Waquoit Bay Research Publications – A comprehensive list of the ~175 peer-reviewed research publications for work conducted partially or wholly within Waquoit Bay Reserve is maintained by our Research Department. If you have additions for this list, please contact the Research Coordinator.


Ackerman, J., and J. Lloret. 2023. Bioaccumulation of microplastics along a gradient of urbanization and potential effects on ribbed mussel respiration and feeding rates. Rhodes Journal of Biological Science Vol. 33:5-12.

Tyrrell, M.C., Courtney, S., Brown, E., and von Sperber, C. (2023). Burrowing crabs’ influence on tidal marsh vegetation species composition and abundance in a temperate back-barrier marsh, Cape Cod, Massachusetts, USA. Journal of Experimental Marine Biology and Ecology, 567.

Ruyle, B.J., Thackray, C.P., Butt, C.M., LeBlanc, D.R., Tokranov, A.K., and Sunderland, E.M. (2023). Centurial Persistence of Forever Chemicals at Military Fire Training Sites. Environmental Science and Technology, 57(21):8096–8106.

Carden, L., Lloret, J., Kidwell, S.M. (2023). Dead molluscan shells from multiple trophic groups as archives of nitrogen isotopic evidence of wastewater gradients in estuaries. Marine Pollution Bulletin, 189.

Song, S., Wang, Z.A., Kroeger, K.D., Eagle, M., Chu, S.N., and Ge, J. (2023). High-frequency variability of carbon dioxide fluxes in tidal water over a temperate salt marsh. Limnology and Oceanography, 68(9):2108-2125.


Montefiore, Lise R., and Natalie G. Nelson. “Can a simple water quality model effectively estimate runoff-driven nutrient loads to estuarine systems? A national-scale comparison of STEPLgrid and SPARROW.” Environmental Modelling & Software 150 (2022): 105344.

Fouse, Jacqualyn A., et al. “Estimating the aboveground biomass and carbon stocks of tall shrubs in a prerestoration degraded salt marsh.” Restoration Ecology (2022): e13684

Sanders-DeMott, Rebecca, et al. “Impoundment increases methane emissions in Phragmites-invaded coastal wetlands.” Global Change Biology (2022).

Zaki, M.T., Abdul-Aziz, O.I. Predicting greenhouse gas fluxes in coastal salt marshes using artificial neural networks. Wetlands 42, 37 (2022). https://doi.org/10.1007/s13157-022-01558-2

Colman, John A., and John P. Masterson. “Transient Simulations of Nitrogen Load for a Coastal Aquifer and Embayment, Cape Cod, Massachusetts.”


Valiela, I., Lloret, J., Chenoweth, K., Elmstrom, E., & Hanacek, D. (2021). Control of N Concentrations in Cape Cod Estuaries by Nitrogen Loads, Season, and Down-Estuary Transit: Assessment by Conventional and Effect-Size Statistics. Estuaries and Coasts, 44, 1294 – 1309.

Tamborski, J., Eagle, M., Kurylyk, B.L., Kroeger, K., Wang, Z.A., Henderson, P., & Charette, M.A. (2021). Pore water exchange driven inorganic carbon export from intertidal salt marshes. Limnology and Oceanography, 66(5), 1774–1792.

Lloret, J., Pedrosa-Pamies, R., Vandal, N., Rorty, R., Ritchie, M., McGuire, C., Chenoweth, K., & Valiela, I. (2021). Salt marsh sediments act as sinks for microplastics and reveal effects of current and historical land use changes. Environmental Advances, 4.


Peter, C., B. Fischella, K. Raposa, M. Terryll, J. Allen, J. Mora, J. Goldstein, C. Feurt, L. Crane, D. Burdick. 2020. A Guide to Integrate Plant Cover Data From Two Different Methods: Point Intercept and Ocular Cover. NERRs Science Collaborative, NOAA, 4pp

huzhen Song, Zhaohui Aleck Wang, Meagan Eagle Gonneea, Kevin D. Kroeger, Sophie N. Chu, Daoji Li, Haorui Liang, An important biogeochemical link between organic and inorganic carbon cycling: Effects of organic alkalinity on carbonate chemistry in coastal waters influenced by intertidal salt marshes, Geochimica et Cosmochimica Acta, Volume 275, 2020, Pages 123-139, ISSN 0016-7037, https://doi.org/10.1016/j.gca.2020.02.013. (http://www.sciencedirect.com/science/article/pii/S001670372030123X)

Braun, Gregory E. 2020. Cost-Benefit Analysis of Macroalgal Harvesting for Nitrogen Abatement. Master’s thesis, Harvard Extension School.

