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Comparison of Infant Gut and Skin Microbiota, Resistome and Virulome Between Neonatal Intensive Care Unit (NICU) Environments.

Hourigan SK, Subramanian P, Hasan NA, Ta A, Klein E, Chettout N, Huddleston K, Deopujari V, Levy S, Baveja R, Clemency NC, Baker RL, Niederhuber JE, Colwell RR.

Front Microbiol. 2018 Jun 25;9:1361. doi: 10.3389/fmicb.2018.01361. eCollection 2018.


Spores and soil from six sides: interdisciplinarity and the environmental biology of anthrax (Bacillus anthracis).

Carlson CJ, Getz WM, Kausrud KL, Cizauskas CA, Blackburn JK, Bustos Carrillo FA, Colwell R, Easterday WR, Ganz HH, Kamath PL, Økstad OA, Turner WC, Kolstø AB, Stenseth NC.

Biol Rev Camb Philos Soc. 2018 May 6. doi: 10.1111/brv.12420. [Epub ahead of print]


Distinct consequences of amoxicillin and ertapenem exposure in the porcine gut microbiome.

Connelly S, Subramanian P, Hasan NA, Colwell RR, Kaleko M.

Anaerobe. 2018 Apr 22. pii: S1075-9964(18)30069-6. doi: 10.1016/j.anaerobe.2018.04.012. [Epub ahead of print]


Biofilms Comprise a Component of the Annual Cycle of Vibrio cholerae in the Bay of Bengal Estuary.

Sultana M, Nusrin S, Hasan NA, Sadique A, Ahmed KU, Islam A, Hossain A, Longini I, Nizam A, Huq A, Siddique AK, Sack DA, Sack RB, Colwell RR, Alam M.

MBio. 2018 Apr 17;9(2). pii: e00483-18. doi: 10.1128/mBio.00483-18.


Virulence-Related Genes Identified from the Genome Sequence of the Non-O1/Non-O139 Vibrio cholerae Strain VcN1, Isolated from Dhaka, Bangladesh.

Hossain M, Alam M, Khaleque A, Islam S, Sadique A, Khan N, Halim Z, Sarker M, El-Sayed NM, Huq A, Ahsan GU, Colwell RR.

Genome Announc. 2018 Mar 8;6(10). pii: e01513-17. doi: 10.1128/genomeA.01513-17.


Characterization of Pathogenic Vibrio parahaemolyticus from the Chesapeake Bay, Maryland.

Chen AJ, Hasan NA, Haley BJ, Taviani E, Tarnowski M, Brohawn K, Johnson CN, Colwell RR, Huq A.

Front Microbiol. 2017 Dec 15;8:2460. doi: 10.3389/fmicb.2017.02460. eCollection 2017.


Mechanism, Process, and Causation in Ecological Models: A Reply to McGill and Potochnik.

Connolly SR, Keith SA, Colwell RK, Rahbek C.

Trends Ecol Evol. 2018 May;33(5):305-306. doi: 10.1016/j.tree.2017.11.009. Epub 2017 Dec 23. No abstract available.


Characterization of Two Cryptic Plasmids Isolated in Haiti from Clinical Vibrio cholerae Non-O1/Non-O139.

Ceccarelli D, Garriss G, Choi SY, Hasan NA, Stepanauskas R, Pop M, Huq A, Colwell RR.

Front Microbiol. 2017 Nov 23;8:2283. doi: 10.3389/fmicb.2017.02283. eCollection 2017.


The microbiomes of blowflies and houseflies as bacterial transmission reservoirs.

Junqueira ACM, Ratan A, Acerbi E, Drautz-Moses DI, Premkrishnan BNV, Costea PI, Linz B, Purbojati RW, Paulo DF, Gaultier NE, Subramanian P, Hasan NA, Colwell RR, Bork P, Azeredo-Espin AML, Bryant DA, Schuster SC.

Sci Rep. 2017 Nov 24;7(1):16324. doi: 10.1038/s41598-017-16353-x.


Comprehensive benchmarking and ensemble approaches for metagenomic classifiers.

