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Introducing BAIT (Biofilm Architecture Inference Tool): a software program to evaluate the architecture of oral multi-species biofilms.

Luo TL, Hayashi M, Zsiska M, Circello B, Eisenberg M, Gonzalez-Cabezas C, Foxman B, Marrs CF, Rickard AH.

Microbiology. 2019 May;165(5):527-537. doi: 10.1099/mic.0.000761. Epub 2019 Mar 18.


A Sensitive Thresholding Method for Confocal Laser Scanning Microscope Image Stacks of Microbial Biofilms.

Luo TL, Eisenberg MC, Hayashi MAL, Gonzalez-Cabezas C, Foxman B, Marrs CF, Rickard AH.

Sci Rep. 2018 Aug 29;8(1):13013. doi: 10.1038/s41598-018-31012-5.


The Role of Mobile Genetic Elements in the Spread of Antimicrobial-Resistant Escherichia coli From Chickens to Humans in Small-Scale Production Poultry Operations in Rural Ecuador.

Moser KA, Zhang L, Spicknall I, Braykov NP, Levy K, Marrs CF, Foxman B, Trueba G, Cevallos W, Goldstick J, Trostle J, Eisenberg JNS.

Am J Epidemiol. 2018 Mar 1;187(3):558-567. doi: 10.1093/aje/kwx286.


Modeling the Emergence of Antibiotic Resistance in the Environment: an Analytical Solution for the Minimum Selection Concentration.

Greenfield BK, Shaked S, Marrs CF, Nelson P, Raxter I, Xi C, McKone TE, Jolliet O.

Antimicrob Agents Chemother. 2018 Feb 23;62(3). pii: e01686-17. doi: 10.1128/AAC.01686-17. Print 2018 Mar.


Association of Escherichia coli ST131 lineage with risk of urinary tract infection recurrence among young women.

Ismail MD, Ali I, Hatt S, Salzman EA, Cronenwett AW, Marrs CF, Rickard AH, Foxman B.

J Glob Antimicrob Resist. 2018 Jun;13:81-84. doi: 10.1016/j.jgar.2017.12.006. Epub 2017 Dec 16.


Conservation in gene encoding Mycobacterium tuberculosis antigen Rv2660 and a high predicted population coverage of H56 multistage vaccine in South Africa.

Perez-Martinez AP, Ong E, Zhang L, Marrs CF, He Y, Yang Z.

Infect Genet Evol. 2017 Nov;55:244-250. doi: 10.1016/j.meegid.2017.09.023. Epub 2017 Sep 21.


Degradation of Extracellular Antibiotic Resistance Genes with UV254 Treatment.

Chang PH, Juhrend B, Olson TM, Marrs CF, Wigginton KR.

Environ Sci Technol. 2017 Jun 6;51(11):6185-6192. doi: 10.1021/acs.est.7b01120. Epub 2017 May 15.


Antibiotic Resistance in Animal and Environmental Samples Associated with Small-Scale Poultry Farming in Northwestern Ecuador.

Braykov NP, Eisenberg JN, Grossman M, Zhang L, Vasco K, Cevallos W, Muñoz D, Acevedo A, Moser KA, Marrs CF, Foxman B, Trostle J, Trueba G, Levy K.

mSphere. 2016 Feb 10;1(1). pii: e00021-15. doi: 10.1128/mSphere.00021-15. eCollection 2016 Jan-Feb.


Unexpected distribution of the fluoroquinolone-resistance gene qnrB in Escherichia coli isolates from different human and poultry origins in Ecuador.

Armas-Freire PI, Trueba G, Proaño-Bolaños C, Levy K, Zhang L, Marrs CF, Cevallos W, Eisenberg JN.

Int Microbiol. 2015 Jun;18(2):85-90. doi: 10.2436/20.1501.01.237.


Coaggregation occurs between microorganisms isolated from different environments.

Stevens MR, Luo TL, Vornhagen J, Jakubovics NS, Gilsdorf JR, Marrs CF, Møretrø T, Rickard AH.

FEMS Microbiol Ecol. 2015 Nov;91(11). pii: fiv123. doi: 10.1093/femsec/fiv123. Epub 2015 Oct 15.


Effects of selection pressure and genetic association on the relationship between antibiotic resistance and virulence in Escherichia coli.

Zhang L, Levy K, Trueba G, Cevallos W, Trostle J, Foxman B, Marrs CF, Eisenberg JN.

Antimicrob Agents Chemother. 2015 Nov;59(11):6733-40. doi: 10.1128/AAC.01094-15. Epub 2015 Aug 17.


