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Allison H. Roy

Publications and source records attributed to Allison H. Roy.

At least 19 recordsLinked to original sources

Using demographic estimation and power analysis to inform monitoring efforts and detect declines in freshwater mussels

Population assessments can be used to determine species' viability and inform conservation efforts; however, obtaining sufficient data quality and quantity can be challenging when monitoring resources are scarce. Brook Floater ( Alasmidonta varicosa ) is a freshwater mussel that is state listed in the United States as endangered or threatened in 10 of the 14 states it occupies. Despite the conservation concern, little is known about the size and demographics of most Brook Floater populations. The primary objective of this study was to determine demographic parameters (abundance and survival) for Brook Floater at five newly established, long-term monitoring sites in Maine and Massachusetts, United States. A secondary objective was to evaluate tradeoffs of potential future sampling strategies by state natural resource agencies at these monitoring sites. Mussels were sampled at each site using visual and tactile snorkel surveys twice each summer during 2018–2020 and marked with alphanumeric tags to distinguish individuals. We considered a candidate set of capture-recapture models that allowed parameters to vary depending on year, sampling occasion, and individual shell length. Abundance estimates among sites varied widely, from 29 individuals (range: 12–119) in the Nissitissit River in Massachusetts to 311 individuals (range: 307–320) in the East Branch of the Pleasant River in Maine. Annual survival was high across all sites (0.87–0.96). Given the differences in capture probability and abundance between states, we determined the statistical power available to detect given population declines in Massachusetts and explored alternative population abundance estimators in Maine. The power analysis suggested that the existing sampling regimen in Maine is likely adequate while sampling in Massachusetts may require additional occasions each year to realistically detect population declines with sufficient statistical power. This analysis demonstrates the utility of considering sampling frequency when designing capture-recapture studies for freshwater mussels and other taxa.

Maine, Massachusetts

Watershed forest cover and habitat restoration can offset some negative impacts of climate change on freshwater fishes and mussels

Many species of freshwater fishes and freshwater mussels have experienced population declines over the past century due to threats including habitat degradation, overexploitation, species invasion, and climate change. Management actions may offset climate-related changes to biodiversity, although identifying appropriate strategies is challenging. Our goal was to identify the impacts of climate change on freshwater biota (i.e., fish and mussel) distribution and management actions that may offset the climate change impacts across the northeastern United States. We used land use, geography, stream temperature, and streamflow variables to predict species distribution in a baseline scenario, climate change scenario, and several climate change plus land use management scenarios. We found climate change negatively impacted (i.e., reduced the probability of occurrence of) coldwater fishes and reduced the relative occurrence probability of fluvial specialist and coolwater fishes compared to other species. Increasing watershed forest cover best offset these negative impacts and minimized the predicted transition from coldwater fish dominance to warmwater fish dominance in coldwater habitats; however, no intervention fully offset the negative impacts of climate change on vulnerable fish groups (i.e., coldwater and fluvial specialist fishes). Climate change negatively impacted all vulnerable groups of mussels (e.g., lotic species, drying intolerant) and mussel species richness. Combining multiple management interventions (e.g., increase forest cover, dam removal, etc.) had the greatest potential to offset the negative impacts of climate change for freshwater mussels and fishes. This study provides managers a comparison of management interventions across a landscape to combat the impacts of climate change on biota in streams and rivers.

Connecticut, Maine, Massachusetts, New Hampshire,

Urban heterogeneity drives dissolved organic matter sources, transport, and transformation from local to macro scales

Urbanization reshapes dissolved organic matter (DOM) sources, transport, and transformations through changes in vegetation, hydrology, and management of waste and water. Yet the impacts of urbanization on DOM are variable within and among cities. Predicting heterogeneous responses to urbanization is challenged by diverse human activities and underlying biophysical variation along stream networks. Using data from the 486 largest urban areas in the continental United States and seven focal cities, we identified macro and local scale urban gradients in social, built, and biophysical factors that are expected to shape DOM. We used these gradients and the literature to develop hypotheses about heterogeneity in DOM quantity and quality within and among cities. Interactions among landscape and infrastructure attributes across spatial and temporal scales result in heterogeneous responses in DOM. Characterizing and quantifying these inconsistent responses to urbanization in contrasting settings may help to better understand heterogeneity and identify generalities among urban watersheds.

