Poretsky | Publications
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  • Lee, J.S., Pierce, M.L., Poretsky, R.S., Cook, M.A., Berejikian, B.A., and Goetz, F.W. (2021). Transitioning from algae to clay as turbidity agents: Timing, duration, and transition rates for larval sablefish (Anoplopoma fimbria). Aquaculture 541, 736825.
  • Chaudhary, A., Turner, S., and Poretsky, R. (2021). Bacterioplankton respond with similar transcriptional activity to allochthonous dissolved organic matter in coastal and offshore Lake Michigan. Limnology and Oceanography 66, 3162-3175.
  • Lee, J.S., Pierce, M.L., Cook, M.A., Berejikian, B.A., Goetz, F.W., and Poretsky, R.S. (2021). Effects of tank cleaning frequency and sea cucumber co-culture on larval sablefish growth and survival, water quality, and microbial communities. Aquaculture 545, 737213.
  • Turner, S. and Poretsky, R. 2020. Evaluating the relationship between the environment and microbial genome size. Submitted to Applied and Environmental Microbiology


  • Dodd, E., Pierce, M.L., Lee, J.S.F., and Poretsky, R. 2020. Influences of aquaculture water additives on the skin microbiome of larval sablefish (Anoplopoma fimbria). Animal Microbiome, June 2020.
  • Hampton-Marcell, J. T., T. W. Eshoo, M. D. Cook, J. A. Gilbert, C. A. Horswill and R. Poretsky (2020). “Comparative Analysis of Gut Microbiota Following Changes in Training Volume Among Swimmers.” International Journal of Sports Medicine 41(5): 292-299.
  • Petrovich, M. L., A. Zilberman, A. Kaplan, G. R. Eliraz, Y. B. Wang, K. Langenfeld, M. Duhaime, K. Wigginton, R. Poretsky, D. Avisar and G. F. Wells (2020). “Microbial and Viral Communities and Their Antibiotic Resistance Genes Throughout a Hospital Wastewater Treatment System.” Frontiers in Microbiology 11.
  • Petrovich, M.L., Zilberman, A., Kaplan, A., Eliraz, G., Wang, Y., Langenfeld, K., Duhaime, M.B., Wigginton, K.R., Poretsky, R.S., Avisar, D. and Wells, G.F., 2020. Microbial and Viral Communities and their Antibiotic Resistance Genes throughout a Hospital Wastewater Treatment System. Frontiers in Microbiology11, p.153.


  • Kauser, I., Ciesielski, M., and Poretsky, R. 2019. Ultraviolet disinfection impacts the microbial community composition and function of treated wastewater effluent and the receiving urban river. PeerJ 7:e7455 https://doi.org/10.7717/peerj.7455.
  • Pierce, M.L., Lee, J.S.F., Dodd, E., & Poretsky, R. 2019. Water additives influence survival and microbial community structure in sablefish (Anoplopoma fimbria) rearing tanks. Frontiers in Marine Science 6.10.3389/fmars.2019.00203.
  • Petrovich, M.L., Poretsky, R.S., Maamar, S.B., and Wells, G.F. 2019. Viral Composition and context in metagenomes from biofilm and suspended growth municipal wastewater treatment plants. Microbial Biotechnology. https://doi.org/10.1111/1751-7915.13464


  • Chaudhary, A., Kauser, I., Ray, A., and Poretsky R. 2018. Taxon-Driven Functional Shifts Associated with Storm Flow in an Urban Stream Microbial Community. mSphere 3. DOI: 10.1128/mSphere.00194-18.
  • Chu, B. T. T., Petrovich, M. L., Chaudhary, A., Wright, D., Murphy, B., Wells, G. and Poretsky, R.  2018. Metagenomics Reveals the Impact of Wastewater Treatment Plants on the Dispersal of Microorganisms and Genes in Aquatic Sediments. Applied and Environmental Microbiology 84.
  • Petrovich, M. L., Binh, C. T. T., Wright, D., Griffin, J., Murphy, B., Poretsky, R., Wells, G. 2018. Antibiotic resistance genes show enhanced mobilization through suspended growth and biofilm-based wastewater treatment processes. FEMS microbiology ecology 94, fiy041. Selected as “Editor’s Choice”
  • Berger-Wolf, T., Igic, B., Taylor, C., Sloan, R., and Poretsky, R. 2018. A biology-themed introductory CS course at a large, diverse public university. In Proceedings of the 49th  ACM Technical Symposium on Computer Science Education (SIGCSE ’18). ACM, New York, NY, USA, 233-238. DOI: https://doi.org/10.1145/3159450.3159538.


  • Wang, Y., Hatt, J.K., Tsementzi, D., Rodriguez-R, L.M., Ruiz-Pérez, C.A., Weigand, M.R., Kizer,   H., Maresca, G., Krishnan, R., Poretsky, R. and Spain, J.C., 2017. Quantifying the Importance of the Rare Biosphere for Microbial Community Response to Organic Pollutants in a Freshwater Ecosystem. Applied and Environmental Microbiology 83.
  • 2016
  • Lee, J.S.F., Poretsky, R.S., Cook, M., Reyes-Tomassini, J., Berejikian, B., and Goetz, F. 2016. Dimethylsulfoniopropionate (DMSP) Increases Survival of Larval Sablefish, Anoplopoma fimbria. Journal of Chemical Ecology 42, 533-536.
  • Ricketts, M.P., Poretsky, R.S., Welker, J., Gonzalez-Meler, M. 2016. Soil bacterial community and functional shifts in response to altered snowpack in moist acidic tundra of northern Alaska. Soil 2, 459.doi:10.5194/soil-2015-89.