Comparative Profile of Heme Acquisition Genes in Disease-Causing and Colonizing Nontypeable Haemophilus influenzae and Haemophilus haemolyticus.

Hariadi NI, Zhang L, Patel M, Sandstedt SA, Davis GS, Marrs CF, Gilsdorf JR.

J Clin Microbiol. 2015 Jul;53(7):2132-7. doi: 10.1128/JCM.00345-15. Epub 2015 Apr 22.


Efflux-mediated resistance identified among norfloxacin resistant clinical strains of group B Streptococcus from South Korea.

Dang TN, Srinivasan U, Britt Z, Marrs CF, Zhang L, Ki M, Foxman B.

Epidemiol Health. 2014 Oct 11;36:e2014022. doi: 10.4178/epih/e2014022. eCollection 2014.


Prevalence, distribution, and sequence diversity of hmwA among commensal and otitis media non-typeable Haemophilus influenzae.

Davis GS, Patel M, Hammond J, Zhang L, Dawid S, Marrs CF, Gilsdorf JR.

Infect Genet Evol. 2014 Dec;28:223-32. doi: 10.1016/j.meegid.2014.09.035. Epub 2014 Oct 5.


Otitis media associated polymorphisms in the hemin receptor HemR of nontypeable Haemophilus influenzae.

LaCross NC, Marrs CF, Gilsdorf JR.

Infect Genet Evol. 2014 Aug;26:47-57. doi: 10.1016/j.meegid.2014.05.002. Epub 2014 May 10.


Phase variation and host immunity against high molecular weight (HMW) adhesins shape population dynamics of nontypeable Haemophilus influenzae within human hosts.

Davis GS, Marino S, Marrs CF, Gilsdorf JR, Dawid S, Kirschner DE.

J Theor Biol. 2014 Aug 21;355:208-18. doi: 10.1016/j.jtbi.2014.04.010. Epub 2014 Apr 18.


Selected vaginal bacteria and risk of preterm birth: an ecological perspective.

Wen A, Srinivasan U, Goldberg D, Owen J, Marrs CF, Misra D, Wing DA, Ponnaluri S, Miles-Jay A, Bucholz B, Abbas K, Foxman B.

J Infect Dis. 2014 Apr 1;209(7):1087-94. doi: 10.1093/infdis/jit632. Epub 2013 Nov 22.


Mycoplasma, bacterial vaginosis-associated bacteria BVAB3, race, and risk of preterm birth in a high-risk cohort.

Foxman B, Wen A, Srinivasan U, Goldberg D, Marrs CF, Owen J, Wing DA, Misra D.

Am J Obstet Gynecol. 2014 Mar;210(3):226.e1-7. doi: 10.1016/j.ajog.2013.10.003. Epub 2013 Oct 4.


Exploring the effect of dentition, dental decay and familiality on oral health using metabolomics.

Foxman B, Srinivasan U, Wen A, Zhang L, Marrs CF, Goldberg D, Weyant R, McNeil D, Crout R, Marazita M.

Infect Genet Evol. 2014 Mar;22:201-7. doi: 10.1016/j.meegid.2013.09.020. Epub 2013 Sep 27.


Uropathogenic Escherichia coli are less likely than paired fecal E. coli to have CRISPR loci.

Dang TN, Zhang L, Zöllner S, Srinivasan U, Abbas K, Marrs CF, Foxman B.

Infect Genet Evol. 2013 Oct;19:212-8. doi: 10.1016/j.meegid.2013.07.017. Epub 2013 Jul 25.


A modeling framework for the evolution and spread of antibiotic resistance: literature review and model categorization.

Spicknall IH, Foxman B, Marrs CF, Eisenberg JN.

Am J Epidemiol. 2013 Aug 15;178(4):508-20. doi: 10.1093/aje/kwt017. Epub 2013 May 9. Review.


Population structure in nontypeable Haemophilus influenzae.

LaCross NC, Marrs CF, Gilsdorf JR.

Infect Genet Evol. 2013 Mar;14:125-36. doi: 10.1016/j.meegid.2012.11.023. Epub 2012 Dec 22.


Urease operon and urease activity in commensal and disease-causing nontypeable Haemophilus influenzae.

Zhang L, Patel M, Xie J, Davis GS, Marrs CF, Gilsdorf JR.

J Clin Microbiol. 2013 Feb;51(2):653-5. doi: 10.1128/JCM.03145-12. Epub 2012 Dec 5.


Gram stains: a resource for retrospective analysis of bacterial pathogens in clinical studies.

Srinivasan U, Ponnaluri S, Villareal L, Gillespie B, Wen A, Miles A, Bucholz B, Marrs CF, Iyer RK, Misra D, Foxman B.

