Michelle Qiu Carter
Produce Safety and Microbiology Research
Research Microbiologist
Phone: (510) 559-6180
Fax: (510) 559-6162
(Employee information on this page comes from the REE Directory. Please contact your front office staff to update the REE Directory.)
Publications
(Clicking on the reprint icon
will take you to the publication reprint.)
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Genomic and phenotypic characterization of Shiga toxin-producing Escherichia albertii strains isolated from wild birds in a major agricultural region in California
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Carter, M.Q., Quinones, B., He, X., Pham, A.C., Carychao, D.K., Cooley, M., Lo, C., Chain, P.S., Lindsey, R.L., Bono, J.L. 2023. Genomic and phenotypic characterization of Shiga toxin-producing Escherichia albertii strains isolated from wild birds in a major agricultural region in California. Microorganisms. 11(11). Article 2803. https://doi.org/10.3390/microorganisms11112803.
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Pathogenicity assessment of Shiga toxin-producing Escherichia coli strains isolated from wild birds in a major agricultural region in California
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Carter, M.Q., Quinones, B., Laniohan, N.S., Carychao, D.K., Pham, A.C., He, X., Cooley, M. 2023. Pathogenicity assessment of Shiga toxin-producing Escherichia coli strains isolated from wild birds in a major agricultural region in California. Frontiers in Microbiology. 14. Article 1214081. https://doi.org/10.3389/fmicb.2023.1214081.
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Comparative genomic and phenotypic analyses of virulence potential in Shiga toxin-producing Escherichia coli O121:H7 and O121:H10
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Carter, M.Q., Laniohan, N.S., Pham, A., Quinones, B. 2022. Comparative genomic and phenotypic analyses of virulence potential in Shiga toxin-producing Escherichia coli O121:H7 and O121:H10. Frontiers in Cellular and Infection Microbiology. 12. Article 1043726. https://doi.org/10.3389/fcimb.2022.1043726.
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Effect of an eco-friendly cuminaldehyde guanylhydrazone disinfectant on Shiga toxin production and global transcription of Escherichia coli
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Wang, Y., Hart-Cooper, W.M., Rasooly, R., Carter, M.Q., Orts, W.J., Gu, Y.Q., He, X. 2022. Effect of an eco-friendly cuminaldehyde guanylhydrazone disinfectant on Shiga toxin production and global transcription of Escherichia coli. Toxins. 14(11). Article 752. https://doi.org/10.3390/toxins14110752.
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Comparative genomics applied to systematically assess pathogenicity potential in Shiga toxin-producing Escherichia coli O145:H28
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Carter, M.Q., Laniohan, N.S., Lo, C., Chain, P.G. 2022. Comparative genomics applied to systematically assess pathogenicity potential in Shiga toxin-producing Escherichia coli O145:H28. Microorganisms. 10(5). Article 866. https://doi.org/10.3390/microorganisms10050866.
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Epigenetic regulation of gene expression in Shiga toxin-producing Escherichia coli: transcriptomic data
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Carter, M.Q., Hu, B., Chain, P.S. 2021. Epigenetic regulation of gene expression in Shiga toxin-producing Escherichia coli: transcriptomic data. Data in Brief. 36:107065. https://doi.org/10.1016/j.dib.2021.107065.
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Genomic insights into divergent evolution of virulence and fitness traits in Shiga toxin-producing Escherichia coli O121
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DNA Adenine Methylase, not the Pstl restriction-modification system, regulates virulence gene expression in Shiga toxin-producing Escherichia coli
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Carter, M.Q., Pham, A., Huynh, S., Parker, C., Miller, A., He, X., Hu, B., Chain, P. 2020. DNA Adenine Methylase, not the Pstl restriction-modification system, regulates virulence gene expression in Shiga toxin-producing Escherichia coli. Food Microbiology. 96. Article 103722. https://doi.org/10.1016/j.fm.2020.103722.
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Differential induction of Shiga toxin in environmental Escherichia coli O145:H28 strains carrying the same genotype as the outbreak strains
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Carter, M.Q., Pham, A.C., Du, W.N., He, X. 2020. Differential induction of Shiga toxin in environmental Escherichia coli O145:H28 strains carrying the same genotype as the outbreak strains. International Journal of Food Microbiology. 339. Article 109029. https://doi.org/10.1016/j.ijfoodmicro.2020.109029.