McIntyre ABR, Ounit R, Afshinnekoo E, Prill RJ, Hénaff E, Alexander N, Minot SS, Danko D, Foox J, Ahsanuddin S, Tighe S, Hasan NA, Subramanian P, Moffat K, Levy S, Lonardi S, Greenfield N, Colwell RR, Rosen GL, Mason CE.

Genome Biol. 2017 Sep 21;18(1):182. doi: 10.1186/s13059-017-1299-7.


Process, Mechanism, and Modeling in Macroecology.

Connolly SR, Keith SA, Colwell RK, Rahbek C.

Trends Ecol Evol. 2017 Nov;32(11):835-844. doi: 10.1016/j.tree.2017.08.011. Epub 2017 Sep 14. Review.


Not just Salk.

Greider C, Hopkins N, Steitz J, Amon A, Asai D, Barres B, Bass B, Bassler B, Birgeneau R, Bjorkman P, Botchan M, Brugge J, Cech T, Colwell R, Craig N, deLange T, Eisen M, Gottesman S, Green R, Handelsman J, Kimble J, King MC, Lehmann R, Marder E, Mullins D, O'Shea E, Schmid S, Seydoux G, Spradling A, Storz G, Szostak J, Telesnitsky A, Tilghman S, Tjian R, Vale R, Wolberger C, Zakian V.

Science. 2017 Sep 15;357(6356):1105-1106. doi: 10.1126/science.aao6221. No abstract available.


Occurrence of Vibrio cholerae in water reservoirs of Burkina Faso.

Kaboré S, Cecchi P, Mosser T, Toubiana M, Traoré O, Ouattara AS, Traoré AS, Barro N, Colwell RR, Monfort P.

Res Microbiol. 2018 Jan;169(1):1-10. doi: 10.1016/j.resmic.2017.08.004. Epub 2017 Sep 6.


Deciphering the enigma of undetected species, phylogenetic, and functional diversity based on Good-Turing theory.

Chao A, Chiu CH, Colwell RK, Magnago LFS, Chazdon RL, Gotelli NJ.

Ecology. 2017 Nov;98(11):2914-2929. doi: 10.1002/ecy.2000.


Comparative Genomics of Escherichia coli Isolated from Skin and Soft Tissue and Other Extraintestinal Infections.

Ranjan A, Shaik S, Nandanwar N, Hussain A, Tiwari SK, Semmler T, Jadhav S, Wieler LH, Alam M, Colwell RR, Ahmed N.

MBio. 2017 Aug 15;8(4). pii: e01070-17. doi: 10.1128/mBio.01070-17.


Comparative genomic analysis and characterization of incompatibility group FIB plasmid encoded virulence factors of Salmonella enterica isolated from food sources.

Khajanchi BK, Hasan NA, Choi SY, Han J, Zhao S, Colwell RR, Cerniglia CE, Foley SL.

BMC Genomics. 2017 Aug 2;18(1):570. doi: 10.1186/s12864-017-3954-5.


Assessment of Risk of Cholera in Haiti following Hurricane Matthew.

Khan R, Anwar R, Akanda S, McDonald MD, Huq A, Jutla A, Colwell R.

Am J Trop Med Hyg. 2017 Sep;97(3):896-903. doi: 10.4269/ajtmh.17-0048. Epub 2017 Jul 27.


Managing consequences of climate-driven species redistribution requires integration of ecology, conservation and social science.

Bonebrake TC, Brown CJ, Bell JD, Blanchard JL, Chauvenet A, Champion C, Chen IC, Clark TD, Colwell RK, Danielsen F, Dell AI, Donelson JM, Evengård B, Ferrier S, Frusher S, Garcia RA, Griffis RB, Hobday AJ, Jarzyna MA, Lee E, Lenoir J, Linnetved H, Martin VY, McCormack PC, McDonald J, McDonald-Madden E, Mitchell N, Mustonen T, Pandolfi JM, Pettorelli N, Possingham H, Pulsifer P, Reynolds M, Scheffers BR, Sorte CJB, Strugnell JM, Tuanmu MN, Twiname S, Vergés A, Villanueva C, Wapstra E, Wernberg T, Pecl GT.

Biol Rev Camb Philos Soc. 2018 Feb;93(1):284-305. doi: 10.1111/brv.12344. Epub 2017 Jun 1.


