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Shaomei He, Ph.D. - Publications

Affiliations: 
2008 University of Wisconsin, Madison, Madison, WI 
Area:
Environmental Engineering
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32 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 He S, Linz AM, Stevens SLR, Tran PQ, Moya-Flores F, Oyserman BO, Dwulit-Smith JR, Forest KT, McMahon KD. Diversity, distribution, and expression of opsin genes in freshwater lakes. Molecular Ecology. PMID 36799010 DOI: 10.1111/mec.16891  0.726
2022 Olmsted CN, Ort R, Tran PQ, McDaniel EA, Roden EE, Bond DR, He S, McMahon KD. Environmental predictors of electroactive bacterioplankton in small boreal lakes. Environmental Microbiology. PMID 36529539 DOI: 10.1111/1462-2920.16314  0.627
2019 He S, Lau MP, Linz AM, Roden EE, McMahon KD. Extracellular Electron Transfer May Be an Overlooked Contribution to Pelagic Respiration in Humic-Rich Freshwater Lakes. Msphere. 4. PMID 30674644 DOI: 10.1128/mSphere.00436-18  0.76
2018 Linz AM, He S, Stevens SLR, Anantharaman K, Rohwer RR, Malmstrom RR, Bertilsson S, McMahon KD. Freshwater carbon and nutrient cycles revealed through reconstructed population genomes. Peerj. 6: e6075. PMID 30581671 DOI: 10.7717/Peerj.6075  0.745
2018 Mejia J, He S, Yang Y, Ginder-Vogel M, Roden EE. Stability of ferrihydrite-humic acid coprecipitates under iron-reducing conditions. Environmental Science & Technology. PMID 30354092 DOI: 10.1021/Acs.Est.8B03615  0.32
2018 Dwulit-Smith JR, Hamilton JJ, Stevenson DM, He S, Oyserman BO, Moya-Flores F, Garcia SL, Amador-Noguez D, McMahon KD, Forest KT. acI Actinobacteria Assemble a Functional Actinorhodopsin with Natively-synthesized Retinal. Applied and Environmental Microbiology. PMID 30315080 DOI: 10.1128/Aem.01678-18  0.772
2018 Fortney NW, He S, Converse BJ, Boyd ES, Roden EE. Investigating the Composition and Metabolic Potential of Microbial Communities in Chocolate Pots Hot Springs. Frontiers in Microbiology. 9: 2075. PMID 30245673 DOI: 10.3389/Fmicb.2018.02075  0.355
2018 Stern N, Mejia J, He S, Yang Y, Ginder-Vogel M, Roden EE. Dual role of humic substances as electron donor and shuttle for dissimilatory iron reduction. Environmental Science & Technology. PMID 29658273 DOI: 10.1021/Acs.Est.7B06574  0.366
2018 Fortney NW, He S, Kulkarni A, Friedrich MW, Holz C, Boyd ES, Roden EE. Stable isotope probing of microbial iron reduction in Chocolate Pots hot spring, Yellowstone National Park. Applied and Environmental Microbiology. PMID 29602784 DOI: 10.1128/Aem.02894-17  0.364
2017 He S, Stevens SLR, Chan LK, Bertilsson S, Glavina Del Rio T, Tringe SG, Malmstrom RR, McMahon KD. Ecophysiology of Freshwater Verrucomicrobia Inferred from Metagenome-Assembled Genomes. Msphere. 2. PMID 28959738 DOI: 10.1128/mSphere.00277-17  0.756
2017 He S, Barco RA, Emerson D, Roden EE. Comparative Genomic Analysis of Neutrophilic Iron(II) Oxidizer Genomes for Candidate Genes in Extracellular Electron Transfer. Frontiers in Microbiology. 8: 1584. PMID 28871245 DOI: 10.3389/Fmicb.2017.01584  0.425
2017 Percak-Dennett E, He S, Converse B, Konishi H, Xu H, Corcoran A, Noguera D, Chan C, Bhayyacharyya A, Borch T, Boyd E, Roden EE. Microbial acceleration of aerobic pyrite oxidation at circumneutral pH. Geobiology. PMID 28452176 DOI: 10.1111/Gbi.12241  0.341
2016 He S, Tominski C, Kappler A, Behrens S, Roden EE. Metagenomic analyses of the autotrophic Fe(II)-oxidizing, nitrate-reducing enrichment Culture KS. Applied and Environmental Microbiology. PMID 26896135 DOI: 10.1128/Aem.03493-15  0.408
2016 Fortney NW, He S, Converse BJ, Beard BL, Johnson CM, Boyd ES, Roden EE. Microbial Fe(III) oxide reduction potential in Chocolate Pots hot spring, Yellowstone National Park. Geobiology. PMID 26750514 DOI: 10.1111/Gbi.12173  0.333
2015 Tremblay J, Singh K, Fern A, Kirton ES, He S, Woyke T, Lee J, Chen F, Dangl JL, Tringe SG. Primer and platform effects on 16S rRNA tag sequencing. Frontiers in Microbiology. 6: 771. PMID 26300854 DOI: 10.3389/Fmicb.2015.00771  0.319
2015 He S, Malfatti SA, McFarland JW, Anderson FE, Pati A, Huntemann M, Tremblay J, Glavina del Rio T, Waldrop MP, Windham-Myers L, Tringe SG. Patterns in wetland microbial community composition and functional gene repertoire associated with methane emissions. Mbio. 6: e00066-15. PMID 25991679 DOI: 10.1128/Mbio.00066-15  0.441
