2023
Feng S, SM Owens, A Shrestha, R Poretsky, EM Hartmann, G Wells. 2023. Intensity of sample processing methods impacts
wastewater SARS-CoV-2 whole genome amplicon sequencing outcomes. Science of the Total Environment.

Lee J, RS Poretsky, BA Berejikian. 2023. Effects of clay and algae on early feeding and survival in larval sablefish (Anoplopoma
fimbria) Submitted to Aquaculture

Leisman, KP, M Warns, A Tiwari, C Owen, C Catlett, R Poretsky, A Shrestha, A Packman, N Mangan. Relating SARS-CoV-2 RNA
measured in Chicago-area Wastewater Treatment Plants and Cook County COVID-19 Public Health Data.

2022
Owen, C.; Wright-Foulkes, D.; Alvarez, P.; Delgado, H.; Durance, E.; Wells, G.; Poretsky, R.; Shrestha, A. 2022. Reduction and
Discharge of SARS-CoV-2 RNA in Chicago-Area Water Reclamation Plants. FEMS Microbes

S Feng, SM Owens, A Shrestha, R Poretsky, EM Hartmann, G Wells. 2022. Intensity of sample processing methods impacts
wastewater SARS-CoV-2 whole genome amplicon sequencing outcomes. medRxiv, 2022.09. 22.22280217

2021
Lee, J.S.F, M.L. Pierce, R.S. Poretsky, M.A. Cook, B.A. Berejikian, and F.W. Goetz. 2021. Transitioning from algae to clay
as turbidity agents: Timing, duration, and transition rates for larval sablefish (Anoplopoma fimbria). Aquaculture.
doi:10.1016/j.aquaculture.2021.736825

Chaudhary, A., Turner, S. and Poretsky, R., 2021. Bacterioplankton respond with similar transcriptional activity to al-
lochthonous dissolved organic matter in coastal and offshore Lake Michigan. Limnology and Oceanography, 66(8),
pp.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. Aqua-
culture, 545, p.737213.

POST-TENURE 2020
Dodd, E. T., Pierce, M. L., Lee, J. S., Poretsky, R. S. (2020). Influences of claywater and greenwater on the skin microbiome
of cultured larval sablefish (Anoplopoma fimbria). Animal Microbiome, 2, 1-13.

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 Microbiology, 11, p.153.
2019

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

2018
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 Re-
veals 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, di-
verse 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.

2017
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 Re-
sponse 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.

2014
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 degra-
dation 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 micro-
bial 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. Selected as a “Top 10 Hidden Jewel” by Faculty
of 1000 and Most Downloaded paper of 2009

Hewson, I., Poretsky, R. S., Dyhrman, S. T., Zielinski, B., White, A. E., Tripp, H. J., Montoya, J. P. 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 metatranscrip-
tomic 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 com-
munity 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.