Ishtiaq, K. S., & Abdul-Aziz, O. I. (2020). Ecological parameter reductions, environmental regimes, and characteristic process diagram of carbon dioxide fluxes in coastal salt marshes. Scientific reports, 10(1), 1-12.

Johnson, L., & Lloret, J. Effects of excess nutrients on the carbon metabolism of the macroalga Ulva. https://www.mbl.edu/ses/files/2012/12/Johnson-Lauren.pdf

Burdick, D.M., C.R. Peter, B. Fischella, K. Raposa, M. Tyrrell, J. Allen, J. Mora, J. Goldstein, C. Feurt, L. Crane. 2020. ‘How To’ Guide for Synthesizing NEERs Marsh Monitoring Data. NEERs Science Collaborative, pp.15.

Spivak, A., Ceccherini, G., Gonneea, M., Luk, S., & Tyrrell, M. Modeling the spatial dynamics of marsh ponds in New England salt marshes. Geomorphology, 107262 https://doi.org/10.1016/j.geomorph.2020.107262

Andres, K., Keeran, D., & Johnson, K. (2020). State of the Waters: Cape Cod.


Rahman, S., Tamborski, J. J., Charette, M. A., & Cochran, J. K. (2019). Dissolved silica in the subterranean estuary and the impact of submarine groundwater discharge on the global marine silica budget. Marine Chemistry, 208, 29-42.

Raposa, K.B., Goldstein, J.S., Grimes, K.W., Mora, J. Stacey, P.E., & McKinnney, R.A. (2019). A comparative assessment of salt marsh crabs (Decapoda: Brachyura) across the National Estuarine Research Reserves in New England, USA. Journal of Crustacean Biology.

Grice, A. B., & Peredo, E. L. A genetics-based study of Gracilaria species on Cape Cod.

Powell, E. J., Tyrrell, M. C., Milliken, A., Tirpak, J. M., & Staudinger, M. D. (2019). A review of coastal management approaches to support the integration of ecological and human community planning for climate change. Journal of Coastal Conservation, 23(1), 1-18.

Nguyen, W. D., Tamborski, J., & Charette, M. A. (2019). Applications of the Radium Quartet to Quantify Water Exchange in Salt Marshes. AGUFM, 2019, B43J-2615.

May, M. K. (2019). Characterizing bacterial antibiotic resistance, prevalence, and persistence in the marine environment. Massachusetts Institute of Technology. Doctoral Dissertation

Ortega-Arbulú, A. S., Pichler, M., Vuillemin, A., & Orsi, W. D. (2019). Effects of organic matter and low oxygen on the mycobenthos in a coastal lagoon. Environmental microbiology, 21(1), 374-388

Foster, S. Q., & Fulweiler, R. W. (2019). Estuarine sediments exhibit dynamic and variable biogeochemical responses to hypoxia. Journal of Geophysical Research: Biogeosciences, 124(4), 737-758.

Cahoon, D. R. (2019). Hurricane Sandy impacts on coastal wetland resilience: US Geological Survey Open-File Report 2018–1142, 117 p. Open file report.

Barbaro, J. R., Belaval, M., Truslow, D. B., LeBlanc, D. R., Cambareri, T. C., & Michaud, S. C. (2019). Hydrologic Site Assessment for Passive Treatment of Groundwater Nitrogen With Permeable Reactive Barriers, Cape Cod, Massachusetts. Retrieved from https://pubs.usgs.gov/sir/2019/5047/sir20195047.pdf

Coskun, Ö. K., Özen, V., Wankel, S. D., & Orsi, W. D. (2019). Quantifying population-specific growth in benthic bacterial communities under low oxygen using H 2 18 O. The ISME journal, 13(6), 1546-1559.

Rheuban, J. E., Doney, S. C., McCorkle, D. C., & Jakuba, R. W. (2019). Quantifying the effects of nutrient enrichment and freshwater mixing on coastal ocean acidification. Journal of Geophysical Research: Oceans, 124(12), 9085-9100.

