002 were different from all others, reflecting the decimation of
populations by ctenophores.

2002 OUTFALL MONITORING OVERVIEW 68 
Overall, the report found that the zooplankton communities throughout the
region responded simultaneously to large-scale factors rather than
individually to local events. No meaningful threshold that would measure
effects of nutrient enrichment from the outfall on zooplankton population
in the nearfield or the farfield could be recommended. 
Revisions to the Monitoring Plan 
At the end of 2002, MWRA had completed nearly ten years of baseline
monitoring, which provided abundant data to use in evaluating possible
effects of the outfall, and two years of post-discharge monitoring, which
have documented minimal short-term effects of the relocated discharge.
The years of data have also provided a resource for evaluating the
effectiveness and efficiency of sampling designs. Therefore, following
National Research Council recommendations and the MWRA monitoring
plans (NRC 1990, MWRA 1991, 1997a), MWRA began to review the
program and to refocus it on the detection of potential for long-term
chronic effects.
Changes have been suggested for the water column, sea floor, and fish and
shellfish portions of the program. These plans were presented to OMSAP
at a series of meetings that took place in 2003 (MWRA 2003a, 2003b,
2003c); OMSAP voted to endorse the proposed changes. 
Water Column 
MWRA has proposed no changes to the farfield monitoring program, but
does propose changes in the nearfield program. Stations at which only
hydrocast and dissolved nutrients have been measured would be dropped,
leaving 7 of the 21 existing nearfield stations. MWRA has also proposed
dropping 5 of the 17 surveys. Surveys would continue to be conducted in
February, February/March, March, April, May, June, July, August, early
and late September, and early and late October. 
Sea Floor 
MWRA has proposed changes in sediment contaminant and benthic
infauna studies, with no changes to the sediment profile imaging studies
and minor refinements to the hard-bottom assessments. Annual
contaminant sampling and analyses would continue at the two
USGS/MWRA stations, and sediment trap samples would continue to be
analyzed for effluent tracers. Contaminant sampling and analysis at other
stations would be decreased to once every third year. Annual sediment
infauna samples would continue to be taken and analyzed at the two
USGS/MWRA stations. Other stations would be randomly split into two
subsets, and each subset would be monitored in alternate years.

2002 OUTFALL MONITORING OVERVIEW 69
Fish and Shellfish 
Monitoring results have shown that there have been no short-term changes
in flounder health, flounder contaminant body burdens, or lobster body
burdens at the outfall site. With the exception of PAHs and chlordanes, no
changes in mussels deployed at the outfall have been measured, and the
PAH and chlordane results do not pose a public health risk. MWRA
therefore has proposed to focus on long-term changes, with individual
stations being sampled every several years. Annual monitoring would
continue to include flounder liver histology at core sites. Sampling for
contaminant levels would occur once every three years for all three
species.

2002 OUTFALL MONITORING OVERVIEW 70
7. Stellwagen Bank
National Marine Sanctuary
Background 
The Gerry E. Studds Stellwagen Bank National Marine Sanctuary
comprises 842 square miles located at the boundary of Massachusetts Bay
and the rest of the Gulf of Maine. Its boundaries lie approximately 25
miles east of Boston, three miles north of Provincetown, and three miles
south of Gloucester. Stellwagen Basin, which is partially within the
sanctuary, is the deepest part of Massachusetts Bay and a long-term sink
for fine-grained sediments. Stellwagen Bank, a sand-and-gravel plateau,
lies to the east of Stellwagen Basin and has water depths of about 65 feet.
Tidal mixing of nutrients throughout the relatively shallow water column
create a rich habitat for marine life on Stellwagen Bank.
The MWRA permit recognizes concerns about possible effects of the
outfall on the sanctuary and requires an annual assessment of those
possible effects. 
Monitoring Design 
MWRA’s regular water-column and sea-floor monitoring programs
include stations within and near the sanctuary. Five water-column
stations, including four within the sanctuary and one just outside the
northern border are considered “boundary” stations, that is, they mark the
boundary between Massachusetts Bay and the rest of the Gulf of Maine.
These stations are important to MWRA, not just because of their location
within a marine sanctuary, but also because water column processes
within Massachusetts Bay are largely driven by the regional processes in
the Gulf of Maine. Eight water-column stations located between the
sanctuary and the coast are considered “offshore” stations by the MWRA
program.
In 2001 and 2002, the sanctuary managers, in conjunction with MWRA’s
contractor Battelle, developed a supplemental monitoring program, which
added four stations to the August and October MWRA surveys (Figure 7-
1). These sites were selected to provide a more comprehensive evaluation
of water quality across the sanctuary and to increase the understanding of
the potential effects of the relocated outfall (Hunt et al. 2003).

2002 OUTFALL MONITORING OVERVIEW 71 
Figure 7-1. Water column stations, including the additional Stellwagen Bank
National Marine Sanctuary (SBNMS) stations sampled in August and October
2001 and 2002 
Two MWRA sea-floor stations are within the sanctuary, one at the
southern boundary and one within Stellwagen Basin (see Figure 4-2). A
third sea-floor station is just north of the sanctuary boundary and a fourth
station is located outside the sanctuary, but within Stellwagen Basin.
These four stations are the deepest of those included in the MWRA
monitoring program and have similar properties, with muddy sediments
and moderate total organic carbon concentrations. The station north of the
sanctuary and the one within Stellwagen Basin are east or northeast of the
outfall, outside the circulation pattern that transports diluted effluent south

