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1. A Decade of Time Series Sampling Reveals Thermal Variation and Shifts in Pseudo-nitzschia Species Composition That Contribute to Harmful Algal Blooms in an Eastern US Estuary

   https://doi.org/10.3389/fmars.2022.889840  

   Roche, Katherine M.; Sterling, Alexa R.; Rynearson, Tatiana A.; Bertin, Matthew J.; Jenkins, Bethany D. (July 2022, Frontiers in Marine Science)

   Mulholland, Margaret R (Ed.)

   In 2016-17, shellfish harvesting closed for the first time in Narragansett Bay, Rhode Island, USA, from domoic acid (DA), a neurotoxin produced by diatoms of the Pseudo-nitzschia genus. Pseudo-nitzschia have occurred frequently for over 60 years in Narragansett Bay’s Long-Term Plankton Time Series (NBPTS), therefore it is surprising that the first closure only recently occurred. Pseudo-nitzschia species are known to vary in their toxin production, thus species identification is critical for understanding the underlying ecological causes of these harmful algal blooms (HABs). DNA in plankton biomass can be preserved for many years, so molecular barcoding of archived samples is useful for delineation of taxa over time. This study used amplification of the Pseudo-nitzschia -specific 18S-5.8S rDNA internal transcribed spacer region 1 (ITS1) in plankton samples and high throughput sequencing to characterize Pseudo-nitzschia species composition over a decade in Narragansett Bay, including eight years before the 2016-17 closures and two years following. This metabarcoding method can discriminate nearly all known Pseudo-nitzschia species. Several species recur as year-round residents in Narragansett Bay ( P. pungens var. pungens, P. americana, P. multiseries , and P. calliantha ). Various other species increased in frequency after 2015, and some appeared for the first time during the closure period. Notably, P. australis , a species prevalent in US West Coast HABs and known for high DA production, was not observed in Narragansett Bay until the 2017 closure but has been present in several years after the closures. Annual differences in Pseudo-nitzschia composition were correlated with physical and chemical conditions, predominantly water temperature. The long-term composition trends of Pseudo-nitzschia in Narragansett Bay serve as a baseline for identifying the introduction of new species, understanding shifting assemblages that contributed to the 2016-17 closures, and monitoring species that may be cause for future concern. 

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2. Multi‐year time series reveals temporally synchronous diatom communities with annual frequency of recurrence in a temperate estuary

   https://doi.org/10.1002/lno.12400  

   Fontaine, Diana N.; Rynearson, Tatiana A. (July 2023, Limnology and Oceanography)

   Abstract Diatoms are among the most abundant phytoplankton that inhabit coastal ecosystems, forming large blooms that fuel coastal food webs. Although diatoms are often large and morphologically distinct, many are small or morphologically cryptic making it difficult to understand the temporal dynamics of whole diatom communities and the environmental factors that drive them. Here, we investigated diatom diversity and its environmental correlates using 6 yr of monthly surface water samples from the Narragansett Bay Plankton Time Series to investigate the seasonal and annual variability of diatom species occurrence. High‐throughput amplicon sequencing of filtered biomass yielded 658 diatom amplicon sequence variants (ASVs), of which 347 were identified to species. Of the 49 diatom genera in the sequencing dataset, 33% had never been observed in the time series using microscopy (1959–2014). We observed a weak quadratic relationship between ASV richness and chlorophyll‐aconcentrations, suggesting that richness decreases during blooms. There was a significant difference in diatom ASV richness by season and we identified distinct assemblages associated with different seasons. These assemblages were remarkably synchronous, exhibiting a sinewave‐like pattern, over 6 yr with an annual periodicity that correlated significantly with seasonal changes in temperature, light, and dissolved inorganic nitrogen. The annual cycle of diatom assemblages suggests stability in a key component of the estuarine food web known to influence ecosystem resilience and function. Deviations from the annual cycle of recurrence could be used to distinguish between changes in community structure driven by annual fluctuations in the environment and those driven by climate‐change stressors. 

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3. Metabarcoding Reveals Temporal Patterns of Community Composition and Realized Thermal Niches of Thalassiosira Spp. (Bacillariophyceae) from the Narragansett Bay Long-Term Plankton Time Series

   https://doi.org/10.3390/biology9010019  

   Rynearson, Tatiana A.; Flickinger, Sarah A.; Fontaine, Diana N. (January 2020, Biology)

   Diatoms generate nearly half of marine primary production and are comprised of a diverse array of species that are often morphologically cryptic or difficult to identify using light microscopy. Here, species composition and realized thermal niches of species in the diatom genus Thalassiosira were examined at the site of the Narragansett Bay (NBay) Long-Term Plankton Time Series using a combination of light microscopy (LM), high-throughput sequencing (HTS) of the 18S rDNA V4 region and historical records. Thalassiosira species were identified over 6 years using a combination of LM and DNA sequences. Sixteen Thalassiosira taxa were identified using HTS: nine were newly identified in NBay. Several newly identified species have small cell diameters and are difficult to identify using LM. However, they appeared frequently and thus may play a significant ecological role in NBay, particularly since their realized niches suggest they are eurythermal and able to tolerate the >25 °C temperature range of NBay. Four distinct species assemblages that grouped by season were best explained by surface water temperature. When compared to historical records, we found that the cold-water species Thalassiosira nordenskioeldii has decreased in persistence over time, suggesting that increasing surface water temperature has influenced the ecology of phytoplankton in NBay. 