Biodiversity redistribution under climate change: Impacts on ecosystems and human well-being.

Pecl GT, Araújo MB, Bell JD, Blanchard J, Bonebrake TC, Chen IC, Clark TD, Colwell RK, Danielsen F, Evengård B, Falconi L, Ferrier S, Frusher S, Garcia RA, Griffis RB, Hobday AJ, Janion-Scheepers C, Jarzyna MA, Jennings S, Lenoir J, Linnetved HI, Martin VY, McCormack PC, McDonald J, Mitchell NJ, Mustonen T, Pandolfi JM, Pettorelli N, Popova E, Robinson SA, Scheffers BR, Shaw JD, Sorte CJ, Strugnell JM, Sunday JM, Tuanmu MN, Vergés A, Villanueva C, Wernberg T, Wapstra E, Williams SE.

Science. 2017 Mar 31;355(6332). pii: eaai9214. doi: 10.1126/science.aai9214. Review.


Genomic Methods and Microbiological Technologies for Profiling Novel and Extreme Environments for the Extreme Microbiome Project (XMP).

Tighe S, Afshinnekoo E, Rock TM, McGrath K, Alexander N, McIntyre A, Ahsanuddin S, Bezdan D, Green SJ, Joye S, Stewart Johnson S, Baldwin DA, Bivens N, Ajami N, Carmical JR, Herriott IC, Colwell R, Donia M, Foox J, Greenfield N, Hunter T, Hoffman J, Hyman J, Jorgensen E, Krawczyk D, Lee J, Levy S, Garcia-Reyero N, Settles M, Thomas K, Gómez F, Schriml L, Kyrpides N, Zaikova E, Penterman J, Mason CE.

J Biomol Tech. 2017 Apr;28(1):31-39. doi: 10.7171/jbt.17-2801-004. Epub 2017 Mar 10. Erratum in: J Biomol Tech. 2017 Jul;28(2):93.


Environment-induced changes in selective constraints on social learning during the peopling of the Americas.

Buchanan B, Chao A, Chiu CH, Colwell RK, O'Brien MJ, Werner A, Eren MI.

Sci Rep. 2017 Mar 16;7:44431. doi: 10.1038/srep44431.


Vibrio cholerae O1 with Reduced Susceptibility to Ciprofloxacin and Azithromycin Isolated from a Rural Coastal Area of Bangladesh.

Rashed SM, Hasan NA, Alam M, Sadique A, Sultana M, Hoq MM, Sack RB, Colwell RR, Huq A.

Front Microbiol. 2017 Feb 21;8:252. doi: 10.3389/fmicb.2017.00252. eCollection 2017.


CRISPR-Cas and Contact-Dependent Secretion Systems Present on Excisable Pathogenicity Islands with Conserved Recombination Modules.

Carpenter MR, Kalburge SS, Borowski JD, Peters MC, Colwell RR, Boyd EF.

J Bacteriol. 2017 Apr 25;199(10). pii: e00842-16. doi: 10.1128/JB.00842-16. Print 2017 May 15.


SYN-004 (ribaxamase), an oral beta-lactamase, mitigates antibiotic-mediated dysbiosis in a porcine gut microbiome model.

Connelly S, Bristol JA, Hubert S, Subramanian P, Hasan NA, Colwell RR, Kaleko M.

J Appl Microbiol. 2017 Feb 28. doi: 10.1111/jam.13432. [Epub ahead of print]


Natural Disasters and Cholera Outbreaks: Current Understanding and Future Outlook.

Jutla A, Khan R, Colwell R.

Curr Environ Health Rep. 2017 Mar;4(1):99-107. doi: 10.1007/s40572-017-0132-5. Review.


Beyond cost-effectiveness: Using systems analysis for infectious disease preparedness.

Phelps C, Madhavan G, Rappuoli R, Colwell R, Fineberg H.

Vaccine. 2017 Jan 20;35 Suppl 1:A46-A49. doi: 10.1016/j.vaccine.2016.08.090. Epub 2016 Dec 22.


Application of a paper based device containing a new culture medium to detect Vibrio cholerae in water samples collected in Haiti.