PLoS One. 2012;7(10):e42898. doi: 10.1371/journal.pone.0042898. Epub 2012 Oct 11.


Nontypeable Haemophilus influenzae genetic islands associated with chronic pulmonary infection.

Zhang L, Xie J, Patel M, Bakhtyar A, Ehrlich GD, Ahmed A, Earl J, Marrs CF, Clemans D, Murphy TF, Gilsdorf JR.

PLoS One. 2012;7(9):e44730. doi: 10.1371/journal.pone.0044730. Epub 2012 Sep 6.


Caries resistance as a function of age in an initially caries-free population.

Wen A, Goldberg D, Marrs CF, Weyant RJ, Marazita ML, Srinivasan U, Zhang L, Crout R, McNeil DW, Foxman B.

J Dent Res. 2012 Jul;91(7):671-5. doi: 10.1177/0022034512450174. Epub 2012 Jun 5.


Effect of sex, age, and race on the clinical presentation of tuberculosis: a 15-year population-based study.

Zhang X, Andersen AB, Lillebaek T, Kamper-Jørgensen Z, Thomsen VØ, Ladefoged K, Marrs CF, Zhang L, Yang Z.

Am J Trop Med Hyg. 2011 Aug;85(2):285-90. doi: 10.4269/ajtmh.2011.10-0630.


Use of bexB to detect the capsule locus in Haemophilus influenzae.

Davis GS, Sandstedt SA, Patel M, Marrs CF, Gilsdorf JR.

J Clin Microbiol. 2011 Jul;49(7):2594-601. doi: 10.1128/JCM.02509-10. Epub 2011 Apr 27.


Identification of factors for tuberculosis transmission via an integrated multidisciplinary approach.

Talarico S, Ijaz K, Zhang X, Mukasa LN, Zhang L, Marrs CF, Cave MD, Bates JH, Yang Z.

Tuberculosis (Edinb). 2011 May;91(3):244-9. doi: 10.1016/ Epub 2011 Mar 1.


Identification of a novel keyhole phenotype in double-disk diffusion assays of clindamycin-resistant erythromycin-sensitive strains of Streptococcus agalactiae.

Srinivasan U, Miller B, Debusscher J, Marrs CF, Zhang L, Seo YS, Oh KY, Kim MY, Yoon HR, Kl M, Foxman B.

Microb Drug Resist. 2011 Mar;17(1):121-4. doi: 10.1089/mdr.2010.0040. Epub 2010 Dec 18.


Prevalence of genetic differences in phosphorylcholine expression between nontypeable Haemophilus influenzae and Haemophilus haemolyticus.

McCrea KW, Xie J, Marrs CF, Gilsdorf JR.

BMC Microbiol. 2010 Nov 12;10:286. doi: 10.1186/1471-2180-10-286.


Prevalence of Haemophilus influenzae type b genetic islands among clinical and commensal H. influenzae and H. haemolyticus isolates.

Sandstedt SA, Marrs CF, Patel M, Hirasawa H, Zhang L, Davis GS, Gilsdorf JR.

J Clin Microbiol. 2010 Jul;48(7):2565-8. doi: 10.1128/JCM.02453-09. Epub 2010 May 12.


Prevalence of the sodC gene in nontypeable Haemophilus influenzae and Haemophilus haemolyticus by microarray-based hybridization.

McCrea KW, Wang ML, Xie J, Sandstedt SA, Davis GS, Lee JH, Marrs CF, Gilsdorf JR.

J Clin Microbiol. 2010 Mar;48(3):714-9. doi: 10.1128/JCM.01416-09. Epub 2009 Dec 30.


Long-term Escherichia coli asymptomatic bacteriuria among women with diabetes mellitus.

Dalal S, Nicolle L, Marrs CF, Zhang L, Harding G, Foxman B.

Clin Infect Dis. 2009 Aug 15;49(4):491-7. doi: 10.1086/600883.


Prevalence of antibiotic resistance in drinking water treatment and distribution systems.

Xi C, Zhang Y, Marrs CF, Ye W, Simon C, Foxman B, Nriagu J.

Appl Environ Microbiol. 2009 Sep;75(17):5714-8. doi: 10.1128/AEM.00382-09. Epub 2009 Jul 6.


Comparative whole-genome analysis of Streptococcus mutans isolates within and among individuals of different caries status.

Zhang L, Foxman B, Drake DR, Srinivasan U, Henderson J, Olson B, Marrs CF, Warren JJ, Marazita ML.

Oral Microbiol Immunol. 2009 Jun;24(3):197-203. doi: 10.1111/j.1399-302X.2008.00495.x.