Tepolt, CK, Darling, JA, Blakeslee, AM, Fowler, AE, Torchin, ME, Miller, AW, Ruiz, GM. Recent introductions reveal differential susceptibility to parasitism across an evolutionary mosaic. https://doi.org/10.1111/eva.12865

ME Gonneea CV Maio KD Kroeger AD Hawkes J Mora R Sullivan S Madsen RM Buzard N Cahill JP Donnelly. Salt marsh ecosystem restructuring enhances elevation resilience and carbon storage during accelerating relative sea-level rise.  Estuarine, Coastal and Shelf Science 217 (2019) 56–68.

Foster, S. Q. (2019). The biogeochemical response of shallow estuarine ecosystems to coastal hypoxia (Doctoral dissertation). Boston University

Using carbon isotopic signatures of Ulva spp.(sea lettuce) as indicators of coastal eutrophication. https://www.academia.edu/43490329/Using_carbon_isotopic_signatures_of_Ulva_spp_sea_lettuce_as_indicators_of_coastal_eutrophication


Kristin Byrd, L. Ballanti, N. Thomas, D. Nguyen, J. R Holquist, M. Simard, Lisamarie Windham-Myers. (2018). A remote sensing-based model of tidal marsh aboveground carbon stocks for the conterminous United States. ISPRS Journal of Photogrammetry and Remote Sensing 139:255-271

Gonneea, M.E., O’Keefe Suttles, J.A., Kroeger, K.D., 2018. Collection, analysis, and age-dating of sediment cores from salt marshes on the south shore of Cape Cod, Massachusetts, from 2013 through 2014. US Geol. Surv. Data Release Https doi: org105066F7H41QPP.

I. Djukic, S. Kepfner-Rojas, I. K. Schmidt, K. S. Larsen, C. Beier, B. Berg, K. Verheyen. Early stage litter decomposition across biomes. Science of the Total Environment 628-629 (2018) 1369-1394

Omar I Abdul-Aziz, Khandker S Ishtiaq, Jianwu Tang, Serena Moseman-Valtierra, Kevin D Kroeger, Meagan Eagle Gonneea, Jordan Mora, Kate Morkeski. 2018. Environmental controls, emergent scaling, and predictions of greenhouse gas (GHG) fluxes in coastal salt marshes. Journal of Geophysical Research: Biogeosciences. https://doi.org/10.1029/2018JG004556

Gavazzi, G., & Lloret, J. 2018. High nitrogen content as a feeding cue for invertebrates in New England salt marshes. https://www.mbl.edu/ses/files/2012/12/Gavazzi.pdf

Tanya L. Rogers Tarik C. Gouhier David L. Kimbro. 2018. Temperature dependency of intraguild predation between native and invasive crabs. Ecology. 99(4): 885-895 https://doi.org/10.1002/ecy.2157

Wang, F., Kroeger, K.D., Gonneea, M.E., Pohlman, J.W., & Tang, J. (2018). Water salinity and inundation control soil carbon decomposition during salt marsh restoration: An incubation experiment. Ecology and Evolution, 9, 1911–1921.


Crosby, S.C., Angermeyer, A., Adler, J.M., Bertness, M. D., Deegan, L.A., Sibinga, N., & Leslie, H.M. (2017). Spartina alterniflora Biomass Allocation and Temperature: Implications for Salt Marsh Persistence with Sea-Level Rise. Estuaries and Coasts, 40(1), 213-223. http://link.springer.com/article/10.1007/s12237-016-0142-9


Angermeyer, A., Crosby, S.C., & Huber, J.A. (2016). Decoupled distance–decay patterns between dsrA and 16S rRNA genes among salt marsh sulfate‐reducing bacteria. Environmental Microbiology, 18(1), 75-86. http://onlinelibrary.wiley.com/doi/10.1111/1462-2920.12821/full

Bay, C.C. (2016) Potential Effects of Sea-Level Rise on the Depth to Saturated Sediments of the Sagamore and Monomoy Flow Lenses on Cape Cod, Massachusetts. https://pubs.usgs.gov/sir/2016/5058/sir20165058.pdf

Brannon, E. Q., Moseman-Valtierra, S. M., Rella, C.W., Martin, R.M., Chen, X. and Tang, J. (2016), Evaluation of laser-based spectrometers for greenhouse gas flux measurements in coastal marshes. Limnol. Oceanogr. Methods, 14: 466–476. doi:10.1002/lom3.10105. http://onlinelibrary.wiley.com/doi/10.1002/lom3.10105/full

Chen, H., Hagerty, S., Crotty, S.M., & Bertness, M.D. (2016). Direct and indirect trophic effects of predator depletion on basal trophic levels. Ecology, 97(2), 338-346. http://onlinelibrary.wiley.com/doi/10.1890/15-0900.1/full