continental United States

Catchment prioritization for freshwater mussel conservation in the Northeastern United States based on distribution modelling

Freshwater mussels are critical to the health of freshwater systems, but their populations are declining dramatically throughout the world. The limited resources available for freshwater mussel conservation necessitates the geographic prioritization of conservation-related actions. However, lack of knowledge about freshwater mussel spatial distributions hinders decision making in this context. In this study, we assessed the distribution of twelve native freshwater mussel species across six Northeastern states (Connecticut, Rhode Island, Massachusetts, Vermont, New Hampshire, and Maine) in the United States using data collected from lentic and lotic environments by eight state agencies. We first modeled individual distributions using a maximum entropy (MaxEnt) model and then compiled distribution models to assess the distribution of freshwater mussel species richness. We also determined geographic prioritization for three conservation-related actions: species surveys, land protection, and population restoration of species of high conservation concern. We found that the percent of catchments predicted to have species occurrence (based on a probability threshold) varied across species, with Elliptio complanata (Eastern elliptio) predicted to occur in the greatest percent of available catchments (33.92%) and Alasmidonta heterodon (Dwarf wedgemussel) expected in the smallest percent (5.30%). The predicted overall species richness within our modeled catchments ranged from zero to all twelve species, with an average of two species per catchment. Although conservation priorities vary depending on the conservation action of interest, we found some areas of consistent importance including much of Maine and the southern reaches of the Connecticut River. An improved understanding of freshwater mussel distribution in a landscape framework will enable managers to implement more precise and efficient conservation interventions for these essential aquatic species.

Connecticut, Maine, Massachusetts, New Hampshire,

The story of the Penobscot River Ecology Mural: A 10-step process for scientists to create public art

Rivers are home to a wide variety of biota, including fishes, amphibians, reptiles, birds, freshwater mussels, aquatic insects, and microscopic organisms that fill unique niches to support broader ecosystem functions. While the general public may be aware of recreationally relevant biological life (e.g., fishes and insects to model flyfishing flies from), they may not be aware of more obscure yet important taxa. For example, freshwater mussels (Unionidae) improve water quality and clarity of rivers through filtration ( Vaughn, 2018), which is vital to riverine ecosystems. Despite this importance, lack of public knowledge about freshwater mussels is the second biggest challenge to their management ( Bouska et al., 2018). How do we best get the public to see value in underappreciated taxa to support their conservation? Public art installations can spread awareness about science effectively because they distill information for broader audiences, are eye-catching, and reach people through an emotional, aesthetic, and personal lens ( Thompson et al., 2023). While invertebrates are generally viewed by the public with fear and aversion ( Kellert, 1993) this can be ameliorated through interaction and learning, particularly for children ( Miller et al., 2025). Through cross-disciplinary collaboration between artists, scientists and the local community, we created the “Penobscot River Ecology Mural,” a scientifically informed artwork featuring underappreciated taxa like mussels and insects. In this article, we will elucidate the story of how we successfully made this piece through 10 steps, which provide a blueprint for future endeavors.

Maine

Salting behaviors influence urban stream conductivity in Boston, Massachusetts (USA)

Freshwater salinization is a major concern in temperate climates where road salt is used as a deicer to manage snow and ice on roadways. In urban and suburban areas, wastewater, weathering of infrastructure, and salting on parking lots and sidewalks can also contribute to salt contamination, but little is known about how well these sources explain variation in stream conductivity and what factors may mitigate high conductivity in streams. We collected specific conductance samples seasonally over 1 y at 100 stream sites in the greater Boston (Massachusetts, USA) metropolitan area, which reflected a gradient of land use/cover and sociodemographic variables. We also continuously monitored specific conductance over 1 y (November 2021–December 2022) at 3 streams with different levels of impervious cover. Baseflow conductivity from grab samples was best explained by % impervious cover (positive relationship) and season (highest median conductivity in summer and early autumn) ( r 2 = 0.47, p < 0.001). At high impervious cover, watersheds with higher housing vacancy had lower conductivity, suggesting that resident salting behavior may affect conductivity. Continuous conductivity varied with discharge, with spikes in conductivity coincident with increases in discharge in the winter, likely due to the influx of road salt into waterways. In the summer, higher discharge was linked with sharp decreases in conductivity, suggesting that storm flows dilute high baseflow conductivity, although combined sewer overflows caused secondary conductivity pulses. Overall, conductivity was highest during winter storm pulses, but elevated conductivity levels persisted throughout the year, especially in more impervious watersheds. Our research suggests that reduced salt application and street sweeping may reduce conductivity but will not prevent continued salinization. Temporal patterns of conductivity highlight the importance of seasonal road-salt application (winter), seasonal climate (low-flow summers), and precipitation (storm events, droughts) in influencing stream conductivity and can guide monitoring design, policymaking, and management decisions under climate uncertainty.

