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Compositional and temporal stability of fecal taxon libraries for use with SourceTracker in sub-tropical catchments.

O'Dea C, Zhang Q, Staley C, Masters N, Kuballa A, Fisher P, Veal C, Stratton H, Sadowsky MJ, Ahmed W, Katouli M.

Water Res. 2019 Nov 15;165:114967. doi: 10.1016/j.watres.2019.114967. Epub 2019 Aug 13.


Durable Long-Term Bacterial Engraftment following Encapsulated Fecal Microbiota Transplantation To Treat Clostridium difficile Infection.

Staley C, Kaiser T, Vaughn BP, Graiziger C, Hamilton MJ, Kabage AJ, Khoruts A, Sadowsky MJ.

MBio. 2019 Jul 23;10(4). pii: e01586-19. doi: 10.1128/mBio.01586-19.


Impacts of a changing earth on microbial dynamics and human health risks in the continuum between beach water and sand.

Weiskerger CJ, Brandão J, Ahmed W, Aslan A, Avolio L, Badgley BD, Boehm AB, Edge TA, Fleisher JM, Heaney CD, Jordao L, Kinzelman JL, Klaus JS, Kleinheinz GT, Meriläinen P, Nshimyimana JP, Phanikumar MS, Piggot AM, Pitkänen T, Robinson C, Sadowsky MJ, Staley C, Staley ZR, Symonds EM, Vogel LJ, Yamahara KM, Whitman RL, Solo-Gabriele HM, Harwood VJ.

Water Res. 2019 Oct 1;162:456-470. doi: 10.1016/j.watres.2019.07.006. Epub 2019 Jul 3. Review.


Synergy between quantitative microbial source tracking (qMST) and quantitative microbial risk assessment (QMRA): A review and prospectus.

Zhang Q, Gallard J, Wu B, Harwood VJ, Sadowsky MJ, Hamilton KA, Ahmed W.

Environ Int. 2019 Sep;130:104703. doi: 10.1016/j.envint.2019.03.051. Epub 2019 Jul 8. Review.


7-Methylation of Chenodeoxycholic Acid Derivatives Yields a Substantial Increase in TGR5 Receptor Potency.

Nakhi A, McDermott CM, Stoltz KL, John K, Hawkinson JE, Ambrose EA, Khoruts A, Sadowsky MJ, Dosa PI.

J Med Chem. 2019 Jul 25;62(14):6824-6830. doi: 10.1021/acs.jmedchem.9b00770. Epub 2019 Jul 3.


Editorial: Alternative Therapeutic Approaches For Multidrug Resistant Clostridium difficile.

Janvilisri T, Sorg JA, Scaria J, Sadowsky MJ.

Front Microbiol. 2019 May 31;10:1216. doi: 10.3389/fmicb.2019.01216. eCollection 2019. No abstract available.


Corrigendum to "Comparative decay of sewage-associated marker genes in beach water and sediment in a subtropical region"[Water Res 149 (2019) 511-521].

Ahmed W, Zhang Q, Kozak S, Beale D, Gyawali P, Sadowsky MJ, Simpson S.

Water Res. 2019 Aug 1;159:539-540. doi: 10.1016/j.watres.2019.05.080. No abstract available.


Antibiotic-induced Disruption of Intestinal Microbiota Contributes to Failure of Vertical Sleeve Gastrectomy.

Jahansouz C, Staley C, Kizy S, Xu H, Hertzel AV, Coryell J, Singroy S, Hamilton M, DuRand M, Bernlohr DA, Sadowsky MJ, Khoruts A, Ikramuddin S.

Ann Surg. 2019 Jun;269(6):1092-1100. doi: 10.1097/SLA.0000000000002729.


Letter to the Editor.

Khoruts A, Sadowsky MJ.

Clin Infect Dis. 2019 May 4. pii: ciz366. doi: 10.1093/cid/ciz366. [Epub ahead of print] No abstract available.


Dietary Factors in Sulfur Metabolism and Pathogenesis of Ulcerative Colitis.