Briquaire R, Colwell RR, Boncy J, Rossignol E, Dardy A, Pandini I, Villeval F, Machuron JL, Huq A, Rashed S, Vandevelde T, Rozand C.

J Microbiol Methods. 2017 Feb;133:23-31. doi: 10.1016/j.mimet.2016.12.014. Epub 2016 Dec 19.


Enrichment dynamics of Listeria monocytogenes and the associated microbiome from naturally contaminated ice cream linked to a listeriosis outbreak.

Ottesen A, Ramachandran P, Reed E, White JR, Hasan N, Subramanian P, Ryan G, Jarvis K, Grim C, Daquiqan N, Hanes D, Allard M, Colwell R, Brown E, Chen Y.

BMC Microbiol. 2016 Nov 16;16(1):275.


Reduced Susceptibility to Extended-Spectrum β-Lactams in Vibrio cholerae Isolated in Bangladesh.

Ceccarelli D, Alam M, Huq A, Colwell RR.

Front Public Health. 2016 Oct 18;4:231. eCollection 2016.


Infant gastrostomy outcomes: The cost of complications.

Landisch RM, Colwell RC, Densmore JC.

J Pediatr Surg. 2016 Dec;51(12):1976-1982. doi: 10.1016/j.jpedsurg.2016.09.025. Epub 2016 Sep 15.


Climate influence on Vibrio and associated human diseases during the past half-century in the coastal North Atlantic.

Vezzulli L, Grande C, Reid PC, Hélaouët P, Edwards M, Höfle MG, Brettar I, Colwell RR, Pruzzo C.

Proc Natl Acad Sci U S A. 2016 Aug 23;113(34):E5062-71. doi: 10.1073/pnas.1609157113. Epub 2016 Aug 8.


IncA/C Conjugative Plasmids Mobilize a New Family of Multidrug Resistance Islands in Clinical Vibrio cholerae Non-O1/Non-O139 Isolates from Haiti.

Carraro N, Rivard N, Ceccarelli D, Colwell RR, Burrus V.

MBio. 2016 Jul 19;7(4). pii: e00509-16. doi: 10.1128/mBio.00509-16.


Are natural reservoirs important for cholera surveillance? The case of an outbreak in a Brazilian estuary.

Martinelli Filho JE, Lopes RM, Rivera IN, Colwell RR.

Lett Appl Microbiol. 2016 Sep;63(3):183-8. doi: 10.1111/lam.12614. Epub 2016 Aug 5.


Midpoint attractors and species richness: Modelling the interaction between environmental drivers and geometric constraints.

Colwell RK, Gotelli NJ, Ashton LA, Beck J, Brehm G, Fayle TM, Fiedler K, Forister ML, Kessler M, Kitching RL, Klimes P, Kluge J, Longino JT, Maunsell SC, McCain CM, Moses J, Noben S, Sam K, Sam L, Shapiro AM, Wang X, Novotny V.

Ecol Lett. 2016 Sep;19(9):1009-22. doi: 10.1111/ele.12640. Epub 2016 Jun 30.


Comparison of inferred relatedness based on multilocus variable-number tandem-repeat analysis and whole genome sequencing of Vibrio cholerae O1.

Rashid MU, Almeida M, Azman AS, Lindsay BR, Sack DA, Colwell RR, Huq A, Morris JG Jr, Alam M, Stine OC.

FEMS Microbiol Lett. 2016 Jun;363(12). pii: fnw116. doi: 10.1093/femsle/fnw116. Epub 2016 Apr 28.


Chitin promotes Mycobacterium ulcerans growth.

Sanhueza D, Chevillon C, Colwell R, Babonneau J, Marion E, Marsollier L, Guégan JF.

FEMS Microbiol Ecol. 2016 Jun;92(6):fiw067. doi: 10.1093/femsec/fiw067. Epub 2016 Mar 27.


Seasonal and daily climate variation have opposite effects on species elevational range size.

Chan WP, Chen IC, Colwell RK, Liu WC, Huang CY, Shen SF.

Science. 2016 Mar 25;351(6280):1437-9. doi: 10.1126/science.aab4119. Erratum in: Science. 2018 May 4;360(6388):.