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Genomic insight into natural inactivation of Shiga toxin 2 production in an environmental Escherichia coli strain producing Shiga toxin 1
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Carter, M.Q., Pham, A.C., He, X., Hnasko, R.M. 2020. Genomic insight into natural inactivation of Shiga toxin 2 production in an environmental Escherichia coli strain producing Shiga toxin 1. Foodborne Pathogens and Disease. 17(9):555-567. https://doi.org/10.1089/fpd.2019.2767.
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Metagenomics as a public health risk assessment tool in a
study of natural creek sediments influenced by agricultural
and livestock runoff: potential and limitations
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Suttner, B.J., Johnston, E.R., Orellana, L.H., Rodriguez, L.M., Hatt, J.K., Carychao, D.K., Carter, M.Q., Cooley, M.B., Konstantinidis, K.T. 2020. Metagenomics as a public health risk assessment tool in a study of natural creek sediments influenced by agricultural and livestock runoff: potential and limitations. Applied and Environmental Microbiology. 86(6):e02525-19. https://doi.org/10.1128/AEM.02525-19.
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Formation of E. coli O157:H7 persister cells in the lettuce phyllosphere and application of differential equation models to predict their prevalence on lettuce plants in the field
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Munther, D.S., Carter, M.Q., Aldric, C.V., Ivanek, R., Brandl, M. 2020. Formation of E. coli O157:H7 persister cells in the lettuce phyllosphere and application of differential equation models to predict their prevalence on lettuce plants in the field. Applied and Environmental Microbiology. 86(2):e01602-19. https://doi.org/10.1128/AEM.01602-19.
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Top-down proteomic identification of Shiga toxin 1 and 2 from pathogenic Escherichia coli using MALDI-TOF-TOF tandem mass spectrometry
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Fagerquist, C.K., Zaragoza, W.J., Carter, M.Q. 2019. Top-down proteomic identification of Shiga toxin 1 and 2 from pathogenic Escherichia coli using MALDI-TOF-TOF tandem mass spectrometry. Microorganisms. 7(488):1-14. https://doi.org/10.3390/microorganisms7110488.
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Complete genome sequences of two Shiga toxin-producing Escherichia coli strains isolated from crows
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Carter, M.Q., Pham, A.C., Carychao, D.K., Cooley, M.B. 2019. Complete genome sequences of two Shiga toxin-producing Escherichia coli strains isolated from crows. Microbiology Resource Announcements. 8(45):e01082-19. https://doi.org/10.1128/MRA.01082-19.
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Typing/subtyping Shiga toxin from pathogenic Escherichia coli using MALDI-TOF-TOF tandem mass spectrometry and top-down proteomic analysis
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Fagerquist, C.K., Zaragoza, W.J., Carter, M.Q. 2019. Typing/subtyping Shiga toxin from pathogenic Escherichia coli using MALDI-TOF-TOF tandem mass spectrometry and top-down proteomic analysis. Proceedings of the ASMS Conference on Mass Spectrometry and Allied Topics, June 2 - 6, 2019, Atlanta, GA. ID 297530 (ThP 536).
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Enhanced formation of shiga toxin-producing Escherichia coli persister variants in environments relevant to leafy greens production
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Thao, S., Brandl, M., Carter, M.Q. 2019. Enhanced formation of persister variants in shiga toxin-producing Escherichia coli under conditions relevant to fresh produce production. Food Microbiology. 84:103241. https://doi.org/10.1016/j.fm.2019.103241.
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Curli fimbriae confer shiga toxin-producing Escherichia coli a competitive trait in mixed biofilms
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Carter, M.Q., Feng, D., Li, H. 2019. Curli fimbriae confer shiga toxin-producing Escherichia coli a competitive trait in mixed biofilms. Food Microbiology. 82:482-488. https://doi.org/10.1016/j.fm.2019.03.024.
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Typing/subtyping Shiga toxin from pathogenic Escherichia coli using MALDI-TOF-TOF tandem mass spectrometry and top-down proteomic analysis
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Fagerquist, C.K., Zaragoza, W.J., Carter, M.Q. 2019. Typing/subtyping Shiga toxin from pathogenic Escherichia coli using MALDI-TOF-TOF tandem mass spectrometry and top-down proteomic analysis [abstract]. 67th ASMS Conference on Mass Spectrometry and Allied Topics, June 2-6, 2019, Atlanta, GA.