Wastewater treatment contributes to selective increase of antibiotic resistance among Acinetobacter spp.

Zhang Y, Marrs CF, Simon C, Xi C.

Sci Total Environ. 2009 Jun 1;407(12):3702-6. doi: 10.1016/j.scitotenv.2009.02.013. Epub 2009 Mar 24.


Streptococcus agalactiae pulsed-field gel electrophoresis patterns cross capsular types.

Pillai P, Srinivasan U, Zhang L, Borchardt SM, Debusscher J, Marrs CF, Foxman B.

Epidemiol Infect. 2009 Oct;137(10):1420-5. doi: 10.1017/S0950268809002167. Epub 2009 Mar 4.


Comparison of probe hybridization array typing to multilocus sequence typing for pathogenic Escherichia coli.

McNamara SE, Srinivasan U, Zhang L, Whittam TS, Marrs CF, Foxman B.

J Clin Microbiol. 2009 Mar;47(3):596-602. doi: 10.1128/JCM.01693-08. Epub 2009 Jan 14.


Does the lipR gene of tubercle bacilli have a role in tuberculosis transmission and pathogenesis?

Sheline KD, France AM, Talarico S, Foxman B, Zhang L, Marrs CF, Bates JH, Cave MD, Yang Z.

Tuberculosis (Edinb). 2009 Mar;89(2):114-9. doi: 10.1016/ Epub 2008 Nov 22.


High genetic diversity of nontypeable Haemophilus influenzae isolates from two children attending a day care center.

Lacross NC, Marrs CF, Patel M, Sandstedt SA, Gilsdorf JR.

J Clin Microbiol. 2008 Nov;46(11):3817-21. doi: 10.1128/JCM.00940-08. Epub 2008 Sep 24.


Comparison of laboratory-based and phylogenetic methods to distinguish between Haemophilus influenzae and H. haemolyticus.

Sandstedt SA, Zhang L, Patel M, McCrea KW, Qin Z, Marrs CF, Gilsdorf JR.

J Microbiol Methods. 2008 Oct;75(2):369-71. doi: 10.1016/j.mimet.2008.06.023. Epub 2008 Jul 3.


Mycobacterium tuberculosis PE_PGRS16 and PE_PGRS26 genetic polymorphism among clinical isolates.

Talarico S, Zhang L, Marrs CF, Foxman B, Cave MD, Brennan MJ, Yang Z.

Tuberculosis (Edinb). 2008 Jul;88(4):283-94. doi: 10.1016/ Epub 2008 Mar 4.


Combining microarray technology and molecular epidemiology to identify genes associated with invasive group B streptococcus.

Zhang L, Reddi U, Srinivasan U, Li S, Borchardt SM, Pillai P, Mehta P, Styka AN, Debusscher J, Marrs CF, Foxman B.

Interdiscip Perspect Infect Dis. 2008;2008:314762. doi: 10.1155/2008/314762. Epub 2008 Feb 25.


Relationships of nontypeable Haemophilus influenzae strains to hemolytic and nonhemolytic Haemophilus haemolyticus strains.

McCrea KW, Xie J, LaCross N, Patel M, Mukundan D, Murphy TF, Marrs CF, Gilsdorf JR.

J Clin Microbiol. 2008 Feb;46(2):406-16. Epub 2007 Nov 26.


DNA polymorphisms in the pepA and PPE18 genes among clinical strains of Mycobacterium tuberculosis: implications for vaccine efficacy.

Hebert AM, Talarico S, Yang D, Durmaz R, Marrs CF, Zhang L, Foxman B, Yang Z.

Infect Immun. 2007 Dec;75(12):5798-805. Epub 2007 Sep 24.


Genetic diversity of paired middle-ear and pharyngeal nontypeable Haemophilus influenzae isolates from children with acute otitis media.

Berrens ZJ, Marrs CF, Pettigrew MM, Sandstedt SA, Patel M, Gilsdorf JR.

J Clin Microbiol. 2007 Nov;45(11):3764-7. Epub 2007 Sep 5.


Risk factors for group B streptococcal colonization: potential for different transmission systems by capsular type.

Foxman B, Gillespie BW, Manning SD, Marrs CF.

Ann Epidemiol. 2007 Nov;17(11):854-62. Epub 2007 Aug 6.


Pharyngeal colonization dynamics of Haemophilus influenzae and Haemophilus haemolyticus in healthy adult carriers.

Mukundan D, Ecevit Z, Patel M, Marrs CF, Gilsdorf JR.

J Clin Microbiol. 2007 Oct;45(10):3207-17. Epub 2007 Aug 8.

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