Massachusetts

Climate and land use drivers of freshwater fish biodiversity in the northeastern United States

Freshwater habitats can sustain high biodiversity, but habitat degradation, species invasion, and overexploitation have imperiled freshwater species. The multiple threats to freshwater habitats and changing stream characteristics due to climate change make it challenging to identify the drivers of fish vulnerability, especially given that the importance of drivers may vary by the biodiversity endpoint. The goals of this study were to 1) describe freshwater (lotic) fish biodiversity across northeastern states in the United States, and 2) identify geographic, climate, and land use drivers of fish biodiversity, toward improving freshwater fish conservation. We predicted habitat suitability for 53 fish species using survey data and corresponding geographic, climate, and land use data. After model fitting, we grouped species using a traditional approach based on traits and a new approach using modeled streamflow and stream temperature to create clusters. We found that climate and land use vulnerable groups did not always have similar geographic patterns or relationships to the climate or land use variables, suggesting that biota vulnerable to changing conditions may be overlooked by reliance on predefined guilds to set conservation goals. Biodiversity groups that were vulnerable to climate variables were also related to land use variables that can be used to identify restoration opportunities. This approach may be useful for managers interested in holistic freshwater management under changing stream conditions.

Connecticut, Maine, Massachusetts, New Hampshire,

Modeling daily ice cover in northern hemisphere lakes with a long short‐term memory neural network

Quantifying lake ice loss is crucial for understanding the impact of climate change on lake ecosystems. In this study, we trained a deep learning model (Long-Short Term Memory with Landsat observations, 1984–2012) to simulate Northern Hemisphere lake ice changes at a fine spatial scale (> 0.1 km 2 ) from 1980 to 2022. The model achieved good performance overall during the test period (2013–2022), and the derived ice-on and ice-off matched well with two independent ice phenology data sets. Results reveal a 76.8% increase in intermittently ice-covered lakes from the 1980s to the 2010s, alongside a 10.7-day shorter ice duration and a 3.9 percentage-points reduction in annual mean ice cover fractions. The model can track daily partial ice cover changes, providing a novel contribution to understanding shifts in lake ice cover with climate change. These findings can provide valuable insights for future limnology studies, such as improving estimates of greenhouse gas emissions from lakes.

Geophysical Research Letters

Spatial and temporal variation in dissolved organic matter in urban streams in metropolitan Boston, Massachusetts (USA)

Urban riverine systems are heterogeneous, and the substantial variability in impervious cover, riparian cover, wetlands, and wastewater and stormwater infrastructure affect sources and transport of dissolved organic matter (DOM), of which dissolved organic C (DOC) is a substantial component. An understanding of the quantity, bioavailability, and timing of DOM inputs (a key energy source for food webs and a component of nutrient cycling) to streams within cities can help to better evaluate drivers of DOM variability. We sampled 100 stream sites in the greater Boston (Massachusetts, USA) area spanning a range of land cover, riparian vegetation, stream size, housing and infrastructure age, and sociodemographic characteristics. Water samples collected during 4 seasonal synoptic events in 2021 and 2022 were analyzed for DOC concentration and DOM characteristics (using fluorescence excitation–emission matrices and absorbance spectra). Temporally, we observed more-autochthonous DOM and lower DOC concentrations in the summer, possibly due to low precipitation and streamflow disconnecting streams from humic wetland and soil C sources. Consistent with other studies, we observed that more-urbanized streams had DOM that was less humic and more autotrophic. Higher wetland cover was associated with more-humic, higher-molecular-weight DOM and was the strongest predictor of DOM characteristics, suggesting that managers should consider the impacts of development on DOM, stream ecological functions, and CO 2 emissions. Interestingly, except during the very dry summer, sites downstream of combined sewer outfalls showed distinctly higher concentrations of protein-like DOM, suggesting the influence of sewage overflows and highlighting the potential for monitoring wastewater contamination using protein-like DOM. Although sociodemographic variables were not strong predictors of DOM composition, we observed a possible association between lower-income areas with less canopy cover and more-autochthonous DOM and between areas with older housing, more canopy cover, and more-humic DOM. These patterns suggest that equitable repair of wastewater infrastructure and restoration of riparian vegetation is needed.