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A clonal shiga toxin-producing Escherichia coli O121:H19 population exhibits diverse carbon utilization patterns
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Carter, M.Q., Tan, Z., Pham, A.C., Carychao, D.K., Cooley, M.B. 2019. A clonal shiga toxin-producing Escherichia coli O121:H19 population exhibits diverse carbon utilization patterns. Foodborne Pathogens and Disease. 16(6):384-393. https://doi.org/10.1089/fpd.2018.2567.
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imGLAD: accurate detection and quantification of target organisms in metagenomes
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Castro, J.C., Rodriguez, L.M., Harvey, W.T., Weigland, M.R., Hatt, J.K., Carter, M.Q., Konstantinidis, K. 2018. imGLAD: accurate detection and quantification of target organisms in metagenomes. PeerJ. 6:e5882. https://doi.org/10.7717/peerj.5882.
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Complete genome sequences of two atypical enteropathogenic Escherichia coli O145 environmental strains
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Carter, M.Q., Pham, A.C. 2018. Complete genome sequences of two atypical enteropathogenic Escherichia coli O145 environmental strains. Genome Announcements. 6:e00418-18. https://doi.org/10.1128/genomeA.00418-18.
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Complete genome sequence of a natural Escherichia coli O145:H11 isolate that belongs to Phylo-group A
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Carter, M.Q., Pham, A.C. 2018. Complete genome sequence of a natural Escherichia coli O145:H11 isolate that belongs to Phylo-group A. Genome Announcements. 6:e000349-18. https://doi.org/10.1128/genomeA.00349-18.
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Survival of foodborne pathogens on commercially packed table grapes under simulated refrigerated transit conditions
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Carter, M.Q., Feng, D., Chapman, M.H., Gabler, F. 2017. Survival of foodborne pathogens on commercially packed table grapes under simulated refrigerated transit conditions. Food Microbiology. 72:199-205. https://doi.org/10.1016/j.fm.2017.12.004.
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Conditional function of autoaggregative protein cah and common cah mutations in Shiga toxin-producing Escherichia coli
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Carter, M.Q., Brandl, M., Kudva, I.T., Katani, R., Moreau, M.R., Kapur, V. 2017. Conditional function of autoaggregative protein cah and common cah mutations in Shiga toxin-producing Escherichia coli. Applied and Environmental Microbiology. 84(1):e01739-17. https://doi.org/10.1128/AEM.01739-17.
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Complete Genome Sequence of a Shiga toxin-producing Enterobacter cloacae Clinical Isolate
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Carter, M.Q., Pham, A.C., Huynh, S., He, X. 2017. Complete Genome Sequence of a Shiga toxin-producing Enterobacter cloacae Clinical Isolate. Genome Announcements. 5(37):e00883-17. https://doi.org/10.1128/genomeA.00883-17.
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Conjugative type IVb pilus recognizes lipopolysaccharide of recipient cells to initiate PAPI-1 pathogenicity island transfer in Pseudomonas aeruginosa
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Phuoc, T., Carter, M.Q., Cosonato, S., Lory, S., Jousson, O. 2017. Conjugative type IVb pilus recognizes lipopolysaccharide of recipient cells to initiate PAPI-1 pathogenicity island transfer in Pseudomonas aeruginosa. BMC Microbiology. (2017) 17:31 DOI 10.1186/s12866-017-0943-4.
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Decoding the ecological function of accessory genome
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Carter, M.Q. 2016. Decoding the ecological function of accessory genome. Trends in Microbiology. 25(1):6-8. doi:org/10.1016/j.tim.2016.11.012.
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Curli temper adherence of Escherichia coli O157:H7 to squamous epithelial cells from the bovine recto-anal junction in a strain-dependent manner
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Kudva, I.T., Carter, M.Q., Sharma, V.K., Stasko, J.A., Giron, J.A. 2016. Curli temper adherence of Escherichia coli O157:H7 to squamous epithelial cells from the bovine recto-anal junction in a strain-dependent manner. Applied and Environmental Microbiology. 83(1):e02594-16. doi: 10.1128/AEM.02594-16.
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Curli fimbriae are conditionally required in Escherichia coli O157:H7 for initial attachment and biofilm formation
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Carter, M.Q., Louie, J.W., Feng, D., Zhong, W.W., Brandl, M. 2016. Curli fimbriae are conditionally required in Escherichia coli O157:H7 for initial attachment and biofilm formation. Food Microbiology. 57: 81-89.
