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2001 overview

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2001
Outfall monitoring overview
Massachusetts Water Resources Authority
Environmental Quality Department
Report ENQUAD 2002-18

Citation:
Werme C, Hunt CD. 2002. 2001 Outfall monitoring overview. Boston:
Massachusetts Water Resources Authority. Report ENQUAD 2002-18. 84p.

2001
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 1, 2002

2001 OUTFALL MONITORING OVERVIEW I
Table of Contents 
Table of Contents............................................................................................................................. i
List of Figures ................................................................................................................................ iii
List of Tables .................................................................................................................................. v
Summary....................................................................................................................................... vii
1. Introduction................................................................................................................................. 1
Background ................................................................................................................................. 1
Outfall Permit.............................................................................................................................. 3
Monitoring Program.................................................................................................................... 4
Contingency Plan ........................................................................................................................ 5
Data Management ....................................................................................................................... 8
Reporting..................................................................................................................................... 8
Outfall Monitoring Overview ..................................................................................................... 9
2. Effluent ..................................................................................................................................... 10
Background ............................................................................................................................... 10
Pollution Prevention and Wastewater Treatment ................................................................. 10
Environmental Concerns....................................................................................................... 10
Monitoring Design .................................................................................................................... 11
Results....................................................................................................................................... 13
Contingency Plan Thresholds ................................................................................................... 15
3. Certification of the Outfall........................................................................................................ 19
Background ............................................................................................................................... 19
Monitoring Design .................................................................................................................... 20
Results....................................................................................................................................... 21
Outfall Certification .............................................................................................................. 21
Plume Structure and Transport ............................................................................................. 25
4. Water Column........................................................................................................................... 26
Background ............................................................................................................................... 26
Circulation and Water Properties.......................................................................................... 26
Environmental Concerns....................................................................................................... 28
Monitoring Design .................................................................................................................... 29
Results....................................................................................................................................... 31
Physical Conditions .............................................................................................................. 31
Water Quality........................................................................................................................ 33
Phytoplankton Communities................................................................................................. 39
Zooplankton Communities.................................................................................................... 40
Contingency Plan Thresholds ................................................................................................... 40
5. Sea Floor ................................................................................................................................... 43
Background ............................................................................................................................... 43
Bottom Characteristics and Sediment Transport .................................................................. 43
Environmental Concerns....................................................................................................... 43

2001 OUTFALL MONITORING OVERVIEW II 
Monitoring Design .................................................................................................................... 46
Results....................................................................................................................................... 48
Sediment Contaminants ........................................................................................................ 48
Sediment Profile Imaging ..................................................................................................... 49
Soft-bottom Communities..................................................................................................... 50
Hard-bottom Communities ................................................................................................... 52
Contingency Plan Thresholds ................................................................................................... 53
6. Fish and Shellfish...................................................................................................................... 55
Background ............................................................................................................................... 55
Monitoring Design .................................................................................................................... 55
Results....................................................................................................................................... 58
Winter Flounder .................................................................................................................... 58
Lobster .................................................................................................................................. 59
Blue Mussel .......................................................................................................................... 59
Contingency Plan Thresholds ................................................................................................... 60
7. Special Studies .......................................................................................................................... 64
Background ............................................................................................................................... 64
Improved Water Quality in Boston Harbor .............................................................................. 64
Nutrient Flux............................................................................................................................. 66
Marine Mammal Observations ................................................................................................. 67
Modeling ................................................................................................................................... 69
USGS Sediment Studies ........................................................................................................... 69
8. Stellwagen Bank National Marine Sanctuary........................................................................... 72
Background ............................................................................................................................... 72
Monitoring Design .................................................................................................................... 72
Results....................................................................................................................................... 74
Water Column....................................................................................................................... 74
Sea Floor ............................................................................................................................... 76
References..................................................................................................................................... 80
List of Acronyms .......................................................................................................................... 84

2001 OUTFALL MONITORING OVERVIEW III
List of Figures 
Figure 1-1. Map of Massachusetts and Cape Cod bays .................................................................. 2
Figure 2-1. Annual effluent flow ................................................................................................. 13
Figure 2-2. Annual solids, nitrogen, and metals discharges ......................................................... 14
Figure 2-3. Monthly average TSS and monthly BOD from 1994-2001 ....................................... 15
Figure 2-4. Acute and chronic toxicity test results for 2001......................................................... 17
Figure 2-5. Daily and weekly geometric mean fecal coliform counts.......................................... 18
Figure 3-1. A scale model was used to optimize the design of the MWRA diffuser, which is
made up of a series of 8-port risers............................................................................................... 19
Figure 3-2. Cross-section view of dilution measured during the first and second hydraulic mixing
surveys .......................................................................................................................................... 22
Figure 3-3. Vessel track lines and dye concentrations measured during the three hydraulic mixing
surveys. ......................................................................................................................................... 23
Figure 3-4. Instantaneous and low-pass-filtered dilution ............................................................. 24
Figure 3-5. Transport of the plume over two survey days............................................................ 25
Figure 4-1. General circulation on Georges Bank and in the Gulf of Maine during the summer,
stratified season............................................................................................................................. 26
Figure 4-2. Nearfield sampling stations........................................................................................ 29
Figure 4-3. Farfield geographic regions and sampling stations.................................................... 30
Figure 4-4. Above: Charles River discharge, 1990-2001; Below: 2001 discharge compared to
the12-year historic mean............................................................................................................... 32
Figure 4-5. Nearfield surface and bottom water temperature and salinity, 1992-2001 ................ 33
Figure 4-6. Above: 2001 nearfield ammonia concentrations compared to baseline range and
mean; Below: annual mean ammonia concentrations in Massachusetts Bay regions .................. 34
Figure 4-7. Above: 2001 nearfield nitrate concentrations compared to baseline range and mean;
Below: annual mean nitrate concentrations in Massachusetts Bay regions................................. 35
Figure 4-8. 2001 nearfield phosphate compared to baseline range and mean .............................. 36
Figure 4-9. Above: 2001 nearfield chlorophyll concentrations compared to baseline range and
mean; Below: annual mean chlorophyll concentrations in Massachusetts Bay regions............... 37
Figure 4-10. Above: 2001 nearfield dissolved oxygen concentrations compared to baseline range
and mean; Below: Stellwagen Basin dissolved oxygen concentrations compared to baseline
range and mean ............................................................................................................................. 38
Figure 4-11. Total phytoplankton abundance by area, 1992-2001 ............................................... 39
Figure 4-12. Zooplankton abundance by area, 1992-2001 ........................................................... 40
Figure 5-1. Locations of nearfield soft-bottom stations ............................................................... 44
Figure 5-2. Locations of farfield soft-bottom stations .................................................................. 45
Figure 5-3. Locations of hard-bottom stations.............................................................................. 46
Figure 5-4. Representative sediment profile images from 2001................................................... 49
Figure 5-5. Apparent color RPD depth (cm) for all data from nearfield stations........................ 50
Figure 5-6. Abundance of species and total species per soft-bottom sample, nearfield, 1992-2001
....................................................................................................................................................... 51

2001 OUTFALL MONITORING OVERVIEW IV 
Figure 5-7. Hard-bottom survey photograph of an inactive port on Diffuser Head #2 ................ 53
Figure 6-1. Sampling areas for fish and shellfish monitoring ...................................................... 56
Figure 6-2. Prevalence of centrotubular hydropic vacuolation..................................................... 58
Figure 6-3. Locations of mussel deployments in the vicinity of the outfall site.......................... 62
Figure 7-1. Spatial patterns of nitrogen, chlorophyll, water clarity, and salinity changes in
Boston Harbor............................................................................................................................... 65
Figure 7-2. MWRA whale sightings during 2001 ........................................................................ 68
Figure 7-3. Silver and Clostridium perfringens spores in surface sediments ............................... 70
Figure 7-4. Average concentrations of metals and bacteria spores in sediment trap samples before
and after outfall start-up................................................................................................................ 71
Figure 8-1. Water column stations, including the additional Stellwagen Bank National Marine
Sanctuary stations sampled in August and October 2001............................................................. 73
Figure 8-2. Survey mean dissolved oxygen concentrations in Stellwagen Basin, 1992-2001 ..... 74
Figure 8-3. Survey mean nitrate and chlorophyll in and near the Stellwagen Bank National
Marine Sanctuary and other regions of Massachusetts and Cape Cod bays................................. 75
Figure 8-4. Representative contaminant data from stations in and near the Stellwagen Bank
National Marine Sanctuary ........................................................................................................... 77
Figure 8-5. Multidimensional scaling analyses of similarities in benthic infaunal communities in
2001............................................................................................................................................... 78
Figure 8-6. Benthic community measurements from stations in and near the Stellwagen Bank
National Marine Sanctuary ........................................................................................................... 79

2001 OUTFALL MONITORING OVERVIEW V
List of Tables 
Table 1. Summary of contingency plan thresholds and exceedances for 2001 .......................... viii
Table 1-1. Roster of panel and committee members ...................................................................... 4
Table 1-2. Summary of the monitoring program ............................................................................ 6
Table 1-3. Summary of contingency plan threshold parameters .................................................... 7
Table 1-4. Substantial revisions to the contingency plan. ............................................................. 8
Table 1-5. List of monitoring reports submitted to OMSAP .......................................................... 9
Table 2-1. Reporting requirements of the outfall permit .............................................................. 12
Table 2-2. Contingency plan threshold values and 2001 results for effluent monitoring............. 16
Table 3-1. Comparison of model predictions and plume measurements for the summer
certification survey........................................................................................................................ 24
Table 4-1. Contingency plan threshold values for water column monitoring .............................. 41
Table 5-1. No contingency plan baseline and threshold values for sea floor monitoring were
exceeded in 2001........................................................................................................................... 54
Table 6-1. 2001 mussel bioaccumulation results.......................................................................... 60
Table 6-2. Contingency plan baseline, threshold, and 2001 values for fish and shellfish
monitoring..................................................................................................................................... 61
Table 7-1. Summary of the improvements in water quality in Boston Harbor following transfer
of effluent discharge to the bay .................................................................................................... 66
Table 8-1. Issues of concern for the Stellwagen Bank National Marine Sanctuary .................... 72

2001 OUTFALL MONITORING OVERVIEW VII
Summary 
During this first full year of discharge from the Massachusetts Bay outfall, the Deer Island
treatment plant operated as designed, and the health of Massachusetts and Cape Cod bays
remained good. Total loads of many parameters measured within the effluent, including solids
and metals, declined to historic lows. The treatment plant earned the Association of
Metropolitan Sewerage Agencies Silver Award for facilities that had five or fewer permit
violations during the year.
Conditions within the bays did not change from baseline conditions. For example,
concentrations of chlorophyll in the water column remained at levels close to the baseline mean
for much of the year, rising in December during a late fall phytoplankton bloom. Concentrations
of dissolved oxygen and percent saturation were also close to the baseline mean. Conditions on
the sea floor were also unchanged from the baseline, and winter flounder health remained good.
Tumors were absent, and at the outfall, levels of precancerous conditions were the lowest
measured for the program. Concentrations of contaminants in fish and shellfish remained well
below levels of concern for human health.
There were five contingency plan exceedances during the year (Table 1). Three exceedances
occurred during effluent monitoring—one exceedance of the warning level for fecal coliform
bacteria and two exceedances of warning levels for toxicity tests. Two caution level
exceedances occurred for caged mussels deployed near the outfall.
The exceedance of a fecal coliform bacteria threshold resulted from one sample taken during a
rainstorm. Perhaps due to the storm, chlorine residual dropped suddenly and bacteria levels rose.
Staff increased the chlorine dosing rate and levels returned to normal. The toxicity test
exceedances included one failure of a sea urchin fertilization test and one failure of a fish chronic
survival test. For the sea urchin test, the results can be attributed to sub-optimal condition of the
test organisms rather than to toxicity. The fish test failure appeared to be a statistical anomaly in
the calculation of results.
Thresholds for PAH and chlordane were exceeded in mussels deployed in cages near the outfall.
MWRA has reviewed the exceedances and determined that they do not indicate cause for
environmental concern. Concentrations of PAHs and chlordane in the effluent met water quality
standards, and concentrations of contaminants in the mussels were not at levels that would pose
toxicological risks to the mussels or public health concerns to humans. Rather, it appears that the
simple formulation of a threshold set as the doubling of levels found during the baseline period
was not a realistic threshold for mussels that are caged within the effluent plume.