Teigen LM, Geng Z, Sadowsky MJ, Vaughn BP, Hamilton MJ, Khoruts A.

Nutrients. 2019 Apr 25;11(4). pii: E931. doi: 10.3390/nu11040931. Review.


Denitrifying Bacteria Active in Woodchip Bioreactors at Low-Temperature Conditions.

Jang J, Anderson EL, Venterea RT, Sadowsky MJ, Rosen CJ, Feyereisen GW, Ishii S.

Front Microbiol. 2019 Apr 2;10:635. doi: 10.3389/fmicb.2019.00635. eCollection 2019.


Signal Disruption Leads to Changes in Bacterial Community Population.

Schwab M, Bergonzi C, Sakkos J, Staley C, Zhang Q, Sadowsky MJ, Aksan A, Elias M.

Front Microbiol. 2019 Mar 29;10:611. doi: 10.3389/fmicb.2019.00611. eCollection 2019.


The deposit feeder Capitella teleta has a unique and relatively complex microbiome likely supporting its ability to degrade pollutants.

Hochstein R, Zhang Q, Sadowsky MJ, Forbes VE.

Sci Total Environ. 2019 Jun 20;670:547-554. doi: 10.1016/j.scitotenv.2019.03.255. Epub 2019 Mar 18.


Breastmilk and NICU surfaces are potential sources of fungi for infant mycobiomes.

Heisel T, Nyaribo L, Sadowsky MJ, Gale CA.

Fungal Genet Biol. 2019 Jul;128:29-35. doi: 10.1016/j.fgb.2019.03.008. Epub 2019 Mar 21.


Endophytic Bacterial Communities Associated with Roots and Leaves of Plants Growing in Chilean Extreme Environments.

Zhang Q, Acuña JJ, Inostroza NG, Mora ML, Radic S, Sadowsky MJ, Jorquera MA.

Sci Rep. 2019 Mar 20;9(1):4950. doi: 10.1038/s41598-019-41160-x.


A microfluidic platform for the simultaneous quantification of methanogen populations in anaerobic digestion processes.

Mathai PP, Dunn HM, Venkiteshwaran K, Zitomer DH, Maki JS, Ishii S, Sadowsky MJ.

Environ Microbiol. 2019 May;21(5):1798-1808. doi: 10.1111/1462-2920.14589. Epub 2019 Mar 29.


Impacts of Sampling Design on Estimates of Microbial Community Diversity and Composition in Agricultural Soils.

Castle SC, Samac DA, Sadowsky MJ, Rosen CJ, Gutknecht JLM, Kinkel LL.

Microb Ecol. 2019 Oct;78(3):753-763. doi: 10.1007/s00248-019-01318-6. Epub 2019 Mar 9.


Influence of short-term changes in dietary sulfur on the relative abundances of intestinal sulfate-reducing bacteria.

Dostal Webster A, Staley C, Hamilton MJ, Huang M, Fryxell K, Erickson R, Kabage AJ, Sadowsky MJ, Khoruts A.

Gut Microbes. 2019;10(4):447-457. doi: 10.1080/19490976.2018.1559682. Epub 2019 Feb 27.


Room Temperature Growth of Salmonella enterica Serovar Saintpaul in Fresh Mexican Salsa.

Kirkland C, Black E, Forghani F, Pomraning A, Sadowsky MJ, Diez-Gonzalez F.

J Food Prot. 2019 Jan;82(1):102-108. doi: 10.4315/0362-028X.JFP-18-270.


A pilot study of fecal bile acid and microbiota profiles in inflammatory bowel disease and primary sclerosing cholangitis.

Vaughn BP, Kaiser T, Staley C, Hamilton MJ, Reich J, Graiziger C, Singroy S, Kabage AJ, Sadowsky MJ, Khoruts A.

Clin Exp Gastroenterol. 2019 Jan 10;12:9-19. doi: 10.2147/CEG.S186097. eCollection 2019.


Association between submerged aquatic vegetation and elevated levels of Escherichia coli and potential bacterial pathogens in freshwater lakes.