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The polymorphic aggregative phenotype of Shiga toxin-producing Escherichia coli O111 depends on rpoS and curli
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Diodati, M.E., Bates, A.H., Miller, W.G., Carter, M.Q., Zhou, Y., Brandl, M. 2016. The polymorphic aggregative phenotype of Shiga toxin-producing Escherichia coli O111 depends on rpoS and curli. Applied and Environmental Microbiology. 82:1475–1485. doi: 10.1128/AEM.03935-15.
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An environmental shiga toxin-producing Escherichia coli O145 clonal population exhibits high-level phenotypic variation that includes virulence traits
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Carter, M.Q., Quinones, B., He, X., Louie, J.W., Zhong, W.W., Lee, B.G., Yambao, J.C., Mandrell, R.E., Cooley, M.B. 2015. An environmental shiga toxin-producing Escherichia coli O145 clonal population exhibits high-level phenotypic variation that includes virulence traits. Applied and Environmental Microbiology. doi: 10.1128/AEM.03172-15.
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Curli modulates adherence of Escherichia coli O157 to bovine recto-anal junction squamous epithelial cells
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Kudva, I.T., Giron, J.A., Carter, M.Q., Sharma, V.K., Arthur, T.M. 2015. Curli modulates adherence of Escherichia coli O157 to bovine recto-anal junction squamous epithelial cells [abstract]. American Society for Microbiology. Abstract No. 1557.
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Comparative genomic analysis and adherence characteristics of supershedder strains of Escherichia coli O157:H7
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Katani, R., Moreau, M.R., Kudva, I.T., Carter, M.Q., Garay, J.A., Cote, R., Li, L., Arthur, T.M., Debroy, C., Mwangi, M., Kapur, V. 2015. Comparative genomic analysis and adherence characteristics of supershedder strains of Escherichia coli O157:H7 [abstract]. American Society for Microbiology. Abstract No. 973.
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Effect of sulfur dioxide fumigation on survival of foodborne pathogens on table grapes under standard storage temperature
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Carter, M.Q., Chapman, M.H., Gabler, F., Brandl, M. 2015. Effect of sulfur dioxide fumigation on survival of foodborne pathogens on table grapes under standard storage temperature. Food Microbiology. 49:189-196. doi: 10.1016/j.fm.2015.02.002.
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Comparative analysis of super-shedder strains of Escherichia coli O157:H7 reveals distinctive genomic features and a strongly aggregative adherent phenotype on bovine rectoanal junction squamous epithelial cells
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Cote, R., Katani, R., Mathew, M.R., Kudva, I.T., Arthur, T.M., DebRoy, C., Mwangi, M.M., Albert, I., Garay, J.R., Li, L., Brandl, M., Carter, M.Q., Kapur, V. 2015. Comparative analysis of super-shedder strains of Escherichia coli O157:H7 reveals distinctive genomic features and a strongly aggregative adherent phenotype on bovine rectoanal junction squamous epithelial cells. PLoS One. 10(2):e0116743. DOI: 10.1371/journal.pone.0116743.
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Characterization of foodborne Staphylococcus aureus isolates: association of toxin gene profile with genotype and food commodities in Shanghai, China
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Song, M., Yalong, B., Jie, X., Carter, M.Q., Chunlei, S., Shi, X. 2014. Characterization of foodborne Staphylococcus aureus isolates: association of toxin gene profile with genotype and food commodities in Shanghai, China. International Journal of Food Microbiology. doi: 10.1016/j.ijfoodmicro.2014.11.020.
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Natural rpoS mutations contribute to the phenotypic heterogeneity of clonal populations in Escherichia coli O157:H7
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Carter, M.Q., Louie, J.W., Huynh, S., Parker, C. 2014. Natural rpoS mutations contribute to the phenotypic heterogeneity of clonal populations in Escherichia coli O157:H7. Food Microbiology. 44:108-118.
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Complete genome sequences of two Escherichia coli O145:H28 outbreak strains of food origin
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Cooper, K.K., Mandrell, R.E., Louie, J.W., Korlach, J., Clark, T.A., Parker, C., Huynh, S., Chain, P.S., Ahmed, S., Carter, M.Q. 2014. Complete genome sequences of two Escherichia coli O145:H28 outbreak strains of food origin. Genome Announcements. 2(3):e00482-14. DOI: 10.1128/genomeA.00482-14..