2001 OUTFALL MONITORING OVERVIEW VIII 
Table 1. Summary of contingency plan thresholds and exceedances for 2001. (NA = not applicable,  =
no exceedance, C = caution level exceedance, W = warning level exceedance) 
Location/
Parameter
Type
Parameter 2000 2001
Effluent
pH W  
Fecal coliform bacteria, monthly   
Fecal coliform bacteria, weekly   
Fecal coliform bacteria, daily  W 
Fecal coliform bacteria,
3 consecutive days   
Chlorine residual, daily W  
Chlorine residual, monthly   
Total suspended solids   
cBOD, weekly   
cBOD, monthly   
Acute toxicity, mysid shrimp   
Acute toxicity, fish   
Chronic toxicity, fish  W 
Chronic toxicity, sea urchin  W 
PCBs   
Plant performance   
Flow NA  
Total nitrogen load NA  
Floatables NA NA 
Oil and grease   
Water Column
Dissolved oxygen concentration C  
Nearfield bottom water Dissolved oxygen percent
saturation C  
Dissolved oxygen concentration   Stellwagen Basin bottom
water Dissolved oxygen percent
saturation   
Nearfield bottom water Dissolved oxygen depletion rate
(June-October) NA  
Annual NA  
Winter/spring NA  
Summer NA  
Nearfield chlorophyll
Autumn C  
Winter/spring NA  
Summer NA  Nearfield nuisance algae 
Phaeocystis pouchetii Autumn   
Winter/spring NA  
Summer NA  Nearfield nuisance algae 
Pseudonitzchia Autumn   
Nearfield nuisance algae 
Alexandrium tamarense Any sample  

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

2001 OUTFALL MONITORING OVERVIEW X 
Location/
Parameter
Type
Parameter 2000 2001
Chlordane NA  
Dieldrin NA  
Total DDTs NA 

2001 OUTFALL MONITORING OVERVIEW XI 
Location/
Parameter
Type
Parameter 2000 2001
Total PCBs NA  
Lead NA  
Mercury NA  
Chlordane NA C 
Dieldrin NA  
Total DDTs NA  
Nearfield mussel tissue
Total PAHs NA C 
As required by the permit, during 2001, field tests 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 do not 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.
MWRA also measured dramatic water quality improvements in Boston Harbor during 2001.
Significant decreases in nitrogen and phosphorus were found throughout the harbor. Chlorophyll
concentrations were the lowest that MWRA has measured since monitoring of the harbor began
in 1995. Improvements in water clarity and bacterial indicator levels were also observed.
No effects of the outfall on the Stellwagen Bank National Marine Sanctuary were detected.
Plume tracking, water column, and sea floor studies suggested that no effects of the outfall on the
sanctuary are likely.

2001 OUTFALL MONITORING OVERVIEW 1
1. Introduction
Background 
On September 6, 2000, the Massachusetts Water Resources Authority
(MWRA) ceased discharge of sewage effluent into Boston Harbor and
began operation of a new outfall in Massachusetts Bay. Commissioning
the outfall was the last major step towards ending long-standing violations
of the Clean Water Act, which had resulted from discharge of sewage
sludge and primary-treated effluent into Boston Harbor.
Since its creation in 1985, MWRA has worked to end these violations.
Sludge discharges ended in 1991, and MWRA has taken steps to minimize
effects of wastewater discharge. These steps 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 ongoing 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. The first and second batteries of secondary treatment began in
1997 and 1998. Also during 1998, discharge from the Nut Island
Treatment Plant into Quincy Bay ended, and all wastewater was conveyed
to Deer Island for treatment. A final battery of secondary treatment
became operational in 2001.
Better dilution has been achieved by diverting the effluent discharge from
Boston Harbor to the new outfall and diffuser system, located 9.5 miles
offshore in Massachusetts Bay (Figure 1-1). The outfall location 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.

2001 OUTFALL MONITORING OVERVIEW 2 
Figure 1-1. Map of Massachusetts and Cape Cod bays 
The outfall tunnel is bored through bedrock. It 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 (MWRA 1997a). 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.
MWRA’s goals are to make it safe to swim in the harbor, safe to eat fish
caught there, to protect marine resources, and to ensure that the harbor
becomes and remains a resource that people can aesthetically enjoy,
without degrading the offshore environment. For many of the components
of MWRA’s work, there has been little or no argument that the project

2001 OUTFALL MONITORING OVERVIEW 3 
benefits 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. The concerns have been
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 
A permit issued by EPA and MADEP under the National Pollutant
Discharge Elimination System (NPDES) regulates discharges from the
new outfall. The permit, which became effective on August 9, 2000,
limits discharges of pollutants and requires reporting on the treatment
plant operation and maintenance. It 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
the 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 is called the Outfall Monitoring Science
Advisory Panel (OMSAP, Table 1-1). OMSAP conducts peer reviews of
monitoring reports, evaluates the data, and advises EPA and MADEP on
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)
represents state and federal agencies and provides OMSAP with advice
concerning environmental regulations.

2001 OUTFALL MONITORING OVERVIEW 4 
Table 1-1. Roster of panel and committee members 
OMSAP as of December 2001 
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 2001 
Salvatore Testaverde (chair, representative of
National Marine Fisheries Service)
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 2001 
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. Some studies began during 1989-1991, in anticipation of
these requirements. A broader baseline-monitoring program began in
1992. During the intervening years, both baseline and discharge
monitoring plans have been developed and refined (MWRA 1991, 1997a).
These plans were developed by MWRA, under the direction of an Outfall
Monitoring Task Force (OMTF), made up of scientists, regulators, and
environmental advocacy groups. The OMTF was disbanded upon creation
of OMSAP in 1998.

2001 OUTFALL MONITORING OVERVIEW 5 
The outfall-monitoring program focuses on critical constituents in
treatment plant effluent, such as nutrients, organic material, toxic
contaminants, pathogens, and solids (Table 1-2). 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. This 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
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 parts of the Boston Harbor
project (Leo et al. 1995, Pawlowski et al. 1996, Rex and Connor 1997,
Rex 2000). 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 requires 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 1-3). The plan provides a process for
evaluating parameters that exceed thresholds and formulating appropriate
responses.

2001 OUTFALL MONITORING OVERVIEW 6 
Table 1-2. 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
Plume-track surveys Track locations and
characteristics of discharge
plume, measure dilution of
discharge
2 surveys in 2001 Rhodamine dye
Salinity
Temperature
Currents
Nutrients
Solids
Selected metals
Bacterial indicators
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 
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, most parameters have “caution”
as well as “warning” thresholds. Exceeding caution or warning thresholds

2001 OUTFALL MONITORING OVERVIEW 7 
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
additional monitoring, making adjustments in plant operations, or
undertaking an engineering feasibility study regarding specific potential
corrective activities. 
Table 1-3. Summary of contingency plan threshold parameters 
Monitoring
Area
Parameter
pH
Fecal coliform bacteria
Residual chlorine
Total suspended solids
Biological oxygen demand
Toxicity
PCBs
Plant performance
Effluent
Total nitrogen load
Floatables
Dissolved oxygen concentration
Dissolved oxygen percent 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 
As for the monitoring plan, 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. The revision included
several minor corrections and some substantial changes (Table 1-4).

2001 OUTFALL MONITORING OVERVIEW 8 
Table 1-4. Substantial revisions to the contingency plan. 
Item 2001 Revision
Effluent floatables Changed warning level threshold from 5
gallons/day to “threshold under development.”
Sampling protocol to be developed.
Benthic opportunists Added caution level of 10% and warning level
of 25% opportunists.
Nearfield and Stellwagen Basin
dissolved oxygen.
Added phrase “unless background conditions
are lower” to thresholds.
Nuisance algae cell count, 
Alexandrium Added caution level of 100 cells/liter.
Zooplankton Deleted caution threshold, “shift towards
inshore community.” Instead, MWRA to
prepare a report on zooplankton populations
and evaluate whether a scientifically valid
threshold can be developed. 
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
raw data reports. Any corrections are documented. Each data report notes
any special data quality considerations associated with the data set.
As discharge and 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, including a variety of
reports 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.

2001 OUTFALL MONITORING OVERVIEW 9 
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.
Toxics and Nutrients Issues Reports Discuss, analyze, and cross-synthesize data
related to toxic and nutrient 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).
The report includes a scientific summary of each year of 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 2001, the first full year of discharge
monitoring. It compares all results to contingency plan thresholds. The
overview also includes a special section on initial dilution of the outfall
and a section on data relevant to the Stellwagen Bank National Marine
Sanctuary.

2001 OUTFALL MONITORING OVERVIEW 10
2. Effluent
Background
Pollution Prevention and Wastewater Treatment 
Reducing inputs of pollutants to the system and effective treatment before
discharge are the most important aspects of MWRA’s strategy to improve
the environmental quality of Boston Harbor without degrading
Massachusetts and Cape Cod bays. 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. Secondary
treatment further reduces the concentrations of most contaminants of
concern.
To mitigate accidental discharge of pollutants to the system, MWRA has
implemented best management practice plans for the Deer Island plant, its
headworks facilities, the combined sewer overflow facilities, and the
sludge pelletizing plant. The plans include inspections, which are
conducted at least once a year by non-facility staff. 
Environmental Concerns 
Sewage effluent contains a variety of wastes that can, at too high levels,
affect the marine environment, public health, and aesthetics. The
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.
Organic material, a major constituent of sewage effluent, consumes
oxygen as it decays. Even under natural conditions, oxygen levels decline

2001 OUTFALL MONITORING OVERVIEW 11 
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.
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 (Table 2-1). 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.

2001 OUTFALL MONITORING OVERVIEW 12 
Table 2-1. Reporting requirements of the outfall permit 
Parameter Sample Type Frequency
Flow Flow meter Continuous
Flow dry day Flow meter Continuous
cBOD 24-hr composite 1/day
TSS 24-hr composite 1/day
pH Grab 1/day
Fecal coliform bacteria Grab 3/day
Total chlorine residual Grab 3/day
PCB, Aroclors 24-hr composite 1/month
LC50 24-hr composite 2/month
C-NOEC 24-hr composite 2/month
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 
The permit includes numeric limits 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 of 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 new outfall. Actual dilution was measured in
2001, and the results, presented in Section 3, indicate that dilution is as
had been predicted.
Most parameters are measured in 24-hour composite samples, and some
must meet daily, weekly, or monthly limits. Flow is measured
continuously. Nutrient measurements include total Kjeldahl nitrogen,
ammonia, nitrate, and nitrite. Organic material is monitored by measuring

2001 OUTFALL MONITORING OVERVIEW 13 
the cBOD. Monitoring for toxic contaminants includes analyses for heavy
metals of concern, chlorinated pesticides, PCBs, volatile organic
compounds, polycyclic aromatic hydrocarbons (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. Methods for measuring floatables remain under
development. 
Results 
Average daily flow of effluent from the Deer Island treatment plant in
2001 was slightly less than 2000 and about the same as 1999, which had
been a year of drought (Figure 2-1). Approximately 93% of the flow
received secondary treatment, the greatest percentage ever.
For many parameters, total loads decreased (Figure 2-2). Total solids
discharged in the effluent remained low, decreasing slightly to 30.4 tons
per day. Solids removal has steadily increased over the past 10 years.
Nitrogen loads, while decreasing with the implementation of secondary
treatment, have increased since 1998, but have remained below threshold
values. About 80% of the total nitrogen is dissolved inorganic nitrogen,
mostly ammonia. Loads of selected metals decreased in 2001. Monthly
average TSS and cBOD remained low in 2001, reflecting the increased
levels of secondary treatment (Figure 2-3). 
Figure 2-1. Annual effluent flow 
MWRA Primary and Secondary Flows 1990-2001 
0
50
100
150
200
250
300
350
400
450
90 91 92 93 94 95 96 97 98 99 00 01 
million gallons per day 
Primary-treated Flows Secondary-treated Flows