Massachusetts

Quality assessment of past spawning mark estimations from a long-term survey in the Connecticut River watershed

The calcified structures of fishes provide insight into their periodic growth rates and can be combined with other biological variables to identify metrics such as size or age at maturity and mortality rates. Collecting this information on growth and life history can help evaluate the success of conservation efforts and inform future management decisions for a species in need. However, before these life history data can be applied to larger stock assessments that direct management decisions, confidence in the validity of the data needs to be reported through metrics of accuracy and precision. For this report, we assessed the bias and precision of paired reader estimations of spawning marks on scales of Blueback herring (Alosa aestivalis) collected in the U.S. Fish & Wildlife (USFWS) Annual Adult River Herring Stock Assessment for the lower Connecticut River basin. The paired reads on scales from a total of 8,698 fish over the ten years of the long term monitoring program were evaluated for the annual presence of systematic bias and precision using a combination of qualitative (i.e., frequency tables) and quantitative (i.e., Evan’s and Hoenig’s Test of Symmetry, and Coefficient of Variation (CV) calculations) analyses. While seven out of the ten survey years had systematic bias detected by the tests of symmetry, only three years (2013, 2016, 2018) had imprecision values >10% CV threshold. Data were further categorized into specific age classes within survey years to increase our resolution on where bias and imprecision was most prevalent. While the ability for accurate bias detection was limited by sufficient sample sizes (>25 fish), average imprecision values increased with age, and median age classes (4 through 6) commonly had bias detected. However, the removal of insufficient age classes prior to calculating average annual CV did not significantly change the initial average. Lastly, 2023, which was the first year to implement a standardized training procedure prior to production estimating, had the highest precision for both the annual average and specific age classes compared to all prior survey years. This standardized training procedure will continue to be used by USFWS for the lower Connecticut River tributaries, and can be modified for other river systems. Overall, this report’s results highlight the importance of assessing precision and encourage the standardization of spawning mark identification quality control and assurance for future studies. With more quality assessments and baseline information on precision and bias, there can be more beneficial discussion on defining thresholds and how to implement spawning history variability into catch curve analyses.

Connecticut, Massachusetts

Range-wide ecology, conservation, and research needs for yellow lampmussel (Lampsilis cariosa)

The freshwater mussel yellow lampmussel ( Lampsilis cariosa ) is declining throughout its range along the Atlantic Slope of the eastern United States and Canada, and the species is a target for proactive conservation to avoid federal listing. This paper synthesizes information about the ecology (physiology and life history, host fishes, and habitat), species distribution, genetics, and threats to L. cariosa . Identified threats include climate change, habitat alteration, and invasive species, dependent on location. We outline 16 emergent research and conservation management needs based on literature review and discussion with stakeholders (state and federal mussel biologists, researchers, and tribal groups). These needs range from research on the basic physiology and behavior of the species, to creating standardized protocols for surveys and DNA sampling, to ultimately developing a range-wide species conservation and restoration plan. Addressing these information gaps and incorporating the findings into future management may facilitate the implementation and success of large-scale restoration and conservation initiatives such as habitat protection and reintroduction of L. cariosa to historical locations.

Hydrobiologia

Overcoming challenges in mapping hydrography and heterogeneity in urban landscapes

Understanding how water moves through a watershed is one of the most fundamental yet often complicated aspects of hydrology, especially in urban areas. Urban infrastructure and water management alter natural hydrological pathways in developed watersheds, which can violate assumptions of a watershed approach to ecosystem science. We focus on two aspects of urban landscapes that often create challenges to model watershed processes within and among urban areas: (1) accurate delineation of urban flow paths and (2) consistent characterisation of the urban landscape within and among cities. Here, we describe these challenges and identify how certain components of these challenges can be addressed, highlighting examples and lessons learned in a project that is assessing scales and drivers of variability in dissolved organic carbon across five urban centres in the United States. Our goal is to facilitate a dialogue that will advance the applications of watershed approaches in urban ecosystem science by recognising and addressing these challenges. Our examples focus on the United States but could be applicable to similar urban challenges in other locations globally.