Mathai PP, Dunn HM, Magnone P, Zhang Q, Ishii S, Chun CL, Sadowsky MJ.

Sci Total Environ. 2019 Mar 20;657:319-324. doi: 10.1016/j.scitotenv.2018.11.484. Epub 2018 Dec 2.


Putative Nitrogen-Fixing Bacteria Associated With the Rhizosphere and Root Endosphere of Wheat Plants Grown in an Andisol From Southern Chile.

Rilling JI, Acuña JJ, Sadowsky MJ, Jorquera MA.

Front Microbiol. 2018 Nov 20;9:2710. doi: 10.3389/fmicb.2018.02710. eCollection 2018.


Cultivar and phosphorus effects on switchgrass yield and rhizosphere microbial diversity.

Sawyer A, Staley C, Lamb J, Sheaffer C, Kaiser T, Gutknecht J, Sadowsky MJ, Rosen C.

Appl Microbiol Biotechnol. 2019 Feb;103(4):1973-1987. doi: 10.1007/s00253-018-9535-y. Epub 2018 Dec 7.


Comparative decay of sewage-associated marker genes in beach water and sediment in a subtropical region.

Ahmed W, Zhang Q, Kozak S, Beale D, Gyawali P, Sadowsky MJ, Simpson S.

Water Res. 2019 Feb 1;149:511-521. doi: 10.1016/j.watres.2018.10.088. Epub 2018 Nov 2. Erratum in: Water Res. 2019 Aug 1;159:539-540.


Influence of Library Composition on SourceTracker Predictions for Community-Based Microbial Source Tracking.

Brown CM, Mathai PP, Loesekann T, Staley C, Sadowsky MJ.

Environ Sci Technol. 2019 Jan 2;53(1):60-68. doi: 10.1021/acs.est.8b04707. Epub 2018 Dec 6.


Genome-Wide Association Analyses in the Model Rhizobium Ensifer meliloti.

Epstein B, Abou-Shanab RAI, Shamseldin A, Taylor MR, Guhlin J, Burghardt LT, Nelson M, Sadowsky MJ, Tiffin P.

mSphere. 2018 Oct 24;3(5). pii: e00386-18. doi: 10.1128/mSphere.00386-18.


Practical considerations for sampling and data analysis in contemporary metagenomics-based environmental studies.

Staley C, Sadowsky MJ.

J Microbiol Methods. 2018 Nov;154:14-18. doi: 10.1016/j.mimet.2018.09.020. Epub 2018 Oct 1. Review.


Predicting recurrence of Clostridium difficile infection following encapsulated fecal microbiota transplantation.

Staley C, Kaiser T, Vaughn BP, Graiziger CT, Hamilton MJ, Rehman TU, Song K, Khoruts A, Sadowsky MJ.

Microbiome. 2018 Sep 18;6(1):166. doi: 10.1186/s40168-018-0549-6.


Comprehensive Functional Analysis of the Enterococcus faecalis Core Genome Using an Ordered, Sequence-Defined Collection of Insertional Mutations in Strain OG1RF.

Dale JL, Beckman KB, Willett JLE, Nilson JL, Palani NP, Baller JA, Hauge A, Gohl DM, Erickson R, Manias DA, Sadowsky MJ, Dunny GM.

mSystems. 2018 Sep 11;3(5). pii: e00062-18. doi: 10.1128/mSystems.00062-18. eCollection 2018 Sep-Oct.


Spatial and temporal characterization of epiphytic microbial communities associated with Eurasian watermilfoil: a highly invasive macrophyte in North America.

Mathai PP, Dunn HM, Magnone P, Brown CM, Chun CL, Sadowsky MJ.

FEMS Microbiol Ecol. 2018 Nov 1;94(12). doi: 10.1093/femsec/fiy178.


CLOUD: a non-parametric detection test for microbiome outliers.

Montassier E, Al-Ghalith GA, Hillmann B, Viskocil K, Kabage AJ, McKinlay CE, Sadowsky MJ, Khoruts A, Knights D.