2001 OUTFALL MONITORING OVERVIEW 14 
Figure 2-2. Annual solids, nitrogen, and metals discharges 
MWRA Solids Discharges 1988-2001
0
20
40
60
80
100
120
140
160
180
88 89 90 91 92 93 94 95 96 97 98 99 00 01
Tons per day
Sludge
Nut Island
Deer Island
MWRA Metals Discharges 1989-2001
0
200
400
600
800
1000
1200
89 90 91 92 93 94 95 96 97 98 99 00 01
Average pounds per day
Silver
Nickel
Chromium
Lead
Copper
Zinc
MWRA Nitrogen Discharges 1996-2001
0
2000
4000
6000
8000
10000
12000
14000
1996 1997 1998 1999 2000 2001
Metric tons per year 
Dissolved Inorganic Nitrogen Other Nitrogen Species
Caution level Warning level

2001 OUTFALL MONITORING OVERVIEW 15 
Figure 2-3. Monthly average TSS and monthly BOD (measured as cBOD since
1997) from 1994-2001 
Contingency Plan Thresholds 
The Deer Island Treatment Plant had few permit violations during 2001
(Table 2-2), earning it the Association of Metropolitan Sewerage Agencies
Silver Award for facilities that have had five or fewer violations during the
year. Two monthly and one daily contingency plan thresholds were
exceeded in 2001. In January, the sea urchin fertilization test failed, and
in April, the chronic fish growth test failed. On December 18, the daily
limit for fecal coliform bacteria was exceeded. 
Monthly Average TSS, Deer Island, 1994-2001
0
10
20
30
40
50
60
70
80
90
100
1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
TSS (mg/L)
TSS
TSS Permit Limit
Outfall Startup 
. 
Monthly Average BOD, Deer Island, 1994-2001
0
20
40
60
80
100
120
140
160
180
1994 1995 1996 1997 1998 1999 2000 2001 2002
Year
BOD
BOD
cBOD
cBOD Permit Limit
Outfall Startup

2001 OUTFALL MONITORING OVERVIEW 16 
Table 2-2. Contingency plan threshold values and 2001 results for effluent monitoring 
Parameter Caution Level Warning Level 2001 Results
pH None <6 or >8 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)
One exceedance of daily
geometric mean level
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 Not exceeded
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
One exceedance of
chronic fish growth and
one exceedance of sea
urchin fertilization
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 
Effluent used in the January toxicity tests met requirements for all the
acute toxicity tests and for the chronic fish test, but the chronic sea urchin
test failed (Figure 2-4). All other requirements of the permit were met on
January 9-10, the days that the sample used in the toxicity tests was
collected, and there were no operational upsets that would have caused the
sample to violate any parameters. The test organisms were in sub-optimal
condition, which may have contributed to this failure. More details are
available at www.mwra.com/harbor/html/exceed.htm.

2001 OUTFALL MONITORING OVERVIEW 17 
Figure 2-4. Acute and chronic toxicity test results for 2001(No sea urchin data
available for December) 
In April, even 100% effluent had no effect on mysid tests and the sea
urchin chronic test. The fish chronic growth test, which did not pass,
compares final weights of juvenile inland silversides grown in six
dilutions of effluent. In the April tests, the final weights of fish grown in
1.5%, 6.25%, 25%, and 100% effluent were statistically less than the
control fish. However, fish grown in 12.5% and 50% effluent did not
differ from the control. In fact, fish grew more in 50% than in 1.5% 
Acute Tox icity 
0
20
40
60
80
100
J F M A M J J A S O N D 
M ys id Shrim p
Inland Silv ers ide
A v g M o nthly M inim um T hres ho ld ( 50 %) 
Chronic Tox icity 
0
20
40
60
80
100
J F M A M J J A S O N D 
Sea Urc hin
Inland Silv ers ide
A v g M o nthly M inim um T hres ho ld ( 1 . 5 %)

2001 OUTFALL MONITORING OVERVIEW 18 
effluent. MWRA believes that these results are more likely due to natural
variability in the fish rather than to a toxic effect. More details are
available at www.mwra.com/harbor/html/exceed.htm.
For fecal coliform bacteria measurements, the December 18, 2001
geometric mean of three samples was 15,597 colonies/100 ml, slightly
higher than the permit limit of 14,000 colonies/100 ml (Figure 2-5). This
result reflected an elevated count found in one sample that was collected
during a 70-minute drop in chlorine residual in the disinfection basin. The
other two samples were below the threshold. The drop in chlorine residual
occurred when flow was elevated due to a rainstorm. Apparently, chlorine
demand in the wastewater increased suddenly, perhaps related to the
storm. Staff reacted to the event by increasing the sodium hypochlorite
dosing rate, and the chlorine residual returned to normal. 
Figure 2-5. Daily and weekly geometric mean fecal coliform counts 
D IT P Fecal C oliform E ffluent Results 2001
Daily Geom etric M ean 
1
10
100
1000
10000
100000
1/1/01 2/1/01 3/1/01 4/1/01 5/1/01 6/1/01 7/1/01 8/1/01 9/1/01 10/1/01 11/1/01 12/1/01 
C olonies/100 ml fecal coliform 
D aily geometric mean Limit (14,000 colonies/100ml) 
DIT P Fecal Coliform E ffluent Results -2001
Weekly G eom etric M ean 
1
10
100
1000
10000
100000
1 3 5 7 9 11 13 15 17 19 21 23 25 27 29 31 33 35 37 39 41 43 45 47 49 51 
Week
C olonies/100 ml fecal coliform 
Weekly geometric mean Limit (14,000 colonies/100ml)

2001 OUTFALL MONITORING OVERVIEW 19
3. Certification of the Outfall
Background 
Along with effective treatment of the effluent, achieving high dilution is a
key to ensuring that all other permit conditions are met and that the outfall
causes no harm to the environment. One important condition of the
discharge permit is that MWRA “field test and certify whether the
outfall’s minimum dilution is equal to, or greater than, the predicted
minimum dilution” that had been specified by a physical or scale model
used during design of the outfall (hydraulic studies by Roberts and Snyder
1993a, 1993b). 
Figure 3-1. A scale model was used to optimize the design of the MWRA diffuser, which is made
up of a series of 8-port risers. (Panels, clockwise from upper left: EPA Fluid Modeling Facility at
Research Triangle Park, North Carolina; flow of dye from two miniature 8-port riser caps in the
facility; Dr. Phil Roberts of Georgia Institute of Technology, holding a miniature and next to a
full-size riser cap; conceptual panel showing rapid dilution and depth-trapped plume as means
for reducing effects on surface waters)

2001 OUTFALL MONITORING OVERVIEW 20 
The scale model studies were carried out in a large density-stratified tank
(Figure 3-1). The studies used flows that would be equivalent to 390, 620,
and 1,270 million gallons per day (MGD) and current speeds of 0, 12, and
25 cm/s. Most tests were conducted assuming currents that were
perpendicular to the diffuser line. Some tests were carried out with
currents parallel to the line.
The studies set a predicted minimum dilution of approximately 1:70 at
edge of the hydraulic mixing zone, that is, the transition point between the
area where dilution is a result of turbulence generated by the outfall and
the area in which dilution is the result of oceanographic processes. In the
summer, the distance from the outfall to the edge of the hydraulic mixing
zone can be less than 20 meters. 
Monitoring Design 
Certification of the outfall required measurement of dilution during the
stratified portion of the year, that is, during the summer months. To meet
the permit requirements and to further evaluate plume behavior, MWRA
conducted a “shakedown” survey during April 2001, before the water
column was well stratified, and a certification survey in July, under
stratified conditions (Hunt et al. 2002a, 2002b).
Dilution was determined by adding a solution of the dye Rhodamine WT
to the effluent at the treatment plant and measuring dye concentrations at
the treatment plant and the outfall site. Naturally occurring plume tracers
were also measured, including salinity, total suspended solids, ammonia,
phosphate, silver, copper, and sewage tracer bacteria. The dye can be
measured rapidly, at concentrations less than one part per billion,
providing a means of tracking the plume for kilometers, long after the
other tracers would be diluted into their background ranges.
Within the treatment plant, in situ and discrete samples were used to
measure the overall concentration of dye in the effluent and to determine
how evenly the dye was mixed within the treatment plant’s two
disinfection basins. The offshore part of the program included four
components: (1) a background survey to establish background
fluorescence in the environment prior to dye release, (2) exploratory
surveys to determine the hydrographic gradients and current directions and
velocities near the diffuser, (3) hydraulic mixing zone surveys to measure
plume dilution within and immediately outside the hydraulic mixing zone,
and (4) plume-tracking exercises to determine plume structure and
behavior outside the area of initial dilution and up to the point at which the
plume reached dilutions of 1:1000.

2001 OUTFALL MONITORING OVERVIEW 21 
The scale model, which was used to set the permit condition, tested
effluent dilution under a limited number of physical conditions (current
speed and direction, effluent flow rate, and degree of stratification of the
water column). The actual field conditions could not exactly match the
model conditions. Consequently, modelers used results from the scale
model to develop a mathematical model to predict outfall dilution over a
much wider range of conditions (Roberts et al. 1989). MWRA then used
this model, known as RSB, to confirm that effluent dilutions measured in
the field were consistent with those predicted during outfall design. 
Results
Outfall Certification 
Dye was introduced to the effluent stream on July 16 and 17, 2001 (Hunt 
et al. 2002b). Flow rates varied from a high of about 370 MGD a few
hours after dye addition began to a low of 254 MGD at the end of the dye
addition. Horizontal and vertical profiles of dye concentrations at the
treatment plant indicated that the dye was well mixed through the effluent.
During the certification study, there was moderate stratification of the
water column, as is typical of the early summer. Temperature was the
major influence on the pycnocline. The ebb tide had just begun, and
currents were to the east, essentially parallel to the diffuser line, as the dye
emerged. Consequently, the three hydraulic mixing zone surveys were
conducted at three locations along and just to the east of the diffuser line,
following the dye progress along the diffuser.
The first hydraulic mixing zone survey included transects at the western
end of and perpendicular to the diffuser line. The core of the plume was
found between 15 and 20 meters depth, with dilutions of 1:90-100 (Figure
3-2, top).
The second survey, conducted near the center of the diffuser line, found a
plume that was more than four times wider than the first and with variable
dye concentrations (Figure 3-2, bottom). The minimum dilution, about
1:50, was measured just above a diffuser head and appeared to be located
within the hydraulic mixing zone.