  • ~Leave of absence due to birth of a child and death of a parent~


  • Poretsky, R., Rodriguez-R, L. M., Luo, C. W., Tsementzi, D. and Konstantinidis, K. T. 2014. Strengths and limitations of 16S rRNA gene sequencing in revealing temporal microbial community dynamics. PLoS One 9, doi:10.1371/journal.pone.0093827. Article is among the top 10% most cited in PLoS ONE
  • Vila-Costa, M., Rinta-Kanto, J. M., Poretsky, R. S., Sun, S., Kiene, R. P. & Moran, M. A. 2014. Microbial controls on DMSP degradation and DMS formation in the Sargasso Sea.  Biogeochemistry 120, 295-305.
  • Tsementzi, D., Poretsky, R., Rodriguez, L. M., Luo, C. W. and Konstantinidis, K.T. 2014.  Evaluation of metatranscriptomic protocols and application to the study of freshwater microbial communities. Environmental Microbiology Reports 6, 640-655.

Prior to 2013

  • Oh, S., Caro-Quintero, A., Tsementzi, D., DeLeon-Rodriguez, N., Luo, C. W., Poretsky, R. and Konstantinidis, K. T. 2011. The metagenome of Lake Lanier provides new insights into the evolution, function and complexity of temperate freshwater microbial communities. Applied and Environmental Microbiology. 77:6000-6011.
  • Poretsky, R. S., and Moran, M.A. Comparative metatranscriptomics of marine microbial communities. In: de Brujin FJ, editor. Handbook of Molecular Microbial Ecology I: Metagenomics and Complementary Approaches: Wiley/Blackwell.
  • Hewson, I., Poretsky, R. S., Tripp, H. J., Montoya, J. P. and Zehr, J. P. 2010. Spatial patterns and light-driven variation of microbial assemblage gene expression in surface waters of the oligotrophic open ocean. Environmental Microbiology 12:1940-1956.
  • Vila-Costa, M., Rinta-Kanto, J. M., Sun, S. L., Sharma, S., Poretsky, R. and Moran, M. A. 2010. Transcriptomic Analysis of a Marine Bacterial Community Enriched with Dimethylsulfoniopropionate (DMSP). The ISME Journal 4: 1410-1420.
  • Dekas, A.E., Poretsky, R.S., and Orphan, V.J. 2009. Deep-sea archaea fix and share nitrogen in methane-consuming microbial consortia. Science 326:422-426.
  • Poretsky, R.S., Sun, S., Mou, X., and Moran, M.A. 2009. Transporter genes expressed by coastal bacterioplankton in response to dissolved organic carbon. Environmental Microbiology  12:616-627.
  • Hewson, I., Poretsky, R. S., Dyhrman, S. T., Zielinski, B., White, A. E., Tripp, H. J., Montoya, and Zehr, J. P. 2009. Microbial community gene expression within colonies of the diazotroph, Trichodesmium, from the Southwest Pacific Ocean. The ISME Journal 3:1286– 1300.
  • Poretsky, R. S., Hewson, I., Sun, S. L., Allen, A. E., Zehr, J. P. and Moran, M. A. 2009. Comparative day/night metatranscriptomic analysis of microbial communities in the North Pacific subtropical gyre. Environmental Microbiology 11:1358-1375.
  • Poretsky, R. S., Gifford, S., Rinta-Kanto, J., Vila-Costa, M. and Moran, M. A. 2009. Analyzing gene expression from marine microbial communities using environmental transcriptomics. Journal of Visualized Experiments. Feb 18;(24). pii: 1086. doi: 10.3791/1086.
  • Hewson, I., Poretsky, R. S., Beinart, R. A., White, A. E., Shi, T., Bench, S. R., Moisander, P. H., Paerl, R. W., Tripp, H. J., Montoya, J. P., Moran, M. A. and Zehr, J. P. 2009. In situ transcriptomic analysis of the globally important keystone N2-fixing taxon Crocosphaera watsonii. The ISME Journal 3:618-631.
  • Poretsky, R. B., N; Buchan, A; Moran, MA and Hollibaugh, JT. Environmental Transcriptomics: A method for exploring community gene expression. In: Kowalchuk GA, de Bruijn FJ, Head IM, Akkermans ADL, van Elsas JD, editors. Molecular Microbial Ecology Manual, 3rd Ed: Springer Netherlands. pp 1892-1904.
  • Poretsky, R. S., Bano, N., Buchan, A., LeCleir, G., Kleikemper, J., Pickering, M., Pate, W. M., Moran, M. A. and Hollibaugh, J. T. 2005. Analysis of microbial gene transcripts in environmental samples. Applied and Environmental Microbiology 71, 4121-4126.