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4. Connectivity of toxigenic Pseudo-nitzschia species assemblages between the Northeast U.S. continental shelf and an adjacent estuary

   https://doi.org/10.1016/j.hal.2024.102738  

   Roche, Katherine M; Church, Isabella N; Sterling, Alexa R; Rynearson, Tatiana A; Bertin, Matthew J; Kim, Andrew M; Kirk, Riley D; Jenkins, Bethany D (November 2024, Harmful Algae)

   Gobler, Christopher (Ed.)

   Pseudo-nitzschia harmful algal blooms have recently caused elevated domoic acid in coastal environments of the Northeast United States. In 2017, the toxigenic species P. australis was observed in Narragansett Bay, Rhode Island, a temperate estuarine ecosystem, for the first time since 2009 when DNA monitoring for Pseudo-nitzschia species began. This highly toxic species likely contributed to toxin-related shellfish harvest closures and is hypothesized to have been introduced by an offshore source. Little is known about offshore Pseudo-nitzschia spp. populations in the Northeast Continental Shelf marine ecosystem or how often toxigenic species enter Narragansett Bay through physical processes. Here, we collected filtered biomass samples from multiple time series sites within Narragansett Bay and along the Northeast U.S. Shelf Long-Term Ecological Research transect in winter and summer to investigate the frequency and seasonality of potential Pseudo-nitzschia spp. inflow from the continental shelf to the estuary. Species were taxonomically identified using DNA sequencing of the ITS1 region and domoic acid concentrations were quantified by liquid chromatography with tandem mass spectrometry and multiple reaction monitoring. During six years of sampling, Pseudo-nitzschia species assemblages were more similar between Narragansett Bay and the Northeast shelf in winter than summer, suggesting greater ecosystem connectivity in winter. These winter assemblages were often accompanied by higher domoic acid. Several Pseudo-nitzschia species co-occurred most often with domoic acid and were likely responsible for toxin production in this region, including P. pungens var. pungens, P. multiseries, P. calliantha, P. plurisecta, P. australis, and P. fraudulenta. Domoic acid was detected during periods of relatively low macronutrient concentrations in both seasons, warmer sea surface temperatures in winter, and colder temperatures in summer within this dataset. This study represents some of the first domoic acid measurements on the offshore Northeast U.S. Continental Shelf, a region that supplies water to other coastal environments and could seed future harmful algal blooms. The elevated domoic acid and frequency of hypothesized inflow of toxigenic Pseudo-nitzschia spp. from the Northeast continental shelf to Narragansett Bay in winter indicate the need to monitor coastal and offshore environments for toxins and harmful algal bloom taxa during colder months. 

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5. Modeling 25 years of food web changes in Narragansett Bay (USA) as a tool for ecosystem-based management

   https://doi.org/10.3354/meps13505  

   Innes-Gold, A; Heinichen, M; Gorospe, K; Truesdale, C; Collie, J; Humphries, A (November 2020, Marine Ecology Progress Series)

   null (Ed.)

   Narragansett Bay (Rhode Island, USA) is an estuary undergoing changes from a combination of rising water temperatures, nutrient fluxes, and human uses. In this study, we created an ecosystem food web model and evaluated its ability to predict functional group biomasses. Specifically, we used Ecopath to construct 2 mass-balanced models covering different time periods in Narragansett Bay: a historical model using data from 1994-1998 and a present-day model that represents 2014-2018. With the historical model as a starting point, we used Ecosim fit to time series data and projected forward to present-day values, forcing the model with both phytoplankton biomass and fishing mortality. The biomass of most mid- and upper trophic level groups increased by 2018, with the exception of carnivorous benthos, which experienced a large decline. There were changes in the composition of fisheries, with a large increase in recreational benthivorous fish landings and a decrease in commercial landings of planktivorous fish and suspension feeding benthos. The inclusion of fishing mortality and phytoplankton biomass as forcing functions, as well as adjusting the vulnerability levels of prey, greatly improved our model fits for all functional groups with the exception of gelatinous zooplankton. Our ecosystem model was able to correctly predict the direction of change for all fish and fished invertebrate groups with a relatively high degree of precision, particularly for the upper trophic levels. Thus, this ecosystem model is broadly applicable and suitable to project trends in the Narragansett Bay food web associated with localized and adaptive ecosystem-based management. 

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