2001 OUTFALL MONITORING OVERVIEW 22 
Figure 3-2. Cross-section view of dilution measured during the first (top) and second (bottom)
hydraulic mixing surveys. The large dots show the locations where discrete samples were taken.
The small dots on the bottom figure show the track of the remote sampling transects. 
-200 -150 -100 -50 0 50 100 150
South Offset from Diffuser Line (m) North
-30
-20
-10
0
Depth (m)

2001 OUTFALL MONITORING OVERVIEW 23 
The last hydraulic mixing survey took place off the east end of the diffuser
line after the tide had turned. As would be predicted (Roberts et al. 1989 ) ,
the plume was wider during this last survey, more than twice the width at
the midpoint of the diffuser line and ten times wider than at the western
end (Figure 3-3). The core of the plume, with dilutions of 1:85-100 was
centered on the diffuser axis, at a depth between 12 and 18 m. 
Figure 3-3. Vessel track lines and dye concentrations (ppb) measured during the three hydraulic
mixing surveys. Actual lateral spreading of the plume agreed with mathematical predictions. 
MWRA’s instantaneous field measurements provided data at different
temporal and spatial scales than were used by modelers to predict dilution.
Consequently, the MWRA data detected the patchiness that occurred
during hydraulic mixing. To be able to compare the field data with the
time-averaged values used by the modelers, data were filtered to remove
high-frequency fluctuations (Figure 3-4). 
-5,824,000 -5,823,000 -5,822,000 -5,821,000
Easting (m)
4,712,000 4,713,000 4,714,000 4,715,000
Northing (m)
1+
0.8 to 1
0.6 to 0.8
0.4 to 0.6
0.2 to 0.4
0 to 0.2
Diffuser
Average
current
direction Plume boundary
Eq. 3 Model prediction

2001 OUTFALL MONITORING OVERVIEW 24 
Figure 3-4. Instantaneous (dots) and low-pass-filtered (shading) dilution
(expressed as c/co dye concentration in the field divided by dye concentration in
the effluent) in each of three hydraulic mixing zone surveys 
The comparison indicated that there is good agreement between the model
and field results (Table 3-1) and that the outfall met the minimum dilution
assumed by the permit. Dilution, thickness of the wastefield, height to the
top of the wastefield, and height of minimum dilution matched well.
Water quality in the plume after initial mixing met all state and federal
marine water quality criteria. EPA and MADEP approved the certification
of the outfall in October 2002. 
Table 3-1. Comparison of model predictions and plume measurements (HMZ3
data shown) for the summer certification survey 
Model predictions Field results
Dilution 104 102
Thickness of wastefield (m) 18.8 20
Height to top of wastefield 24.8 28
Height of minimum dilution 16.6 18

2001 OUTFALL MONITORING OVERVIEW 25
Plume Structure and Transport 
Results from the plume-tracking surveys carried out beyond the hydraulic
mixing zone provided additional assurance that the effluent plume
behaved as predicted. The dye plume was tracked for two days (Figure 3-
5). During those two days, the plume was transported to the southeast.
Consistent with modeling studies, dilution increased to approximately
1:200-400 within one day after discharge. The spread and dilution was
mostly horizontal, with plume thickness remaining relatively constant. 
Dilution (x fold) 
Figure 3-5. Transport of the plume over two survey days. (Note that the
boundaries for each day represent the total area occupied by the plume
throughout the day rather than the area at a given moment.) 
Day 1
Day 2

2001 OUTFALL MONITORING OVERVIEW 26
4. Water Column
Background
Circulation and Water Properties 
Circulation, water properties, and consequently, the biology of
Massachusetts and Cape Cod bays are mainly driven by the larger pattern
of water flow in the Gulf of Maine (Figure 4-1). 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 4-1. General circulation on Georges Bank and in the Gulf of Maine during the summer,
stratified season (from Beardsley et al. 1997)

2001 OUTFALL MONITORING OVERVIEW 27 
When the MWRA monitoring program began, scientists assumed that the
water quality and biology of the bays followed a rigid annual cycle,
typical for coastal waters. In fact, monitoring has shown that wind,
regional conditions, and other factors greatly influence the pattern.
According to the typical coastal cycle, waters are well mixed, and nutrient
levels are high during November through April. As light levels increase in
the early spring, phytoplankton begin the period of rapid growth known as
a spring bloom. Monitoring has shown that spring blooms may also occur
earlier than April or not at all. During the years in which there are spring
blooms, they begin in the shallowest waters of Cape Cod Bay. Blooms in
deeper 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 of oxygen to the bottom.
Phytoplankton in the surface waters deplete the available nutrients and
then undergo senescence, sinking to the bottom. Oxygen levels remain
high in the surface waters throughout the year, but oxygen levels decrease
in the bottom waters. Bottom-dwelling animals respire, and bacteria use
up oxygen as they decompose the phytoplankton, so bottom-water oxygen
levels are typically lowest during August through October.
In the fall, cooling surface waters and strong winds 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.
Surface water temperatures show nearly the same pattern each year.
Bottom water temperatures are more variable and are affected by wind
patterns. If strong southerly or southwesterly winds, that is, winds from
the south or southwest, persist during the summer, then upwelling occurs.
Upwelling leads to colder inshore bottom-water temperatures and also
higher concentrations of dissolved oxygen. Weaker southerly winds result
in less upwelling, with warmer inshore bottom-water temperatures and
lower levels of dissolved oxygen.

2001 OUTFALL MONITORING OVERVIEW 28
Environmental Concerns 
The MWRA monitoring program focuses on concerns that the outfall will
introduce effects from organic material, nutrients, and toxic contaminants
in the effluent. Because organic material and toxic contaminants are
effectively removed by secondary treatment, but nutrients are not, nutrient
issues cause the greatest concern.
The 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 tamarense , the diatom Pseudo-nitzschia
multiseries , and the colonial flagellate Phaeocystis pouchetii . 
Alexandrium tamarense typically blooms during April to June and 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. Paralytic shellfish poisoning toxin has been periodically found in
Massachusetts since the 1970s. Pseudo-nitzschia multiseries blooms can
occur at any time of the year. It 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 blooms usually occur during
the late winter and spring. The species 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 necessary for
survival of marine life. 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 appear to 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.

2001 OUTFALL MONITORING OVERVIEW 29
Monitoring Design 
Water column monitoring includes assessments of water quality,
phytoplankton, and zooplankton in Massachusetts and Cape Cod bays.
Baseline monitoring includes four major components: nearfield surveys,
farfield surveys, continuous recording, and remote sensing. 
Figure 4-2. Nearfield sampling stations

2001 OUTFALL MONITORING OVERVIEW 30 
Figure 4-3. Farfield geographic regions and sampling stations 
Nearfield surveys provide vertical and horizontal profiles of physical,
chemical, and biological characteristics of the water column in the area
around the outfall where some effects of the effluent are expected (Figure
4-2). Farfield surveys assess differences across the bays and seasonal
changes over a large area (Figure 4-3). Five of the farfield stations mark
the boundary of the monitoring area and are in or near the Stellwagen
Bank National Marine Sanctuary. Other stations are in Boston Harbor,

2001 OUTFALL MONITORING OVERVIEW 31 
“coastal” and “offshore” regions, and in Cape Cod Bay. During 2001, 17
surveys of the nearfield and 6 surveys of the farfield were conducted.
Parameters measured in water column monitoring 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.
The continuous recording components of the program, the USGS and Gulf
of Maine Ocean Observation System 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 
The year 2001 was dry, indicated by low river flow (Figure 4-4) during the
first months of the year, normal flow during the spring and summer, and
the driest fall of the monitoring program (Libby et al. 2002). Wind
stresses during early 2001 were more northerly (from the north) than
usual, resulting in stronger than average downwelling, a condition that
tends to increase transport of Gulf of Maine waters through Massachusetts
Bay. Downwelling conditions persisted during the spring. The upwelling
conditions typical during the summer were average, and downwelling
conditions in October were weaker than usual. Average wind speeds were
typical, and there were no extreme wind-stress events.

2001 OUTFALL MONITORING OVERVIEW 32 
Figure 4-4. Above: Charles River discharge, 1990-2001 (recorded data from a
gauge at Waltham and 3-month moving average); Below: 2001 discharge
compared to the12-year historic mean 
Water temperatures followed a typical pattern in the surface and at the
bottom until the fall (Figure 4-5). The fall of 2001 was warm, and surface
water temperatures were the warmest recorded for that time period during
the monitoring program. Salinity measurements showed a normal
seasonal progression, unaffected by the fall drought. Stratified conditions
were first observed in early April, and by June, there was a strong density
gradient throughout most of Massachusetts and Cape Cod bays. Despite
one mixing event in September, stratified conditions continued late into
the fall, lingering until early December.

2001 OUTFALL MONITORING OVERVIEW 33 
Figure 4-5. Nearfield surface and bottom water temperature and salinity, 1992-
2001 (Surface measurements are the upper line for temperature and the lower
line for salinity.) 
Water Quality 
Water quality measurements during the first full year of discharge
confirmed 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. 2002). Measurements of nutrients,
chlorophyll, and dissolved oxygen indicated that, even in the nearfield,
there were few measurable effects of the outfall during 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 4-6, 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

2001 OUTFALL MONITORING OVERVIEW 34 
effluent plume. Concentrations of ammonia were particularly higher than
the baseline during the summer months. During this period, however, the
nutrient inputs from the outfall were trapped below the pycnocline and not
available to phytoplankton. Averaged over the entire year, the 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 4-6, bottom). There were no increases in annual ammonia
concentrations in the farfield. 
Figure 4-6. Above: 2001 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, generally fell into the range and
showed the same seasonal pattern that had been established during
baseline monitoring (Figure 4-7, top). These results were anticipated,
because under most circumstances, nitrate concentrations in the effluent
only about 10 times of the ambient bottom water. Just as during the 
0
1
2
3
4
5
Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec
NH4 (  M) 
Baseline Range
Baseline Mean
2001 
0
2
4
6
8
10
12
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001
Year
NH4 (  M)
Boston Harbor Boundary Offshore
Nearfield Coastal Cape Cod
Outfall Startup

2001 OUTFALL MONITORING OVERVIEW 35 
baseline period, maximum nitrate concentrations were observed during the
early part of the year. Seasonal stratification led to typical, persistent
nutrient depletion in the surface waters, with no evidence of inputs from
the outfall. Because the fall bloom occurred later than usual, late October
nitrate concentrations were higher than had been measured during
comparable surveys during the baseline period, and December nitrate
concentrations fell below the baseline range. The increased concentrations
observed in late October were small and a result of the delayed bloom
rather than a measure of inputs from the outfall. The annual average for
2001 showed little increase in nitrate concentrations in the nearfield
(Figure 4-7, bottom). There were 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. The typical pattern persisted,
with highest concentrations at the boundary, lowest in Cape Cod Bay, and
intermediate levels in the nearfield. 
Figure 4-7. Above: 2001 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 Mar Apr May Jun Jul Aug Sep Oct Nov Dec
NO3 (  M) 
Baseline Range
Baseline Mean
2001 
0
1
2
3
4
5
6
7
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001
Year
NO3 (  M)
Nearfield Boundary Cape Cod Outfall Startup

2001 OUTFALL MONITORING OVERVIEW 36 
Concentrations of another nutrient, phosphate, were slightly elevated
above the baseline mean during most surveys and above the baseline range
in the nearfield during two of the seventeen surveys (Figure 4-8). Overall,
the annual average concentration was not elevated in the nearfield, while
concentrations decreased in the harbor (not shown). 
Figure 4-8. 2001 nearfield phosphate compared to baseline range and mean 
Concentrations of chlorophyll, a measure of phytoplankton biomass,
showed no response to nutrient enrichment of the outfall, even in the
nearfield (Figure 4-9, top). During most nearfield surveys, concentrations
of chlorophyll were at or below the baseline mean. Chlorophyll
concentrations were higher than the baseline range during the first surveys
in February and December. These increases resulted from the deviations
in the timing of the spring and fall blooms, with the spring bloom earlier
and the fall bloom later than in past years. The magnitudes of the peak
measurements were within ranges of spring and fall blooms of the baseline
period. The annual (Figure 4-9, bottom) and seasonal (not shown)
chlorophyll concentrations showed no response to the outfall in the
nearfield or any region of the farfield. Overall, annual average
concentrations of chlorophyll were much lower in 2001 than in 2000, with
similar decreases observed in the nearfield and in Cape Cod Bay. 
0
0.3
0.6
0.9
1.2
1.5
Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec
PO4 (  M) 
Baseline Range
Baseline Mean
2001

2001 OUTFALL MONITORING OVERVIEW 37 
Figure 4-9. Above: 2001 nearfield chlorophyll concentrations compared to
baseline range and mean; Below: annual mean chlorophyll concentrations in
Massachusetts Bay regions 
Measurements of concentrations (Figure 4-10) and percent saturation (not
shown) of dissolved oxygen in 2001 showed no response to nutrient
enrichment or addition of organic matter from the outfall. Survey mean
concentrations and percent saturation of dissolved oxygen in bottom
waters of the nearfield and Stellwagen Basin were unchanged from the
baseline period. Measurements of both parameters remained close to the
baseline mean throughout the year. Minimum concentrations and percent
saturation were found in October, as is typical. 
0
100
200
300
400
500
Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec
Chlorophyll (mg m -2 ) 
Baseline Range
Baseline Mean
2001 
0
20
40
60
80
100
120
140
160
180
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001
Year
Chlorophyll (mg m -2 )
Boundary Nearfield Cape Cod Outfall Startup