2013 Flowers JJ, He S, Malfatti S, del Rio TG, Tringe SG, Hugenholtz P, McMahon KD. Comparative genomics of two 'Candidatus Accumulibacter' clades performing biological phosphorus removal. The Isme Journal. 7: 2301-14. PMID 23887171 DOI: 10.1038/Ismej.2013.117  0.76
2013 He S, Ivanova N, Kirton E, Allgaier M, Bergin C, Scheffrahn RH, Kyrpides NC, Warnecke F, Tringe SG, Hugenholtz P. Comparative metagenomic and metatranscriptomic analysis of hindgut paunch microbiota in wood- and dung-feeding higher termites. Plos One. 8: e61126. PMID 23593407 DOI: 10.1371/Journal.Pone.0061126  0.389
2011 Skennerton CT, Angly FE, Breitbart M, Bragg L, He S, McMahon KD, Hugenholtz P, Tyson GW. Phage encoded H-NS: a potential achilles heel in the bacterial defence system. Plos One. 6: e20095. PMID 21625595 DOI: 10.1371/Journal.Pone.0020095  0.63
2011 He S, McMahon KD. Microbiology of 'Candidatus Accumulibacter' in activated sludge. Microbial Biotechnology. 4: 603-19. PMID 21338476 DOI: 10.1111/J.1751-7915.2011.00248.X  0.626
2011 He S, McMahon KD. 'Candidatus Accumulibacter' gene expression in response to dynamic EBPR conditions. The Isme Journal. 5: 329-40. PMID 20703317 DOI: 10.1038/Ismej.2010.127  0.645
2010 He S, Wurtzel O, Singh K, Froula JL, Yilmaz S, Tringe SG, Wang Z, Chen F, Lindquist EA, Sorek R, Hugenholtz P. Validation of two ribosomal RNA removal methods for microbial metatranscriptomics. Nature Methods. 7: 807-12. PMID 20852648 DOI: 10.1038/Nmeth.1507  0.341
2010 He S, Bishop FI, McMahon KD. Bacterial community and "Candidatus Accumulibacter" population dynamics in laboratory-scale enhanced biological phosphorus removal reactors. Applied and Environmental Microbiology. 76: 5479-87. PMID 20601516 DOI: 10.1128/Aem.00370-10  0.602
2010 He S, Kunin V, Haynes M, Martin HG, Ivanova N, Rohwer F, Hugenholtz P, McMahon KD. Metatranscriptomic array analysis of 'Candidatus Accumulibacter phosphatis'-enriched enhanced biological phosphorus removal sludge. Environmental Microbiology. 12: 1205-17. PMID 20148930 DOI: 10.1111/J.1462-2920.2010.02163.X  0.642
2009 Flowers JJ, He S, Yilmaz S, Noguera DR, McMahon KD. Denitrification capabilities of two biological phosphorus removal sludges dominated by different "Candidatus Accumulibacter" clades. Environmental Microbiology Reports. 1: 583-588. PMID 20808723 DOI: 10.1111/J.1758-2229.2009.00090.X  0.742
2008 Kunin V, He S, Warnecke F, Peterson SB, Garcia Martin H, Haynes M, Ivanova N, Blackall LL, Breitbart M, Rohwer F, McMahon KD, Hugenholtz P. A bacterial metapopulation adapts locally to phage predation despite global dispersal. Genome Research. 18: 293-7. PMID 18077539 DOI: 10.1101/Gr.6835308  0.633
2008 He S, Gu AZ, McMahon KD. Progress toward understanding the distribution of Accumulibacter among full-scale enhanced biological phosphorus removal systems. Microbial Ecology. 55: 229-36. PMID 17605067 DOI: 10.1007/S00248-007-9270-X  0.617
2008 Flowers JJ, He S, Carvalho G, Brook Peterson S, Lopez C, Yilmaz S, Zilles JL, Morgenroth E, Lemos PC, Reis MAM, Crespo MTB, Noguera DR, McMahon KD. Ecological Differentiation of Accumulibacter in EBPR Reactors Proceedings of the Water Environment Federation. 2008: 31-42. DOI: 10.2175/193864708788735565  0.717
2007 He S, Gall DL, McMahon KD. "Candidatus Accumulibacter" population structure in enhanced biological phosphorus removal sludges as revealed by polyphosphate kinase genes. Applied and Environmental Microbiology. 73: 5865-74. PMID 17675445 DOI: 10.1128/Aem.01207-07  0.645
2007 McMahon KD, Yilmaz S, He S, Gall DL, Jenkins D, Keasling JD. Polyphosphate kinase genes from full-scale activated sludge plants. Applied Microbiology and Biotechnology. 77: 167-73. PMID 17671784 DOI: 10.1007/S00253-007-1122-6  0.702
2006 García Martín H, Ivanova N, Kunin V, Warnecke F, Barry KW, McHardy AC, Yeates C, He S, Salamov AA, Szeto E, Dalin E, Putnam NH, Shapiro HJ, Pangilinan JL, Rigoutsos I, et al. Metagenomic analysis of two enhanced biological phosphorus removal (EBPR) sludge communities. Nature Biotechnology. 24: 1263-9. PMID 16998472 DOI: 10.1038/Nbt1247  0.665
2006 He S, Gu AZ, McMahon KD. Fine-scale differences between Accumulibacter-like bacteria in enhanced biological phosphorus removal activated sludge. Water Science and Technology : a Journal of the International Association On Water Pollution Research. 54: 111-7. PMID 16898143 DOI: 10.2166/Wst.2006.378  0.603
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