Florida, Massachusetts, Utah

Museum records provide unique information about the distribution of the Yellow Lampmussel Lampsilis cariosa (Unionidae)

Natural history museum records may provide unique information on the distribution of species that can supplement survey data collected by resource managers. However, there can be challenges to using museum data for analyses, such as spurious geographic information, misidentifications, and incorrect labeling. Museum records have been centralized by open-source repositories with flags for coordinate precision and out-of-range specimens, providing some information about record uncertainty in general. Verification of uncertain museum records could increase confidence in distribution data and improve understanding of biodiversity patterns and range dynamics through time. The goal of this study was to determine if museum records provide unique information about the distribution of the Yellow Lampmussel Lampsilis cariosa (Say, 1817), an at-risk freshwater mussel species. We created a dichotomous key based on a hierarchy of conchological characteristics to verify the taxonomic identity of flagged L. cariosa specimens and assessed records occurring outside of the species’ expected range as compiled from primary literature. Fifty percent of flagged specimens were confirmed as L. cariosa . Of the invalid records, 56% were misidentifications, mainly of other Lampsilis species. Overall, museum collections (1800s–present) contributed 32 unique watersheds not represented by modern survey records (1980s–present, comprising 92 watersheds) including 13 unexpected watersheds in regions of New York and Vermont (USA) and Québec and Ontario (Canada). Our study provides a reproducible method for the reverification of freshwater mussel museum records and highlights how these records can provide unique contributions to our understanding of the geographic range of a rare, at-risk mussel species.

New York, Vermont

An approach to urban waterway assessment using holistic values and reciprocity

Current aquatic ecosystem assessment methods and tools often focus on physical, chemical, and biological indicators of ecosystem health. This approach to ecosystem assessment is not always straightforward to execute in urban environments and ignores potential connectivity between social and environmental outcomes. During a workshop at the Symposium on Urbanization and Stream Ecology in Brisbane, Australia in 2023 (SUSE6), we developed an approach to urban aquatic ecosystem assessment that incorporates a holistic perspective. Specifically, our approach considers both environmental (biological, chemical, and physical integrity) and social (community connection, human safety, resource use) values of urban waterways. This approach is inclusive of Indigenous perspectives, such as the concept of reciprocity, whereby consideration of both the environment and society leads to a healthy ecosystem. To highlight how this holistic assessment approach could be used, we present real-world examples that included assessing both environmental and societal values informed by reciprocity or balanced perspectives. This approach can be broadly applied and adapted to specific aquatic ecosystem conditions and projects, providing an inclusive, community-centered approach for assessing the health of waterways in urban environments.

Freshwater Science

River herring influence perch morphology, physiology, and life history

Anadromous fishes play important roles in nutrient dynamics for freshwater ecosystems; however, the trophic pathways have been less documented for iteroparous species like river herring ( Alosa pseudoharengus and A. aestivalis ) compared to semelparous species like Pacific salmon ( Oncorhynchus spp.). Given recent increases in restoration activities to improve connectivity, an understanding of how anadromous river herring influence the morphology, physiology, and life history of predatory fishes can help predict restoration responses. We aimed to quantify the trophic influence of juvenile anadromous river herring on predatory white perch ( Morone americana ) and yellow perch ( Perca flavescens ) using a combination of stable isotopes, growth rates, and condition indices. We sampled six lakes in coastal Massachusetts—three lakes with anadromous river herring and three similar lakes without river herring. Bayesian mixing models of δ 13 C and δ 15 N indicated white perch consumed juvenile river herring in higher proportions (69–75%) compared to co-occurring prey fishes (11–16%). Lakes with juvenile river herring contained perch with significantly higher condition values, higher immature growth rates (age 1 and 2), lower mature growth rates (> age 3), significantly smaller mature lengths, and lower mortality rates compared to perch in lakes without river herring. These divergent life history traits of perch in response to consumption of juvenile river herring are consistent with observations in other predatory fishes. Direct links between river herring and predator condition, growth, and life history trajectories suggest broad influences on ecosystem structure across trophic levels through physiological, morphometric, and life history modifications.