2001 OUTFALL MONITORING OVERVIEW 38 
Figure 4-10. Above: 2001 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
Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec
DO (mgL -1 ) 
Baseline Range
Baseline Mean
2001 
5
6
7
8
9
10
11
12
13
Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec
DO (mg L -1 ) 
Baseline Range
Baseline Mean
2001

2001 OUTFALL MONITORING OVERVIEW 39
Phytoplankton Communities 
Abundance of phytoplankton during 2001 was within the baseline range
(Libby et al. 2002, Figure 4-11). Counts did not reach peaks seen in some
years, such as 1993, 1995, or 1997, but they were similar to 1996, 1998,
and 1999. The seasonal pattern was similar to that to the baseline.
Although sampling in 2001 missed the peak of the winter-spring bloom,
similar conditions existed in 1996, 1998, and 1999. Cell counts during the
fall were not higher than those during the baseline period, although they
remained elevated for longer into the early winter. 
Figure 4-11. Total phytoplankton abundance by area, 1992-2001 
Community composition and abundance patterns were similar in the
nearfield and the farfield, and both regions showed similar patterns as the
baseline period. As in previous years, the assemblages were dominated by
microflagellates, with brief diatom peaks.
Presence of Phaeocystis pouchetii , a nuisance species, did not reach the
levels of the 2000 bloom. Its presence for a second year did, however,
challenge the prevailing thought that blooms occurred about once every
few years. Previous blooms had occurred in 1992, 1994, and 1997. Other
nuisance species were also present during 2001, but in low numbers. The
dinoflagellate Alexandrium tamarense was recorded sporadically.
Diatoms in the genus Pseudo-nitzschia were present in the spring and fall,
but they were never abundant. 
Total Phytoplankton Abundance - Area Mean
0
2
4
6
8
10
12
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001
Year
10 6 Cells L -1
Nearfield Harbor Cape Cod Bay Coastal Boundary Outfall Startup

2001 OUTFALL MONITORING OVERVIEW 40
Zooplankton Communities 
Zooplankton abundance and community structure in 2001 were similar to
those of the baseline period, although maximum abundance was lower
than in most years, particularly 1999 and 2000 (Libby et al. 2002, Figure
4-12). The most abundant taxa were, as in previous years, various
copepod nauplii and adults and copepodites of the small copepod Oithona
similis . Pseudocalanus spp. copepodites and meroplankters, animals that
are part of the plankton for part of their lives, were also common. The
larger copepods Calanus spp. and Centropages spp. were present,
although in lower numbers than the smaller species. As in other years,
copepods in the genus Acartia were confined to Boston Harbor. In 2001,
high densities of ctenophores were observed again in Boston Harbor, as
they were in 2000, but not in the nearfield. 
Figure 4-12. Zooplankton abundance by area, 1992-2001 
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 no
repeat of the high chlorophyll levels measured in the fall of 2000, and no
contingency plan thresholds were exceeded during 2001 (Table 4-1). 
Total Zooplankton Abundance - Area Means
0
50,000
100,000
150,000
200,000
250,000
300,000
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001
Year
Animals m -3
Nearfield Harbor Cape Cod Bay Coastal Boundary Outfall Startup

2001 OUTFALL MONITORING OVERVIEW 41 
Table 4-1. Contingency plan threshold values for water column monitoring 
Location/
Parameter
Specific
Parameter Baseline Caution Level Warning
Level
2001
Results
Lowest survey
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,
October,
7.4 mg/l
Bottom water
nearfield
Lowest survey
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,
October,
77%
Lowest survey
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,
October,
7.8 mg/l
Bottom water
Stellwagen
Basin
Lowest survey
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,
October,
79%
Bottom water
nearfield
DO depletion
rate (June-
October)
0.0244 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 67 mg/m 2
Winter/spring 81 mgml 2 182 mg/m 2 None 69 mg/m 2
Summer 51 mg/m 2 80 mg/m 2 None 45 mg/m 2
Chlorophyll
nearfield
Autumn 90 mg/m 2 161 mg/m 2 None 87 mg/m 2
Winter/spring 470,000 cells/l 2,020,000 cells/l None 186,400
cells/l
Summer 72 cells/l 334 cells/l None 0 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 5,700 cells/l
Summer 13,000 cells/l 38,000 cells/l None 100 cells/l
Nuisance
algae
nearfield 
Pseudo-
nitzschia 
Autumn 9,700 cells/l 24,600 cells/l None 5,900 cells/l
Nuisance
algae
nearfield 
Alexandrium
tamarense 
Any nearfield
sample
Baseline
maximum =
163 cells/l
100 cells/l None 35 cells/l
maximum
Farfield PSP toxin
extent Not applicable New incidence None
No toxicity
or shellfish
closures
Water column Initial dilution of
the outfall Not applicable None
Effluent dilution
predicted by EPA
as basis for
NPDES permit
Dilution
consistent
with
prediction

2001 OUTFALL MONITORING OVERVIEW 42 
Several changes to the water-column thresholds in the contingency plan
were approved in 2001. The phrase “unless background conditions are
lower” was added to the descriptions of both dissolved oxygen
concentration and dissolved oxygen saturation, bringing the thresholds
into closer conformity with state standards. Previously, more rigid
contingency plan thresholds were at levels that frequently could not be
met even during baseline monitoring. The background conditions have
been calculated as follows: 5.75 mg/l dissolved oxygen in the nearfield.
6.2 mg/l dissolved oxygen in Stellwagen Basin, 64.3% saturation in the
nearfield, and 66.3% saturation in Stellwagen Basin.
Also in 2001, EPA and MADEP established a threshold of 100 cells/liter
in any sample for Alexandrium tamarense, noting that the maximum count
prior to the outfall startup was 163 cells/l. Further study of appropriate
thresholds for paralytic shellfish poisoning toxin are underway. Paralytic
shellfish poisoning toxin is not generally observed in shellfish until cell
counts reach more than 300 cells/l. MWRA also uses data from a
Massachusetts Department of Marine Fisheries (DMF) monitoring
program, which addresses extent of paralytic shellfish poison toxicity in
the area. The program traditionally has been conducted from early April
through November and has involved sampling of shellfish, primarily blue
mussels, from 16 primary stations and, if significant toxin is measured at
the primary sites, 47 secondary stations. PSP toxin was not detected in bay
waters in 2001.
MWRA is also evaluating whether a scientifically valid zooplankton
community threshold can be developed. By the end of 2001, no
appreciable changes to the zooplankton community were detected by the
monitoring program.

2001 OUTFALL MONITORING OVERVIEW 43
5. 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, where they are likely to remain. 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
CSO systems, and improved sewage effluent treatment. Conversely,
relocating the outfall has introduced concerns about potential effects on
the offshore sea floor. Concern is 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.
If transfer of the nutrient loads to offshore were to cause eutrophication,
depressed levels of dissolved oxygen could profoundly 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

2001 OUTFALL MONITORING OVERVIEW 44 
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. 
Figure 5-1. Locations of nearfield soft-bottom stations (NF12 and NF17 are also sampled by
USGS)

2001 OUTFALL MONITORING OVERVIEW 45 
Figure 5-2. Locations of farfield soft-bottom stations

2001 OUTFALL MONITORING OVERVIEW 46 
Figure 5-3. Locations of hard-bottom stations 
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 5-1 and 5-2),
and study of hard-bottom communities (sampling sites in Figure 5-3).

2001 OUTFALL MONITORING OVERVIEW 47 
In addition to MWRA’s outfall monitoring, long-term studies of sediment
transport and contaminant levels in Boston Harbor, Massachusetts Bay,
and Cape Cod Bay are conducted by USGS. Since 1977, USGS has
periodically sampled four stations within Boston Harbor, and since 1989
they have taken sediment cores three times a year from two stations, one
sandy and one muddy, near the Massachusetts Bay outfall (USGS 1997b;
Figure 5-1).
Because contaminant concentrations were consistently low, the MWRA
baseline sediment-contaminant studies were considered adequate after
three years of sampling in 1995. Then, until the outfall began operation,
sampling for contaminant measurements occurred intermittently. All
stations were sampled in 2001.
Beginning in 1998, a subset of four stations was designated for special
study. The stations were selected because they have a high percentage of
fine-grained material, with those percentages remaining stable during the
baseline-monitoring period. They have high concentrations of total
organic carbon (TOC) and are located in the zone of effluent particle
deposition predicted by the Bays Eutrophication Model. The data from
these stations are intended to provide early indications of rapid
contaminant build-up, should it occur.
Prior to the startup of the outfall, the special-study stations were sampled
once per year, in August. Since late 2000 when the outfall began
operation, the stations have been sampled three times per year, in February
or March, August, and October. Samples are analyzed for spores of the
sewage indicator bacterium Clostridium perfringens , sediment grain size,
TOC, and contaminants.
Sediment-profile image surveys are conducted in August of each year at
20 nearfield and three farfield, western Massachusetts Bay, stations to give
an area-wide assessment of sediment quality and benthic community
status. They provide a more rapid assessment 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.
Nearfield and farfield soft-bottom surveys are also conducted in August.
Sampling of 23 nearfield and western Massachusetts Bay stations is

2001 OUTFALL MONITORING OVERVIEW 48 
designed to provide 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 analyzed
for community parameters, Clostridium perfringens spores, sediment grain
size, TOC content, and contaminant concentrations.
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 (Figure 5-3). Video and
still photographs are taken at 21 stations or waypoints, which include
diffuser head #44 of the outfall (which will not be opened), and at diffuser
head #2. These surveys are conducted annually 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). 
Results 
The August 2001 sampling marked the beginning of sediment sampling
for the discharge period. The first discharge monitoring of hard-bottom
areas was conducted in June 2001. The data represent the response of the
sea floor to the first full year of discharge. 
Sediment Contaminants 
Baseline sampling at nearfield stations indicated that the area around the
outfall was composed of heterogeneous sediments that had received
historic inputs of contaminants from Boston Harbor. Data from 2001 were
not substantially different from the baseline. Most parameters measured
in 2001 were within the baseline range. However, concentrations of lead
were greater than the baseline at several stations, and at one station, well
away from the diffuser, concentrations of total PAHs, lead, mercury,
nickel, silver, and zinc concentrations were all greater than the baseline
range. Another station (NF21, located about 4 kilometers to the northwest
of the outfall) had an unusually high concentration of total DDT. This
result passed the program’s quality assurance tests, which included re-
analysis, and may be real. Stations nearer the outfall did not show
elevated DDT concentrations, and the result is so unusual that an
analytical interference (false positive) remains a possibility. Draft data
from the 2002 sampling indicate no anomalously high DDT values from
any station. Statistical analyses using principle components indicated a
general decrease in levels of anthropogenic compounds in the nearfield.