Microbiome. 2018 Aug 6;6(1):137. doi: 10.1186/s40168-018-0514-4.


Corrigendum to "Precipitation influences pathogenic bacteria and antibiotic resistance genes abundance in storm drain outfalls in coastal sub-tropical waters" [Environ. Int. 116 (2018) 308-318].

Ahmed W, Zhang Q, Lobos A, Senkbeil J, Sadowsky MJ, Harwood VJ, Saeidi N, Marinoni O, Ishii S.

Environ Int. 2018 Oct;119:239. doi: 10.1016/j.envint.2018.06.031. Epub 2018 Jul 4. No abstract available.


Decay of sewage-associated bacterial communities in fresh and marine environmental waters and sediment.

Ahmed W, Staley C, Kaiser T, Sadowsky MJ, Kozak S, Beale D, Simpson S.

Appl Microbiol Biotechnol. 2018 Aug;102(16):7159-7170. doi: 10.1007/s00253-018-9112-4. Epub 2018 Jun 5.


Fecal pollution: new trends and challenges in microbial source tracking using next-generation sequencing.

Unno T, Staley C, Brown CM, Han D, Sadowsky MJ, Hur HG.

Environ Microbiol. 2018 Sep;20(9):3132-3140. doi: 10.1111/1462-2920.14281. Epub 2018 Aug 5. Review.


Quantitative microbial risk assessment of microbial source tracking markers in recreational water contaminated with fresh untreated and secondary treated sewage.

Ahmed W, Hamilton KA, Lobos A, Hughes B, Staley C, Sadowsky MJ, Harwood VJ.

Environ Int. 2018 Aug;117:243-249. doi: 10.1016/j.envint.2018.05.012. Epub 2018 May 15.


Precipitation influences pathogenic bacteria and antibiotic resistance gene abundance in storm drain outfalls in coastal sub-tropical waters.

Ahmed W, Zhang Q, Lobos A, Senkbeil J, Sadowsky MJ, Harwood VJ, Saeidi N, Marinoni O, Ishii S.

Environ Int. 2018 Jul;116:308-318. doi: 10.1016/j.envint.2018.04.005. Epub 2018 May 10. Erratum in: Environ Int. 2018 Oct;119:239.


Seasonal metabolic analysis of marine sediments collected from Moreton Bay in South East Queensland, Australia, using a multi-omics-based approach.

Beale DJ, Crosswell J, Karpe AV, Metcalfe SS, Morrison PD, Staley C, Ahmed W, Sadowsky MJ, Palombo EA, Steven ADL.

Sci Total Environ. 2018 Aug 1;631-632:1328-1341. doi: 10.1016/j.scitotenv.2018.03.106. Epub 2018 Mar 28.


Complete Genome Sequence of Sinorhizobium meliloti Bacteriophage HMSP1-Susan.

Fleagle B, Imamovic A, Toledo S, Couves M, Jensen A, Vang M, Steevens A, Young ND, Sadowsky MJ, Martinez-Vaz BM.

Genome Announc. 2018 May 3;6(18). pii: e01450-17. doi: 10.1128/genomeA.01450-17.


Bacillus megaterium strains derived from water and soil exhibit differential responses to the herbicide mesotrione.

Dobrzanski T, Gravina F, Steckling B, Olchanheski LR, Sprenger RF, Espírito Santo BC, Galvão CW, Reche PM, Prestes RA, Pileggi SAV, Campos FR, Azevedo RA, Sadowsky MJ, Beltrame FL, Pileggi M.

PLoS One. 2018 Apr 25;13(4):e0196166. doi: 10.1371/journal.pone.0196166. eCollection 2018.


The complete replicons of 16 Ensifer meliloti strains offer insights into intra- and inter-replicon gene transfer, transposon-associated loci, and repeat elements.

Nelson M, Guhlin J, Epstein B, Tiffin P, Sadowsky MJ.

Microb Genom. 2018 May;4(5). doi: 10.1099/mgen.0.000174. Epub 2018 Apr 19.