Massachusetts

Concepts and evolution of urban hydrology.

Urbanization and climate change are exacerbating the flood risk and ecosystem degradation in urban catchments, with traditional stormwater management systems often overwhelmed. In this Review, we discuss changes in urban hydrology and approaches to stormwater management. Roughly 90% of rainfall on impervious surfaces and drainage infrastructure becomes run-off, enhancing rainfall export away from cities and leading to local water scarcity and downstream flooding and pollution. Projected increases in urban populations (68% in cities by 2050) and rainfall intensity (~12% in the 10-year and 50-year recurrence interval intensity, under 1.5 °C warming) will exacerbate these issues. Transforming stormwater systems is thus urgently needed, to mitigate flood risk and also to address community desires for environmental protection and enhanced water security. Opportunities include rain gardens and other nature-based stormwater control measures (which restore natural flows and offer other ecosystem services), smart sensor monitoring networks and real-time management (which sustain natural flow regimes, mitigate flood risk and protect ecosystem services) and stormwater harvesting (to avoid local water scarcity). Community acceptance of stormwater harvesting is as high as 96% and stormwater is a substantial resource, with volumes often exceeding demand in some parts of the world. Delivering additional transformations globally requires research into strategies to incentivize engagement and investment, and policies to guide governance of decentralized networks.

Nature Reviews Earth & Environment

Population density and zooplankton biomass influence anadromous juvenile river herring growth in freshwater lakes

Anadromous river herring populations, collectively alewife ( Alosa pseudoharengus ) and blueback herring ( Alosa aestivalis ), have experienced a multi-century decline in abundance and distribution. These declines have been attributed in part to anthropogenic threats in freshwater ecosystems (e.g., habitat fragmentation, overharvest, water pollution, watershed development). An understanding of variability in juvenile productivity and growth is critical to developing restoration approaches. We characterized variability in juvenile river herring growth among 11 freshwater lakes in the northeastern USA. We used age estimates from otoliths and length measurements to calculate growth rates of juvenile river herring ( n = 1452). We tested the effects of juvenile river herring densities, zooplankton (biomass and size), habitat area (based on thermocline depth), and water quality (temperature, nutrients, chlorophyll a ) on juvenile growth. Mean monthly growth rates ranged from 0.56 to 1.41 mm/d and typically increased throughout the summer. Increased juvenile growth was best predicted by lower juvenile density ( β = − 0.104, P < 0.001) and higher zooplankton biomass ( β = 0.032, P < 0.05). Combined with information about juvenile densities and mortality, these results broaden the understanding of anadromous juvenile river herring productivity, provide information that can contribute to refining stock assessment and life cycle models, and help to better understand the potential impacts of habitat conservation and restoration decisions.

Connecticut, Maine, Massachusetts, New Hampshire,

A video monitoring and computational system for estimating migratory juvenile fish abundance in river systems

Diadromous fishes migrate between marine and fresh waters for reproduction. For anadromous species, which spawn in freshwater, improved access to freshwater spawning and nursery habitats and ability of juveniles to emigrate to the ocean may support population recovery. Despite the potentially enormous influence of early life stage survival on adult population size, managers and scientists have limited capacity to assess numbers of juvenile anadromous fishes leaving freshwater ecosystems. Such data are critical for evaluating reproductive success and habitat suitability and have been identified as a top priority in anadromous fish research and management. We developed a state-of-the-art underwater video and computational system to collect videos to estimate abundances and migration timing for juvenile river herring ( Alosa pseudoharengus ; Alosa aestivalis ). We collected continuous video in the Monument River (Bourne, Massachusetts, USA) from June to November 2017. We trained three types of neural network models to detect and count fish in video frames and evaluated model performance by comparing human counts to model outputs. Our top model assessed presence and absence ( F 1 = 87%) and counted fish (counting error 9.4%) with an accuracy comparable to human counters ( F 1 = 88%). Our system's capability to collect accurate counts of emigrating juveniles will provide critical information that could be related to the numbers of spawning adults, system-specific productivity, and spawning and nursery habitat suitability. Both the video collection system and computational model may be transferrable to other sites and for other species where tracking juvenile emigration may inform management efforts.

Massachusetts