2001 OUTFALL MONITORING OVERVIEW 49 
For stations located within 2 km of the outfall, when the data accounted
for the percent of fine particles in the samples, there were increased
concentrations of Clostridium perfringens spores, a tracer of effluent
particles. These results indicate that the sediments in the immediate
vicinity of the discharge are responding as expected, that is, there is a
localized increase in effluent tracers near the outfall. 
Figure 5-4. Representative sediment profile images from 2001. NF04 had very hard, gravelly
sediments that the prism could not penetrate, NF13 had a combination of sand and gravel, while
NF05 and NF22 contained primarily muddy sediments. 
Sediment Profile Imaging 
Benthic habitat conditions in 2001 were similar to those of the recent
baseline period (Kropp et al. 2002, Figure 5-4). The nearfield stations
were dominated by biogenic structures and organism activity. Sediments
at some stations were heterogeneous, composed of particles ranging from
silts and clays to cobbles. Other stations were composed of homogeneous,
fine-grained material. Most stations with fine sediments had high
densities of polychaete tubes. Stations with coarser sediments were
covered with a thin drape of sediments, most of which had been
incorporated into biogenic tubes. 
NF04-2 
NF05-3 
NF13-3 
NF22-2

2001 OUTFALL MONITORING OVERVIEW 50 
The depth of the apparent RPD continued to reflect the dominance of
biological processes, and the grand average RPD layer for all stations was
essentially the same in 2001 as in 2000 (Figure 5-5). This average was
within the annual range of the baseline period. Overall, it appeared that
biological processes predominated in shaping surface sediments, although
there were also signs of physical processes. 
Figure 5-5. Apparent color RPD depth (cm) for all data from nearfield stations.
Box is interquartile range, short bar is median, wide bar is mean, and whiskers
are ranges. Horizontal line is grand mean for all years. (The caution threshold
is 1.18 cm.) 
Soft-bottom Communities 
Soft-bottom sediments in the nearfield support typical New England
coastal benthic communities. Stations with fine sediments have
communities dominated by polychaetes worms, such as Prionospio
steenstrupi, Spio limicola, Mediomastus californiensis, and A ricidea
catherinae. Sandier stations are inhabited by polychaetes Polygordius sp.
and Exogone spp. and by the amphipods Crassicorophium crassicorne and 
Unciola spp. The nearfield stations are sometimes affected by winter
storms that resuspend sediments.
Farfield stations occupy a broader geographic and depth range. While
communities found at farfield stations share many species with those
found in the nearfield, they also support a wider variety of species
characteristic of New England coastal habitats. Polychaete worms,
including Euchone incolor , Aricidea quadrilobata , and Levinsenia
gracilis, predominate at most stations. 
RPD
0
1
2
3
4
5
1992 1995 1997 1998 1999 2000 2001
Year

2001 OUTFALL MONITORING OVERVIEW 51 
During the nine years of baseline monitoring, annual measurements of
community parameters showed somewhat similar temporal patterns in the
nearfield and farfield. In the nearfield, there was a large reduction in
overall abundance and number of species between 1992 and 1993. This
decline has been attributed to a severe winter storm in 1992. The effects
of the storm were evident in the two community parameters that are
measured directly, total abundance of organisms and total number of
species, and in one of the calculated indices, log-series alpha. Two other
indices, Shannon diversity, and Pielou’s evenness, did not detect any
change from the storm. The effects of the storm were not apparent in the
farfield.
In 2001, measurements of community parameters were within the range
measured for the baseline period (for example, Figure 5-6). Infaunal
abundance, numbers of species, Shannon diversity, evenness, and log-
series alpha were within the historic ranges for both nearfield and farfield
stations. 
Figure 5-6. Abundance of species and total species per soft-bottom sample,
nearfield,1992-2001 
30
40
50
60
70
80
90
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001
Year
Species per Sample
Nearfield
Caution Threshold
Baseline Mean
Outfall Startup 
0
500
1000
1500
2000
2500
3000
3500
4000
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001
Year
Abundance per Sample
Nearfield
Baseline 97.5%ile
Baseline 2.5%ile
Baseline Mean
Outfall Startup

2001 OUTFALL MONITORING OVERVIEW 52 
Opportunistic species of concern were present in low numbers at all
nearfield stations and did not show any response to the first full year of
discharge. Relative abundance of opportunists was at the low end of the
baseline range. 
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 (Figure 5-7, Kropp et al. 
2002). These patterns persisted in 2001, with no changes in response to
operation of the outfall.
Typically, approximately half the organisms seen can be identified to
species. Other organisms are grouped into taxa that could be described by
general characteristics, such as “orange-tan encrusting.” In 2001, eighty-
five species and grouped taxa were identified. The most abundant taxon
was, as in previous years, coralline algae, species whose colonies form
thin, pinkish-purple crusts on rock surfaces. Coralline algae were seen at
20 of the 23 waypoints or stations. Other common algae included dulse 
Rhodymenia palmata and a red, filamentous alga Ptilota serrata . Shotgun
kelp Agarum cribosum was very abundant at one waypoint, where, similar
to 2000, it was typically overgrown by a lacy bryozoan.
As in previous years, the most abundant invertebrate was the northern
seastar, Asterias vulgaris . Other common invertebrates included the
frilled anemone Metridium senile, the horse mussel Modiolus modiolus ,
the sea pork tunicate Aplidium sp., an unidentified white sponge, the
brachiopod Terebratulina septentrionalis , and an unidentified orange or
tan sponge. Anemones were especially abundant on the smooth surface of
the outfall diffuser that is included in the monitoring. The most common
fish was the cunner Tautogolabrus adspersus .
As in previous years, algae usually dominated the tops of drumlins, while
encrusting or attached invertebrates were increasingly dominant on the
flanks. Abundance of encrusting coralline algae has been inversely
correlated with sediment drape throughout the baseline-monitoring
program, percent cover being greatest in areas with the least sediment.
At the end of the baseline period, it appeared that coralline algae could be
good indicators of outfall effects. Change could occur either through
smothering or by changes in light penetration or water clarity. After the

2001 OUTFALL MONITORING OVERVIEW 53 
outfall began operating in 2001, slight decreases in percent cover by
coralline algae were noted at three stations on the drumlin immediately to
the north of the outfall. However, similar decreases were found at the two
most northern reference stations, so the changes could not be attributed
solely to the outfall. 
Figure 5-7. Hard-bottom survey photograph of an inactive port on Diffuser Head #2 
Contingency Plan Thresholds 
No contingency plan threshold parameters for sea floor monitoring were
exceeded in 2001. Those parameters include contaminant concentrations,
RPD depth, and benthic diversity and species composition in soft-bottom
communities (Table 5-1).

2001 OUTFALL MONITORING OVERVIEW 54 
Table 5-1. No contingency plan baseline and threshold values for sea floor monitoring were
exceeded in 2001. 
Location Parameter Caution Level Warning Level 2001 Results
Acenaphthene None 500 ppb dry 35 ppb dry
Acenaphylene None 640 ppb dry 48 ppb dry
Anthracene None 1100 ppb dry 167 ppb dry
Benz(a)pyrene None 1600 ppb dry 277 ppb dry
Benzo(a)pyrene None 1600 ppb dry 285 ppb dry
Cadmium None 9.6 ppm dry 0.1 ppm dry
Chromium None 370 ppm dry 75.1 ppm dry
Chrysene None 2800 ppb dry 278 ppb dry
Copper None 270 ppm dry 24.3 ppm dry
Dibenzo(a,h)anthracene None 260 ppb dry 47 ppb dry
Fluoranthene None 5100 ppb dry 569 ppb dry
Fluorene None 540 ppb dry 52 ppb dry
Lead None 218 ppm dry 46 ppm dry
Mercury None 0.71 ppm dry 0.27 ppm dry
Naphthalene None 2100 ppb dry 83 ppb dry
Nickel None 51.6 ppb dry 18 ppb dry
p,p’-DDE None 27 ppm dry 0.5 ppm dry
Phenanthrene None 1500 ppb dry 421 ppb dry
Pyrene None 2600 ppb dry 528 ppb dry
Silver None 3.7 ppm dry 0.5 ppm dry
Total DDTs None 46.1 ppb dry 5 ppb dry
Total HMWPAH None 9600 ppb dry 3625 ppb dry
Total LMWPAH None 3160 ppb dry 1669 ppb dry
Total PAH None 44792 ppb dry 5293 ppb dry
Total PCBs None 180 ppb dry 13 ppb dry
Sediment toxic
contaminants,
nearfield
Zinc None 410 ppm dry 60 ppm dry
Sediments,
nearfield RPD depth 1.18 cm None 2.4 cm
Species per sample <47.97 or >81.09 None 63.1
Fisher’s log-series
alpha <10.13 or >15.58 None 13.1
Shannon diversity <3.32 or >4.02 None 3.8
Benthic
diversity,
nearfield
Pielou’s evenness <0.56 or >0.67 None 0.64
Species
composition,
nearfield
Percent opportunists 10% 25% 0.34%

2001 OUTFALL MONITORING OVERVIEW 55
6. 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. This section presents the results of
fish and shellfish monitoring for the year 2001, the first samples collected
following start up of the outfall.
The fish and shellfish industry is an important part of the regional identity
and economy of Massachusetts. One concern about relocating sewage
effluent offshore, into relatively clean waters, is that contaminants could
adversely affect resource species, either through direct damage to the
fishery stocks or by contamination of the fish, lobster, and other shellfish,
rendering them unfit for human consumption. 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 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 6-1). 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.

2001 OUTFALL MONITORING OVERVIEW 56 
Figure 6-1. Sampling areas for fish and shellfish monitoring. (See text for sample locations of
individual species.) 
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

2001 OUTFALL MONITORING OVERVIEW 57 
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, and Cape Cod Bay are 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, copper, nickel, and
zinc.
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.
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. Until 2000, mussels were collected from reference sites
in Gloucester and Sandwich. Gloucester mussels provided a reference for
organic contaminant analyses, and Sandwich mussels provided a reference
for inorganic contaminants. Beginning in 2000, a new reference area, with
low levels of both organic and inorganic contaminants, was identified in
Rockport.
Mussels are 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.

2001 OUTFALL MONITORING OVERVIEW 58
Results
Winter Flounder 
Fifty sexually mature (at least three years old) winter flounder were taken
from each of five sampling sites in April 2001 (Lefkovitz et al. 2002).
Each of the fish was examined for physical characteristics. Fifteen fish
from Deer Island Flats, the outfall site, and eastern Cape Cod Bay were
designated for chemical analyses. All fish were used for histological and
age analyses. 
Figure 6-2. Prevalence of centrotubular hydropic vacuolation (CHV) (ECCB = Eastern
Cape Cod Bay, OS = Outfall Site, BS = Broad Sound, NB = Nantasket Beach, and DIF =
Deer Island Flats) 
Overall, the fish appeared healthy, and no response to the outfall was
detected. 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.
For the second year in a row, CHV prevalence at Deer Island Flats was
higher than the year before (Figure 6-2). Conversely, CHV prevalence
dropped at the outfall site and Broad Sound. In 2001, there was some
suggestion that the increase in CHV at Deer Island could be related to the
increasingly older fish collected since 1999.
Overall, body burdens of organic contaminants in edible tissues were
similar to burdens in previous years. Mercury concentrations were similar
to 1999 and 2000. Concentrations of organic contaminants in flounder
livers were also comparable to concentrations measured in prior years.
Over all the years of sampling, concentrations of organic compounds have 
0
20
40
60
80
100
1991 1992 1993 1994 1995 1996 1997 1998 1999 2000 2001
Year
CHV (% Prevalence)
ECCB
OS
BS
NB
DIF
Baseline mean
Caution
Outfall Startup

2001 OUTFALL MONITORING OVERVIEW 59 
tended to be highest in liver tissue of fish from Deer Island Flats and
lowest in those from eastern Cape Cod Bay. However, metals
concentrations have been highest in fish from the outfall site and lowest in
those from eastern Cape Cod Bay. In 2001, concentrations of lead and
cadmium were at the upper end of the historical range at the outfall site,
similar to 1999 and 2000. In eastern Cape Cod Bay, concentrations of
mercury were the lowest measured during the program. 
Lobster 
Fifteen lobsters were taken from each of the three sampling locations
during July through September (Lefkovitz et al. 2002). The lobsters were
approximately the same weight and size at all sites. Mostly males were
found at eastern Cape Cod Bay and Deer Island Flats. Females
predominated at the outfall site. No gross abnormalities or other
deleterious conditions were noted in any of the lobsters collected during
the survey.
As in previous years, contaminant concentrations in lobster meat were
low. The highest concentrations of most organic contaminants in tail and
claw meat were found in lobsters taken from Deer Island Flats, and the
lowest concentrations were found in lobsters taken from eastern Cape Cod
Bay. Following a different pattern, mercury concentrations were highest
in samples taken at the outfall site and lowest in those from Cape Cod
Bay. This pattern was also consistent throughout the baseline-monitoring
period. Concentrations of mercury in the claw and tail meat were in the
middle of the historical range.
The inter-regional pattern of organic contaminant burdens in lobster
hepatopancreas was the same as in prior years, with the highest
concentrations in lobsters from Deer Island Flats. Concentrations of
organic contaminants tended to be similar to or lower than in previous
years at all three locations.
Historically, concentrations of metals in lobster hepatopancreas have been
more variable than concentrations of organic contaminants, with
concentrations often as high or higher in animals from the outfall site and
eastern Cape Cod Bay as in those from Deer Island Flats. In 2001,
concentrations were within the historic range. 
Blue Mussel 
Full mussel arrays were recovered after 40 and 60 days (Lefkovitz et al. 
2002). Survival was high, ranging from 98 to 100% for both 40- and 60-
day deployments.
Table 6-1 summarizes the results of the 2001 bioaccumulation data for
contingency plan constituents at the four test locations and the control site.