Strategic Planning in Population Health and Public Health Practice: A Call to Action for Higher Education.

Phelps C, Madhavan G, Rappuoli R, Levin S, Shortliffe E, Colwell R.

Milbank Q. 2016 Mar;94(1):109-25. doi: 10.1111/1468-0009.12182.


Phylogenetic Diversity of Vibrio cholerae Associated with Endemic Cholera in Mexico from 1991 to 2008.

Choi SY, Rashed SM, Hasan NA, Alam M, Islam T, Sadique A, Johura FT, Eppinger M, Ravel J, Huq A, Cravioto A, Colwell RR.

MBio. 2016 Mar 15;7(2):e02160. doi: 10.1128/mBio.02160-15.


Turning Up the Heat on a Hotspot: DNA Barcodes Reveal 80% More Species of Geometrid Moths along an Andean Elevational Gradient.

Brehm G, Hebert PD, Colwell RK, Adams MO, Bodner F, Friedemann K, Möckel L, Fiedler K.

PLoS One. 2016 Mar 9;11(3):e0150327. doi: 10.1371/journal.pone.0150327. eCollection 2016.


Cross-talk among flesh-eating Aeromonas hydrophila strains in mixed infection leading to necrotizing fasciitis.

Ponnusamy D, Kozlova EV, Sha J, Erova TE, Azar SR, Fitts EC, Kirtley ML, Tiner BL, Andersson JA, Grim CJ, Isom RP, Hasan NA, Colwell RR, Chopra AK.

Proc Natl Acad Sci U S A. 2016 Jan 19;113(3):722-7. doi: 10.1073/pnas.1523817113. Epub 2016 Jan 5.


Building Infectious Disease Research Programs to Promote Security and Enhance Collaborations with Countries of the Former Soviet Union.

Bartholomew JC, Pearson AD, Stenseth NC, LeDuc JW, Hirschberg DL, Colwell RR.

Front Public Health. 2015 Nov 26;3:271. doi: 10.3389/fpubh.2015.00271. eCollection 2015. Review.


Occurrence and Diversity of Clinically Important Vibrio Species in the Aquatic Environment of Georgia.

Kokashvili T, Whitehouse CA, Tskhvediani A, Grim CJ, Elbakidze T, Mitaishvili N, Janelidze N, Jaiani E, Haley BJ, Lashkhi N, Huq A, Colwell RR, Tediashvili M.

Front Public Health. 2015 Oct 13;3:232. doi: 10.3389/fpubh.2015.00232. eCollection 2015.


Predictive Time Series Analysis Linking Bengal Cholera with Terrestrial Water Storage Measured from Gravity Recovery and Climate Experiment Sensors.

Jutla A, Akanda A, Unnikrishnan A, Huq A, Colwell R.

Am J Trop Med Hyg. 2015 Dec;93(6):1179-86. doi: 10.4269/ajtmh.14-0648. Epub 2015 Nov 2.


Molecular tools in understanding the evolution of Vibrio cholerae.

Rahaman MH, Islam T, Colwell RR, Alam M.

Front Microbiol. 2015 Oct 6;6:1040. doi: 10.3389/fmicb.2015.01040. eCollection 2015. Review.


Satellite Based Assessment of Hydroclimatic Conditions Related to Cholera in Zimbabwe.

Jutla A, Aldaach H, Billian H, Akanda A, Huq A, Colwell R.

PLoS One. 2015 Sep 29;10(9):e0137828. doi: 10.1371/journal.pone.0137828. eCollection 2015.


Rapid proliferation of Vibrio parahaemolyticus, Vibrio vulnificus, and Vibrio cholerae during freshwater flash floods in French Mediterranean coastal lagoons.

Esteves K, Hervio-Heath D, Mosser T, Rodier C, Tournoud MG, Jumas-Bilak E, Colwell RR, Monfort P.

Appl Environ Microbiol. 2015 Nov;81(21):7600-9. doi: 10.1128/AEM.01848-15. Epub 2015 Aug 28.


Unveiling the species-rank abundance distribution by generalizing the Good-Turing sample coverage theory.

Chao A, Hsieh TC, Chazdon RL, Colwell RK, Gotelli NJ.