Urea Amendment Decreases Microbial Diversity and Selects for Specific Nitrifying Strains in Eight Contrasting Agricultural Soils.

Staley C, Breuillin-Sessoms F, Wang P, Kaiser T, Venterea RT, Sadowsky MJ.

Front Microbiol. 2018 Apr 4;9:634. doi: 10.3389/fmicb.2018.00634. eCollection 2018.


Fecal microbiota transplantation reverses antibiotic and chemotherapy-induced gut dysbiosis in mice.

Le Bastard Q, Ward T, Sidiropoulos D, Hillmann BM, Chun CL, Sadowsky MJ, Knights D, Montassier E.

Sci Rep. 2018 Apr 18;8(1):6219. doi: 10.1038/s41598-018-24342-x.


Comparisons of bacterial and archaeal communities in the rumen and a dual-flow continuous culture fermentation system using amplicon sequencing.

Salfer IJ, Staley C, Johnson HE, Sadowsky MJ, Stern MD.

J Anim Sci. 2018 Apr 3;96(3):1059-1072. doi: 10.1093/jas/skx056.


Antibiotic-induced Disruption of Intestinal Microbiota Contributes to Failure of Vertical Sleeve Gastrectomy.

Jahansouz C, Staley C, Kizy S, Xu H, Hertzel AV, Coryell J, Singroy S, Hamilton M, DuRand M, Bernlohr DA, Sadowsky MJ, Khoruts A, Ikramuddin S.

Ann Surg. 2018 Mar 8. doi: 10.1097/SLA.0000000000002729. [Epub ahead of print]


Application of SourceTracker for Accurate Identification of Fecal Pollution in Recreational Freshwater: A Double-Blinded Study.

Staley C, Kaiser T, Lobos A, Ahmed W, Harwood VJ, Brown CM, Sadowsky MJ.

Environ Sci Technol. 2018 Apr 3;52(7):4207-4217. doi: 10.1021/acs.est.7b05401. Epub 2018 Mar 13.


Current understanding of microbiota- and dietary-therapies for treating inflammatory bowel disease.

Eom T, Kim YS, Choi CH, Sadowsky MJ, Unno T.

J Microbiol. 2018 Mar;56(3):189-198. doi: 10.1007/s12275-018-8049-8. Epub 2018 Feb 28. Review.


Select and resequence reveals relative fitness of bacteria in symbiotic and free-living environments.

Burghardt LT, Epstein B, Guhlin J, Nelson MS, Taylor MR, Young ND, Sadowsky MJ, Tiffin P.

Proc Natl Acad Sci U S A. 2018 Mar 6;115(10):2425-2430. doi: 10.1073/pnas.1714246115. Epub 2018 Feb 16.


Strain Tracking Reveals the Determinants of Bacterial Engraftment in the Human Gut Following Fecal Microbiota Transplantation.

Smillie CS, Sauk J, Gevers D, Friedman J, Sung J, Youngster I, Hohmann EL, Staley C, Khoruts A, Sadowsky MJ, Allegretti JR, Smith MB, Xavier RJ, Alm EJ.

Cell Host Microbe. 2018 Feb 14;23(2):229-240.e5. doi: 10.1016/j.chom.2018.01.003.


Increased Denitrification Rates Associated with Shifts in Prokaryotic Community Composition Caused by Varying Hydrologic Connectivity.

Tomasek A, Staley C, Wang P, Kaiser T, Lurndahl N, Kozarek JL, Hondzo M, Sadowsky MJ.

Front Microbiol. 2017 Nov 22;8:2304. doi: 10.3389/fmicb.2017.02304. eCollection 2017.


Contemporary Applications of Fecal Microbiota Transplantation to Treat Intestinal Diseases in Humans.

Staley C, Khoruts A, Sadowsky MJ.

Arch Med Res. 2017 Nov;48(8):766-773. doi: 10.1016/j.arcmed.2017.11.006. Epub 2017 Nov 26. Review.


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