2001 OUTFALL MONITORING OVERVIEW 60 
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. 
Table 6-1. 2001 mussel bioaccumulation results 
Parameter Outfall Site Cape Cod
Bay
Boston
Harbor Deer
Island
Boston Inner
Harbor
Rockport
(Control)
PCB
(ppm wet weight) 0.0096 0.0131 0.0302 0.0383 0.0017
Lead
(ppm wet weight) .024 0.32 0.48 0.97 0.17
Mercury
(ppm wet weight) 0.018 0.018 0.017 0.020 0.013
Chlordane
(ppb lipid) 250 63 122 233 52
Dieldrin
(ppb lipid) 25 17 22 56 11
DDT
(ppb lipid) 205 203 356 907 122
PAH
(ppb lipid) 3,024 1,116 3,485 26,488 1,134 
In this first bioacculation test since the outfall came on-line, some
contaminants, such as lead, mercury, PCBs, and DDT, remained at low
levels at both the outfall site and in Cape Cod Bay. The test detected an
increase in other contaminants (chlordane, dieldrin, and PAHs) at the
outfall site only, indicating that the effluent is the probable source. For
chlordane and PAHs, concentrations exceeded the contingency plan
caution levels. 
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 6-2). 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.

2001 OUTFALL MONITORING OVERVIEW 61 
Table 6-2. Contingency plan baseline, threshold, and 2001 values for fish and shellfish
monitoring 
Parameter
Type/
Location
Parameter Baseline Caution
Level
Warning
Level
2001
Results
PCB 0.033 ppm 1 ppm wet weight 1.6 ppm wet
weight 0.027 ppm
Mercury 0.074 ppm 0.5 ppm wet
weight
0.8 ppm wet
weight 0.08 ppm
Chlordane 242 ppb/g lipid 484 ppb/g lipid None 144 ppb/g lipid
Dieldrin 63.7 ppb/g lipid 127 ppb/g lipid None 68.1 ppb/g lipid
Flounder
tissue
nearfield
DDT 775.9 ppb/g
lipid 1552 ppb/g lipid None 596 ppb/g lipid
Flounder
nearfield
Liver disease
(CHV) 24.4% 44.9% None 6%
PCB 0.015 ppm 1 ppm wet weight 1.6 ppm wet
weight 0.0097 ppm
Mercury 0.148 ppm 0.5 ppm wet
weight
0.8 ppm wet
weight 0.15 ppm
Chlordane 75 ppb/g lipid 150 ppb/g lipid None 49.5 ppb/g lipid
Dieldrin 161 ppb/g lipid 322 ppb/g lipid None 172 ppb/g lipid
Lobster tissue
nearfield
DDT 341.3 ppb/g
lipid 683 ppb/g lipid None 305 ppb/g lipid
PCB 0.011 ppm 1 ppm wet weight 1.6 ppm wet
weight 0.0096 ppm
Lead 0.415 ppm 2 ppm wet weight 3 ppm wet
weight 0.24 ppm
Mercury 0.019 ppm 0.5 ppm wet
weight
0.8 ppm wet
weight 0.02 ppm
Chlordane 102.3 ppb/g
lipid 205 ppb/g lipid None
250 ppb/g lipid,
caution level
exceedance
Dieldrin 25 ppb/g lipid 50 ppb/g lipid None 25.2 ppb/g lipid
DDT 241.7 ppb/g
lipid 483 ppb/g lipid None 205 ppb/g lipid
Mussel tissue
nearfield
PAH 1080 ppb/g lipid 2160 ppb/g lipid None
3020 ppb/g
lipid, caution
level
exceedance 
During 2001, the caution thresholds for PAHs and chlordane were
exceeded in mussels, prompting evaluation of treatment plant operations,
the mussel deployments, and the chemical analyses. The review found
that the treatment plant was functioning well during the period of mussel
deployment, achieving near-optimal removal levels of contaminants.
Almost all of the flow received secondary treatment during the mussel-
deployment period. Even in the undiluted effluent, concentrations of
chlordane were at most, near the water quality criteria for marine receiving
waters.
There were three deployments near the outfall site, located 15 m, 60 m,
and 1000 m from the outfall diffuser (Figure 6-3). Deployments at these

2001 OUTFALL MONITORING OVERVIEW 62 
three locations allowed MRWA to examine contaminant concentrations
data on a fine geographic scale (Hunt et al . 2002c).
Concentrations of PAHs and chlordane were highest in mussels deployed
15 meters from the outfall, intermediate in those deployed 60 meters from
the outfall, and lowest in those deployed 1000 m from the outfall.
(Mussels from all three of these locations had greater concentrations of
PAHs and chlordane than those deployed at Deer Island or in Cape Cod
Bay.)
MWRA compared data from these three deployments with estimates of
predicted contaminant concentrations. The predictions were based on
concentrations of the contaminants in the effluent, dilution as measured
during the July dye study, and calculated bioconcentration factors.
Although there is considerable uncertainty in the factors used to make the
predictions, the results indicated a reasonable match between the predicted
and actual measurements. Further, the measured data, while exceeding the
caution thresholds, were not at levels that pose a toxicological risk to
mussels or a public health risk to humans. 
Figure 6-3. Locations of mussel deployments in the vicinity of the outfall site

2001 OUTFALL MONITORING OVERVIEW 63 
Consequently, the findings prompted a review of the methods used to
develop the thresholds. The review found that at the time that the
thresholds were developed, MWRA did not anticipate any appreciable
change in concentrations of contaminants in animals that naturally occur
near the outfall. Thus thresholds were set as a simple “doubling” of the
baseline concentrations. This approach was reasonable for mobile
animals, which would not be expected to show any changes in
contaminant concentrations. However, it should have been anticipated
that concentrations of contaminants in caged animals located within the
effluent plume would increase over the low baseline levels. MWRA will
obtain more detailed estimates of PAH and chlordane in the effluent
discharges during the summer of 2002 and may suggest that threshold
values for PAH and chlordane in mussels are overly conservative and
should be changed.

2001 OUTFALL MONITORING OVERVIEW 64
7. 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. For example, MWRA has a
program to monitor Boston Harbor, which in 2001, documented dramatic
improvements in water quality following diversion of the effluent from the
harbor to Massachusetts Bay. MWRA also monitors nutrient cycling in
the harbor and the bay and makes observations of marine mammals during
water column and other surveys. On the recommendations of an OMSAP
committee, the Bays Eutrophication Model Evaluation Group (BEMEG),
MWRA has been working to improve the Bays Eutrophication Model.
Also, MWRA monitoring is augmented by USGS studies of sediments and
sediment trap samples near the outfall. 
Improved Water Quality in Boston Harbor 
Since the beginnings of the Boston Harbor Project, MWRA has been
documenting improvements to the harbor. Each aspect of the project,
including ending of sludge discharges in 1991, transfer of all wastewater
to Deer Island Treatment Plant for secondary treatment in 1998, continued
controls on CSO discharges, and the ending of effluent discharges to the
harbor in 2000, has been a benefit to the harbor.
The improvements to water quality in the harbor following the ending of
effluent discharges were immediate and striking (Figure 7-1, Table 7-1;
Taylor 2002), and the magnitude of change seen in 2001 is not expected to
continue in the future. Twelve months after the transfer of effluent to the
offshore outfall, there were large decreases in nitrogen, phosphorus, and
chlorophyll concentrations over most of the harbor. Average total
nitrogen concentrations declined by 31%, largely due to an 83% decrease
in ammonia concentrations. Significant decreases in total nitrogen were
found at all harbor stations, including the south harbor. Decreases in
phosphorus concentrations followed a similar pattern. Summer
chlorophyll concentrations were the lowest measured since monitoring
began in 1995, declining by 50%. These results were consistent with
those predicted by the Bays Eutrophication Model.

2001 OUTFALL MONITORING OVERVIEW 65 
Figure 7-1. Spatial patterns of nitrogen, chlorophyll, water clarity (k), and
salinity changes in Boston Harbor. Shaded areas enclose the sampling stations
where significant changes were observed. 
There were also smaller, more localized increases in water clarity,
decreases in counts of sewage-indicator bacteria, and very localized
increases in concentrations of dissolved oxygen in bottom waters. Water
clarity, measured by beam attenuation k, increased significantly in the
northern and inner portions of the harbor and in Hingham Bay.
Salinity also increased throughout the harbor. The increase was less than
1 part per thousand and mostly in the southern harbor. The small increase
was consistent with predictions made by the USGS (R.Signell, USGS
Wood Hole, unpublished data).

2001 OUTFALL MONITORING OVERVIEW 66 
Table 7-1. Summary of the improvements in water quality in Boston Harbor
following transfer of effluent discharge to the bay. Solid arrows indicate changes
that were statistically significant for the harbor as a whole. Open arrows
indicate changes that were significant at some stations. 
Nutrient Flux 
MWRA has conducted studies of benthic nutrient cycling within Boston
Harbor and in Massachusetts Bay since 1992. In 2001, studies were
conducted at four sites in the harbor, three sites in the nearfield, and one
site in Stellwagen Basin. No results showed any consistent response to
relocation of the outfall (Tucker et al. 2002).
Sediment respiration rates in the bay were not especially high in 2001, less
than those recorded in 1999 and 2000, possibly because phytoplankton
biomass was lower. Nitrogen, phosphorus, and silica flux rates were not

2001 OUTFALL MONITORING OVERVIEW 67 
unusual. There were also no obvious changes in sediment carbon or
pigment concentrations.
One concern that has motivated conducting these studies has been that
organic matter, toxic contaminants, or nutrients from the relocated outfall
could affect the sediment biogeochemistry of the bay. Stations monitored
in the bay are located within the depositional areas that would be most
likely to exhibit an effect. The processes studied, however, are not
expected to show any immediate response to change, but rather to provide
a measurement of long-term changes. 
Marine Mammal Observations 
Several endangered or threatened species of whales and turtles regularly
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 2001, observers were included on 29 surveys
(McLeod 2002). Besides providing observational data, presence of trained
marine mammal observers addresses a request by 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 2001 surveys, 20 individual whales, 30 harbor porpoise, and
more than 100 Atlantic white-sided dolphins were sighted by the trained
observers and other members of the monitoring team (McLeod 2002).
Whale sightings included 7 right whales, 4 humpback whales, 4 minke
whales, and 5 animals that could not be identified to species (Figure 7-2).
The whale sightings were concentrated in Cape Cod Bay, but were also
made throughout the bay, including the nearfield and Stellwagen Bank
National Marine Sanctuary.
More right whales were sighted than in previous years. However, fewer
total numbers of whales were seen in 2001 compared to 1999 and 2000,
possibly because fewer sampling routes led through Stellwagen Bank,
where many sightings had been made in previous years. Interpretation of
the sightings data is difficult, because observations are made
opportunistically, that is, on surveys devoted to other purposes, rather than
by following systematic transects.
Observations of Stellwagen Bank made by the Whale Center of New
England throughout 2001 indicated that humpback and fin whales
occurred in low numbers during May and June. Humpback whales were