Ecology. 2015 May;96(5):1189-201.


An estimate of the number of tropical tree species.

Slik JW, Arroyo-Rodríguez V, Aiba S, Alvarez-Loayza P, Alves LF, Ashton P, Balvanera P, Bastian ML, Bellingham PJ, van den Berg E, Bernacci L, da Conceição Bispo P, Blanc L, Böhning-Gaese K, Boeckx P, Bongers F, Boyle B, Bradford M, Brearley FQ, Breuer-Ndoundou Hockemba M, Bunyavejchewin S, Calderado Leal Matos D, Castillo-Santiago M, Catharino EL, Chai SL, Chen Y, Colwell RK, Chazdon RL, Clark C, Clark DB, Clark DA, Culmsee H, Damas K, Dattaraja HS, Dauby G, Davidar P, DeWalt SJ, Doucet JL, Duque A, Durigan G, Eichhorn KA, Eisenlohr PV, Eler E, Ewango C, Farwig N, Feeley KJ, Ferreira L, Field R, de Oliveira Filho AT, Fletcher C, Forshed O, Franco G, Fredriksson G, Gillespie T, Gillet JF, Amarnath G, Griffith DM, Grogan J, Gunatilleke N, Harris D, Harrison R, Hector A, Homeier J, Imai N, Itoh A, Jansen PA, Joly CA, de Jong BH, Kartawinata K, Kearsley E, Kelly DL, Kenfack D, Kessler M, Kitayama K, Kooyman R, Larney E, Laumonier Y, Laurance S, Laurance WF, Lawes MJ, Amaral IL, Letcher SG, Lindsell J, Lu X, Mansor A, Marjokorpi A, Martin EH, Meilby H, Melo FP, Metcalfe DJ, Medjibe VP, Metzger JP, Millet J, Mohandass D, Montero JC, de Morisson Valeriano M, Mugerwa B, Nagamasu H, Nilus R, Ochoa-Gaona S, Onrizal, Page N, Parolin P, Parren M, Parthasarathy N, Paudel E, Permana A, Piedade MT, Pitman NC, Poorter L, Poulsen AD, Poulsen J, Powers J, Prasad RC, Puyravaud JP, Razafimahaimodison JC, Reitsma J, Dos Santos JR, Roberto Spironello W, Romero-Saltos H, Rovero F, Rozak AH, Ruokolainen K, Rutishauser E, Saiter F, Saner P, Santos BA, Santos F, Sarker SK, Satdichanh M, Schmitt CB, Schöngart J, Schulze M, Suganuma MS, Sheil D, da Silva Pinheiro E, Sist P, Stevart T, Sukumar R, Sun IF, Sunderland T, Suresh HS, Suzuki E, Tabarelli M, Tang J, Targhetta N, Theilade I, Thomas DW, Tchouto P, Hurtado J, Valencia R, van Valkenburg JL, Van Do T, Vasquez R, Verbeeck H, Adekunle V, Vieira SA, Webb CO, Whitfeld T, Wich SA, Williams J, Wittmann F, Wöll H, Yang X, Adou Yao CY, Yap SL, Yoneda T, Zahawi RA, Zakaria R, Zang R, de Assis RL, Garcia Luize B, Venticinque EM.

Proc Natl Acad Sci U S A. 2015 Jun 16;112(24):7472-7. doi: 10.1073/pnas.1423147112. Epub 2015 Jun 1. Erratum in: Proc Natl Acad Sci U S A. 2015 Aug 18;112(33):E4628-9. Robin, Chazdon L [corrected to Chazdon, Robin L]; Sunderand, Terry [corrected to Sunderland, Terry].


Deep-sea hydrothermal vent bacteria related to human pathogenic Vibrio species.

Hasan NA, Grim CJ, Lipp EK, Rivera IN, Chun J, Haley BJ, Taviani E, Choi SY, Hoq M, Munk AC, Brettin TS, Bruce D, Challacombe JF, Detter JC, Han CS, Eisen JA, Huq A, Colwell RR.

Proc Natl Acad Sci U S A. 2015 May 26;112(21):E2813-9. doi: 10.1073/pnas.1503928112. Epub 2015 May 11.

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