Foster, S.Q., & Fulweiler, R.W. (2016).Sediment nitrous oxide fluxes are dominated by uptake in a temperate estuary. Frontiers in Marine Science, 3, 40. http://journal.frontiersin.org/article/10.3389/fmars.2016.00040/full

Maio, C.V., Donnelly, J.P., Sullivan, R., Madsen, S.M., Weidman, C.R., Gontz, A.M., & Sheremet, V.A. (2016). Sediment dynamics and hydrographic conditions during storm passage, Waquoit Bay, Massachusetts. Marine Geology, 381, 67-86. http://www.sciencedirect.com/science/article/pii/S0025322716301438

Manning, C.C., Stanley, R.H., & Lott III, D.E. (2016). Continuous measurements of dissolved Ne, Ar, Kr, and Xe ratios with a field-deployable gas equilibration mass spectrometer. Analytical chemistry, 88(6), 3040-3048. http://pubs.acs.org/doi/abs/10.1021/acs.analchem.5b03102

Moseman‐Valtierra, S., Abdul‐Aziz, O. I., Tang, J., Ishtiaq, K. S., Morkeski, K., Mora, J., & Carey, J. (2016). Carbon dioxide fluxes reflect plant zonation and belowground biomass in a coastal marsh. Ecosphere, 7(11). http://onlinelibrary.wiley.com/doi/10.1002/ecs2.1560/full

Newell, S. E., Pritchard, K. R., Foster, S. Q., & Fulweiler, R. W. (2016). Molecular evidence for sediment nitrogen fixation in a temperate New England estuary. PeerJ, 4, e1615. https://peerj.com/articles/1615/

Newell, S. E., McCarthy, M. J., Gardner, W. S., & Fulweiler, R. W. (2016). Sediment Nitrogen Fixation: a Call for Re-evaluating Coastal N Budgets. Estuaries and Coasts, 39(6), 1626-1638. http://link.springer.com/article/10.1007/s12237-016-0116-y

Price, A. M., Pospelova, V., Coffin, M. R., Latimer, J. S., & Chmura, G. L. (2016). Biogeography of dinoflagellate cysts in northwest Atlantic estuaries. Ecology and Evolution, 6(16), 5648-5662. http://onlinelibrary.wiley.com/doi/10.1002/ece3.2262/full

Raposa, K. B., et al. (2016). Assessing tidal marsh resilience to sea-level rise at broad geographic scales with multi-metric indices. Biological Conservation, 204, 263-275. http://www.sciencedirect.com/science/article/pii/S0006320716305742

Ray, R. L., & Dogan, A. (2016). Contemporary Methods for Quantifying Submarine Groundwater Discharge to Coastal Areas. In Emerging Issues in Groundwater Resources (pp. 327-364). Springer International Publishing. http://link.springer.com/chapter/10.1007/978-3-319-32008-3_12

Sheremet, V. A., & Mora, J. W. (2016). Precision Monitoring of Water Level in a Salt Marsh with Low Cost Tilt Loggers. In EGU General Assembly Conference Abstracts (Vol. 18, p. 8794). http://adsabs.harvard.edu/abs/2016EGUGA..18.8794S

Valiela, I., Owens, C., Elmstrom, E., & Lloret, J. (2016). Eutrophication of Cape Cod estuaries: Effect of decadal changes in global-driven atmospheric and local-scale wastewater nutrient loads. Marine Pollution Bulletin, 110(1), 309-315. http://www.sciencedirect.com/science/article/pii/S0025326X16304519

Walsh, J., Rowe, R. J., Olsen, B. J., Shriver, W. G., & Kovach, A. I. (2016). Genotype environment associations support a mosaic hybrid zone between two tidal marsh birds. Ecology and Evolution, 6(1), 279-294. http://onlinelibrary.wiley.com/doi/10.1002/ece3.1864/full

Wang, Z. A., Kroeger, K. D., Ganju, N. K., Gonneea, M. E., & Chu, S. N. (2016). Intertidal salt marshes as an important source of inorganic carbon to the coastal ocean. Limnology and Oceanography, 61(5), 1916-1931. http://onlinelibrary.wiley.com/doi/10.1002/lno.10347/full


Bertness, M.D., Brisson, C.P., & Crotty, S.M. (2015). Indirect human impacts turn off reciprocal feedbacks and decrease ecosystem resilience. Oecologia, 178(1), 231-237. http://link.springer.com/article/10.1007/s00442-014-3166-5

Crosby, S.C., Ivens-Duran, M., Bertness, M.D., Davey, E., Deegan, L.A., & Leslie, H.M. (2015). Flowering and biomass allocation in US Atlantic coast Spartina alterniflora. American Journal of Botany, 102(5), 669-676.