2001 OUTFALL MONITORING OVERVIEW 68 
abundant along the southern portion of the bank from July through
November. Fin and minke whales were sighted throughout the region.
Systematic surveys of Cape Cod Bay, which have been conducted by the
Center for Coastal Studies, found the number and seasonal occurrence of
whales in 2001 was similar to previous years. For the first time since
1997, whale calves were present. 
Figure 7-2. MWRA whale sightings during 2001

2001 OUTFALL MONITORING OVERVIEW 69
Modeling 
In 1992, MWRA established a Model Evaluation Group (MEG) to advise
MWRA, USGS, and HydroQual, Inc. on the development of predictive
circulation and water-quality models. That group oversaw development
and calibration of the Bays Eutrophication Model. OMSAP later
established a successor committee, the Bays Eutrophication Model
Evaluation Group (BEMEG) to review and recommend any changes to the
model or the monitoring program that would improve the capabilities of
models to predict circulation and water quality. BEMEG’s reviews have
covered model calibration, sensitivity of the predicted concentrations of
dissolved oxygen and dissolved inorganic nitrogen near the outfall to
changes in variables at the boundary stations, and attempts to improve
predictions of the fall phytoplankton bloom.
BEMEG has made several recommendations for further work. For
example, at an April 2002 meeting, BEMEG recommended additional
model runs to determine whether the model captures changes resulting
from closing the Nut Island plant and implementing secondary treatment.
The group also recognized the importance of conditions in the western
Gulf of Maine on Massachusetts Bay and recommended continued and
improved sampling of water properties along the upstream boundary,
which MWRA has been obtaining from the Gulf of Maine Ocean
Observation System mooring. 
USGS Sediment Studies 
The USGS has been independently studying suspended and bottom
sediments near the outfall since 1989, and in 2001, USGS scientists
published the first results on concentrations of metals and bacteria spores
before and after discharge began (Bothner et al. in press). USGS samples
two nearfield stations (MWRA Stations NF12 and NF17, see Section 5,
Sea Floor) and has deployed a time-series sediment trap 1.3 km south of
the outfall and 4.2 meters above the bottom at a water depth of about 30
meters.
USGS has found that silver, which is used in film processing, is a good
sewage tracer in sediments. Since 1989, concentrations of silver and the
bacterial tracer Clostridium perfringens spores in surface sediments have
followed similar patterns (Figure 7-3). Concentrations of both tracers
increased dramatically in 1992, following a December storm when waves
reached 8 meters in height. Presumably, the storm resulted in
resuspension and transport of fine sediments and contaminants from
inshore to offshore, depositional areas. By 1994, concentrations of

2001 OUTFALL MONITORING OVERVIEW 70 
sewage tracers in surficial sediments had returned to the levels they had
been before the storm. USGS has not detected any effect of the outfall on
concentrations of sewage tracers in the sediments. In 2001, concentrations
of silver and the bacterial tracer were within the range of natural
variability for the baseline period. 
Figure 7-3. Silver and Clostridium perfringens spores in surface sediments (from
Bothner et al. in press) 
Analyzing contaminant concentrations in sediment traps has been a more
sensitive measure of the effects of the outfall. Except during storms, when
there is considerable resuspension, sediment traps isolate particles from
older sediments, which may be mixed by bioturbation. USGS found no
changes in concentrations of chromium, zinc, or copper in sediment trap
samples before and after outfall start-up (Figure 7-4). Silver
concentrations did increase slightly, and concentrations of C. perfringens 
spores doubled. A general correspondence between concentrations of the
two tracers indicates a common source, that is, the outfall. The levels,

2001 OUTFALL MONITORING OVERVIEW 71 
although elevated, are within the range that USGS found in 1996 and
1997, when the sewage outfall was in Boston Harbor but secondary
treatment had not been implemented. 
Figure 7-4. Average concentrations of metals and bacteria spores in sediment
trap samples before and after outfall start-up (from Bothner et al. in press)

2001 OUTFALL MONITORING OVERVIEW 72
8. 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 Gulf of Maine. It extends to 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 thus is a long-term sink for
fine-grained sediments. Rising 165 feet to its east is Stellwagen Bank, a
sand-and-gravel plateau, with water depths of about 65 feet. Currents
from the Gulf of Maine and the basin create a rich habitat for marine life
on Stellwagen Bank.
The sanctuary is currently revising its 1993 management plan. Ongoing
scoping meetings have listed five issues of concern (Table 8-1). 
Table 8-1. Issues of concern for the Stellwagen Bank National Marine Sanctuary 
Management Plan Issues 
 Alteration of seafloor habitat and ecosystem
protection 
 Impacts of human activities on marine
mammals 
 Condition of water quality 
 Lack of public awareness 
 Effective enforcement 
The MWRA permit recognizes the 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

2001 OUTFALL MONITORING OVERVIEW 73 
the Gulf of Maine. Eight water-column stations located just inshore from
the sanctuary are considered “offshore” stations by the MWRA program.
Figure 8-1 shows also shows for reference four non-MWRA stations,
which were sampled by Battelle for the Sanctuary management in August
and October 2001. The results are described in a SBNMS report (Hunt et
al. 2002d) and compared to MWRA stations. Taken together, the data
showed that the water quality in the sanctuary is excellent, even though
physical attributes of salinity and temperature in the northern region of the
sanctuary are spatially quite variable. 
Figure 8-1. Water column stations, including the additional Stellwagen Bank National Marine
Sanctuary (SBNMS) stations sampled in August and October 2001

2001 OUTFALL MONITORING OVERVIEW 74 
Two MWRA sea-floor stations are within the sanctuary, one at the
southern boundary and one within Stellwagen Basin. 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 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 and southeastward
in Massachusetts Bay. These stations are sampled annually in August. 
Results
Water Column 
Overall, water quality within the sanctuary was excellent during 2001.
There were no elevated levels of ammonia, which if present could have
indicated that the plume was being transported to sanctuary waters.
Mean concentrations of dissolved oxygen in bottom waters of Stellwagen
Basin were 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 2001 was 7.8
mg/l, well above the 6.2 mg/l contingency plan background (Figure 8-2). 
Figure 8-2. Survey mean dissolved oxygen concentrations in Stellwagen Basin,
1992-2001 
As in previous years, levels of nutrients and chlorophyll within the
sanctuary were at the upper end but in the same range as levels at other 
5
6
7
8
9
10
11
12
13
Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec
DO (mg L -1 ) 
Baseline Range
Baseline Mean
2001

2001 OUTFALL MONITORING OVERVIEW 75 
monitoring stations and no changes could be attributed to the outfall
(Figure 8-3). 
Figure 8-3. Survey mean nitrate and chlorophyll in and near the Stellwagen
Bank National Marine Sanctuary (boundary) and other regions of Massachusetts
and Cape Cod bays 
Hydrodynamic modeling suggests that effluent will not enter the sanctuary
until after the plume has reached dilutions of about 1000:1 or greater. The
summer plume-tracking studies supported the model predictions, with
dilutions of hundreds to one being reached while the plume was several
days of transport and mixing away from the sanctuary boundary (Hunt et
al. 2002b). 
0
1
2
3
4
5
6
7
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001
Year
NO3 (  M)
Nearfield Boundary Cape Cod Outfall Startup
0
20
40
60
80
100
120
140
160
180
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001
Year
Chlorophyll (mg m -2 )
Boundary Nearfield Cape Cod Outfall Startup

2001 OUTFALL MONITORING OVERVIEW 76
Sea Floor 
No changes in concentrations of sewage tracers or contaminants in
sediments or in benthic community parameters were observed at stations
within the sanctuary in 2001. Grain size and TOC concentrations in the
sediments sampled within and near the sanctuary were unchanged from
the baseline period. Contaminant concentrations remained consistently
low (Figure 8-4, top). At each of the stations, lead concentrations
decreased slightly during the 1990s and did not increase when the offshore
outfall began operation. These results are consistent with results from the
nearfield, which indicated that only a slight increase in lead could be
detected within 2 km of the diffuser.
Likewise, PCB concentrations in the sediments in 2001 were similar to or
lower than concentrations measured in 1995 (Figure 8-4, middle).
Concentrations of other contaminants (not shown) and numbers of sewage
tracer Clostridium perfringens spores further indicated that there was no
substantive influence of the outfall on the sediments (Figure 8-4, bottom).
Concentrations of Clostridium perfringens spores peaked in the mid
1990s, and in 2001 they were at or below levels measured in the early
1990s. This trend was especially apparent at Station FF04, which is
located within Stellwagen Basin. That station is characterized by fine-
grained sediments and high TOC concentrations.
Multivariate community-composition analyses are designed to measure
similarity in the benthic communities found at individual stations. In
2001, as in all baseline years, these analyses indicated that all four
deepwater stations, including the two stations within the sanctuary, had
similar benthic community compositions (Figure 8-5). Theses four
stations form a station group whose communities are more similar to each
other than to the communities of other farfield stations. For example, the
four stations shared six to nine of their most abundant (dominant) species,
whereas they shared only three to five dominant species with stations
located within Cape Cod Bay.

2001 OUTFALL MONITORING OVERVIEW 77 
Figure 8-4. Representative contaminant data from stations in and near the
Stellwagen Bank National Marine Sanctuary (Refer to Figure 8-5 for station
locations.) 
S B N M S B e nth ic S ta tion s
0
1 0
2 0
3 0
4 0
5 0
6 0
7 0
1 992 1 993 1 994 19 95 19 96 19 97 19 98 19 99 20 00 20 01
Y ear
Lead (ppm dry)
F F 05
F F 04
F F 11
F F 14
O u tfall S ta rtu p
S B N M S B e nth ic S ta tion s
0
1,00 0
2,00 0
3,00 0
4,00 0
5,00 0
1 992 1 993 1994 1995 1996 199 7 199 8 199 9 20 00 20 01
Year
Clostridium (cfu/g dry)
F F 05
F F 04
F F 11
F F 14
O u tfall S tartu p
S B N M S B e nth ic S ta tion s
0
5
10
15
20
25
30
35
40
199 2 199 3 19 94 1 995 1 996 1 997 1 998 1999 200 0 200 1
Ye ar
Total PCB (ppb dry)
F F 05
F F 04
F F 11
F F 14
O u tfall S tartu p

2001 OUTFALL MONITORING OVERVIEW 78 
Figure 8-5. Multidimensional scaling analyses of similarities in benthic infaunal communities in
2001 
Individual benthic community parameters showed no change following
start-up of the outfall in 2000 (Figure 8-6). Infaunal abundance at the four
stations was within the historic range. The number of species per sample
increased during 1995-1998, paralleling results from throughout
Massachusetts Bay.

2001 OUTFALL MONITORING OVERVIEW 79 
Figure 8-6. Benthic community measurements from stations in and near the
Stellwagen Bank National Marine Sanctuary 
SBNMS Benthic Stations
0
500
1000
1500
2000
2500
3000
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001
Year
Abundance (individuals/sample)
FF05
FF04
FF11
FF14
Outfall Startup
5200
SBNMS Benthic Stations
0
10
20
30
40
50
60
70
80
1992 1993 1994 1995 1996 1997 1998 1999 2000 2001
Year
Species per sample
FF05
FF04
FF11
FF14
Outfall Startup

2001 OUTFALL MONITORING OVERVIEW 80
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2001 OUTFALL MONITORING OVERVIEW 84
List of Acronyms 
BEM Bays Eutrophication Model
BEMEG Bays Eutrophication Model Evaluation Group
BIH Boston Inner Harbor
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
DI Deer Island
DIF Deer Island Flats
DITP Deer Island Treatment Plant
DMF Massachusetts Division of Marine Fisheries
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
IAAC Inter-agency Advisory Committee
LC50 50% mortality concentration
MADEP Massachusetts Department of Environmental Protection
MEG Model Evaluation Group
MGD Million gallons per day
MWRA Massachusetts Water Resources Authority
NASA National Air and Space Administration
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
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
USGS U.S. Geological Survey
TCR Total chlorine residual
TOC Total organic carbon
TSS Total suspended solids

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Boston, MA 02129
(617) 242-6000
http://www.mwra.com

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