2002 OUTFALL MONITORING OVERVIEW 72 
and southeastward in Massachusetts Bay. These stations are sampled
annually in August. 
Results
Water Column 
Overall, water quality within the sanctuary was excellent during 2002,
with no indication of any effects of the MWRA outfall. Elevated
concentrations of ammonia were measured at offshore and boundary
stations in October. Currents at the time were not transporting water
masses from the outfall to offshore, and phosphate concentrations did not
follow the same pattern, so the elevated ammonia concentrations were not
likely to be associated with the outfall.
Mean concentrations of dissolved oxygen in bottom waters of Stellwagen
Basin were within the baseline ranges and somewhat higher than those
found in the nearfield, typical of the pattern observed throughout baseline
monitoring. The survey minimum concentration measured in Stellwagen
Basin in 2002 was 7.01 mg/l, well above the 6.2 mg/l contingency plan
background (Figure 7-2). The survey minimum percent saturation was
75.1%, above the 66.3% contingency plan background. 
Figure 7-2. Survey mean dissolved oxygen concentrations in Stellwagen Basin,
baseline mean and range and post discharge years, 2001 and 2002 
5
6
7
8
9
10
11
12
13
Jan Feb M ar Apr M ay Jun Jul Aug Sep Oct N ov Dec
DO (m g L -1 ) 
Baseline
Range
Baseline M ean
2001
2002

2002 OUTFALL MONITORING OVERVIEW 73 
As in previous years, levels of nutrients and chlorophyll within the
sanctuary were at the upper end but not significantly different from levels
at other monitoring stations, and no changes could be attributed to the
outfall (Figure 7-3). 
Figure 7-3. Survey mean nitrate and chlorophyll in and near the Stellwagen
Bank National Marine Sanctuary (Stations F27, F28, F12) and other regions of
Massachusetts and Cape Cod bays, 1992-2002 
0
1
2
3
4
5
6
7
8
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
NO 3 ( μ M)
S B N MS
N e arfie ld
C a pe C od
O utfall S ta rtup
0
20
40
60
80
100
120
140
160
180
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
Chlorophyll (m g m -2 )
S B N M S
N e arfie ld
C a pe C od
O utfall S ta rtup

2002 OUTFALL MONITORING OVERVIEW 74
Sea Floor 
No changes in concentrations of sewage tracers or sewage-related
contaminants were observed in the sediments from stations within the
sanctuary, and there were no changes in community parameters in 2002
(Maciolek et al. 2003). Contaminant concentrations in the sediments
remained consistently low. For example, PCB concentrations in
sediments in 2002 were similar to or lower than those measured in 1995.
Concentrations of Clostridium perfringens spores remained at or below
levels measured in the early 1990s.
Benthic community parameters at individual stations showed no pattern of
change following start-up of the outfall in 2000 (Figure 7-4). Overall, the
number of species per sample increased during 1995-1998, paralleling
results from throughout Massachusetts Bay. At Station FF14, number of
individuals and species decreased, while at FF11, number of species
increased. No consistent pattern could be related to outfall operation. 
Figure 7-4. Abundance of individuals at stations within the boundary region,
1992-2002 
All four deep-water stations, both in and outside the sanctuary, continued
to support a distinct infaunal community with recognizable differences
from communities in the nearfield or Cape Cod Bay. 
SBNMS B enthic Stations
0
50 0
100 0
150 0
200 0
250 0
300 0
350 0
400 0
1992 199 3 199 4 199 5 199 6 199 7 19 98 19 99 200 0 20 01 20 02
Year
Abundance (individuals/sam ple)
FF05
FF04
FF14
FF11
O utfall Startup
5650

2002 OUTFALL MONITORING OVERVIEW 75
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2002 OUTFALL MONITORING OVERVIEW 80
List of Acronyms 
BOD Biochemical oxygen demand
BS Broad Sound
cBOD Carbonaceous biochemical oxygen demand
CCB Cape Cod Bay
CHV Centrotubular hydropic vacuolation
C-NOEC Chronic test, no observable effect concentration
CSO Combined sewer overflow
DIF Deer Island Flats
DIL Deer Island Light
DIN Dissolved inorganic nitrogen
DIP Dissolved inorganic phosphorus
DO Dissolved oxygen
ECCB Eastern Cape Cod Bay
EPA U.S. Environmental Protection Agency
FDA U.S. Food and Drug Administration
GoMOOS Gulf of Maine Ocean Observation System
HMW High molecular weight
IAAC Inter-agency Advisory Committee
IH Inner Harbor
LC50 50% mortality concentration
LMW Low molecular weight
MADEP Massachusetts Department of Environmental Protection
MGD Million gallons per day
MWRA Massachusetts Water Resources Authority
NB Nantasket Beach
NMFS National Marine Fisheries Service
NOEC No observable effect concentration
NPDES National Pollutant Discharge Elimination System
OMSAP Outfall Monitoring Science Advisory Panel
OMTF Outfall Monitoring Task Force
OS Outfall site
PAH Polycyclic aromatic hydrocarbon
PC Particulate carbon
PCB Polychlorinated biphenyl
PIAC Public Interest Advisory Committee
RPD Redox potential discontinuity
PSP Paralytic shellfish poisoning
SBNMS Stellwagen Bank National Marine Sanctuary
SEIS Supplemental Environmental Impact Statement
TN Total nitrogen
USGS U.S. Geological Survey
TOC Total organic carbon
TSS Total suspended solids

Massachusetts Water Resources Authority
Charlestown Navy Yard
100 First Avenue
Boston, MA 02129
(617) 242-6000
http://www.mwra.com

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