Foster, S.Q., & Fulweiler, R.W. (2015). Corrigendum: Spatial and historic variability of benthic nitrogen cycling in an anthropogenically impacted estuary. Frontiers in Marine Science, 2, 70. http://journal.frontiersin.org/article/10.3389/fmars.2015.00070/full

Hiller, K.A., Foreman, K.H., Weisman, D., & Bowen, J.L.(2015).Permeable reactive barriers designed to mitigate eutrophication alter bacterial community composition and aquifer redox conditions.Applied and environmental microbiology, 81(20), 7114-7124. http://aem.asm.org/content/81/20/7114.short

Ishtiaq, K.S., & Abdul-Aziz, O.I. (2015).User-Friendly Predictive Modeling of Greenhouse Gas (GHG) Fluxes and Carbon Storage in Tidal Wetlands. In AGU Fall Meeting Abstracts. http://adsabs.harvard.edu/abs/2015AGUFM.B21H0574I

Long, M.H., Charette, M.A., Martin, W.R., & McCorkle, D.C. (2015). Oxygen metabolism and pH in coastal ecosystems: Eddy Covariance Hydrogen ion and Oxygen Exchange System (ECHOES). Limnology and Oceanography: Methods, 13(8), 438-450. http://onlinelibrary.wiley.com/doi/10.1002/lom3.10038/full

Martin, R.M., & Moseman-Valtierra, S. (2015). Greenhouse gas fluxes vary between Phragmites australis and native vegetation zones in coastal wetlands along a salinity gradient. Wetlands, 35(6),1021-1031. http://link.springer.com/article/10.1007/s13157015-0690-y

O’Connor, A. E., Luek, J. L., McIntosh, H., & Beck, A. J. (2015). Geochemistry of redox sensitive trace elements in a shallow subterranean estuary. Marine Chemistry, 172, 70-81. http://www.sciencedirect.com/science/article/pii/S0304420315000432

Oczkowski, A., McKinney, R., Ayvazian, S., Hanson, A., Wigand, C., & Markham, E. (2015). Preliminary evidence for the amplification of global warming in shallow, intertidal estuarine waters. PloS one, 10(10), e0141529. http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0141529

Ramsey, J., Ruthven, T., & Griffee, S. (2015). Final Bourne’s pond inlet opening: flooding and coastal erosion analysis. https://pdfs.semanticscholar.org/3404/e86cf54d6e8525dd72a8125fe53e020139aa.pdf

Spivak, A. C. (2015). Benthic biogeochemical responses to changing estuary trophic state and nutrient availability: A paired field and mesocosm experiment approach. Limnology and Oceanography, 60(1), 3-21. http://onlinelibrary.wiley.com/doi/10.1002/lno.10001/full

Valiela, I. (2015). Primary Producers in the Sea. In Marine Ecological Processes (pp. 3-34). Springer New York. http://link.springer.com/chapter/10.1007/978-0-387-79070-1_1

Valiela, I. (2015). The Great Sippewissett salt marsh plots—some history, highlights, and contrails from a long-term study. Estuaries and Coasts, 38(4), 1099-1120. http://link.springer.com/article/10.1007/s12237-015-9976-9

Valiela, I. & Bartholomew, M. (2015) Land–sea coupling and global-driven forcing: following some of Scott Nixon’s challenges. Estuaries and Coasts 38: 1189. doi:10.1007/s12237-01498083. http://link.springer.com/article/10.1007/s12237-0149808-3

Viana, I. G., Bode, A., Bartholomew, M., & Valiela, I. (2015). Experimental assessment of the macroalgae Ascophyllum nodosum and Fucus vesiculosus for monitoring N sources at different time-scales using stable isotope composition. Journal of Experimental Marine Biology and Ecology, 466, 24-33. http://www.sciencedirect.com/science/article/pii/S0022098115000210

Walsh, Jennifer, et al. (2015) Relationship of phenotypic variation and genetic admixture in the Saltmarsh-Nelson’s sparrow hybrid zone. The Auk 132.3: 704-716. http://www.americanornithologypubs.org/?code=coop-site/10.1002/lno.10347/full