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Comparative genomic and phenotypic characterization of super-shedder Escherichia coli O157:H7
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Katani, R., Cote, R., Moreau, M.R., Kudva, I.T., Brandl, M., Carter, M.Q., Arthur, T.M., Debroy, C. 2014. Comparative genomic and phenotypic characterization of super-shedder Escherichia coli O157:H7 [abstract]. American Society for Microbiology. Abstract No. 59.
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Molecular insights into the unique phenotypes exhibited by super shed shiga toxin producing Escherichia coli O157
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Moreau, M.R., Katani, R., Cote, R., Kudva, I.T., Brandl, M., Carter, M.Q., Arthur, T.M., Debroy, C., Goodfield, L., Li, L., Kapur, V. 2014. Molecular insights into the unique phenotypes exhibited by super shed shiga toxin producing Escherichia coli O157 [abstract]. American Society for Microbiology. Abstract No. 179.
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Comparative genomics of enterohemorrhagic Escherichia coli O145:H28 demonstrates a common evolutionary lineage with Escherichia coli O157:H7
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Cooper, K.K., Mandrell, R.E., Louie, J.W., Korlach, J., Clark, T.A., Parker, C., Huynh, S., Chain, P.S., Ahmed, S., Carter, M.Q. 2014. Comparative genomics of enterohemorrhagic Escherichia coli O145:H28 demonstrates a common evolutionary lineage with Escherichia coli O157:H7. Biomed Central (BMC) Genomics. doi: 10.1186/1471-2164-15-17.
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Genomic and molecular analysis of the hyperadherent phenotype of an Escherichia coli O157:H7 super shedder isolate
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Moreau, M.R., Cote, R., Katani, R., Kudva, I.T., Carter, M.Q., Brandl, M., Kapur, V. 2013. Genomic and molecular analysis of the hyperadherent phenotype of an Escherichia coli O157:H7 super shedder isolate [abstract]. In: Proceedings of Molecular Biology, Sensing and Signaling Across the Mucosa: From Homeostasis to Pathogenesis, June 4-6, 2013, University Park, Pennsylvania. p. 92.
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The PathoChip, a functional gene array for assessing pathogenic properties of diverse microbial communities
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Lee, Y., Van Nostrand, J.D., Tu, Q., Lu, Z., Cheng, L., Yuan, T., Deng, Y., Carter, M.Q., He, Z., Wu, L., Zhou, J. 2013. The PathoChip, a functional gene array for assessing pathogenic properties of diverse microbial communities. The ISME Journal: Multidisciplinary Journal of Microbial Ecology. doi: 10.1038/ismej.2013.88.
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Possible evidence of amide bond formation between sinapinic acid and lysine-containing bacterial proteins by matrix-assisted laser desorption/ionization (MALDI) at 355 nm
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Fagerquist, C.K., Sultan, O., Carter, M.Q. 2012. Possible evidence of amide bond formation between sinapinic acid and lysine-containing bacterial proteins by matrix-assisted laser desorption/ionization (MALDI) at 355 nm. Journal of American Society for Mass Spectrometry. 23(12):2102-2114.
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RcsB contributes to the distinct stress fitness between Escherichia coli O157:H7 curli variants of 1993 hamburger-associated outbreak strains
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Carter, M.Q., Parker, C., Louie, J.W., Huynh, S., Fagerquist, C.K., Mandrell, R.E. 2012. RcsB contributes to the distinct stress fitness between Escherichia coli O157:H7 curli variants of 1993 hamburger-associated outbreak strains. Applied and Environmental Microbiology. doi:10.0028/AEM.02157-12.
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Functional metagenomics of Escherichia coli O157:H7 interactions with spinach indigenous microorganisms during biofilm formation
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Carter, M.Q., Xue, K., Brandl, M., Liu, F., Wu, L., Louie, J.W., Mandrell, R.E., Zhou, J. 2012. Functional metagenomics of Escherichia coli O157:H7 interactions with spinach indigenous microorganisms during biofilm formation. PLoS One. 9:e44186.
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Distinct transcriptional profiles and phenotypes exhibited by Escherichia coli O157:H7 isolates related to the 2006 spinach-associated outbreak
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Parker, C., Kyle, J.L., Huynh, S., Carter, M.Q., Brandl, M., Mandrell, R.E. 2012. Distinct transcriptional profiles and phenotypes exhibited by Escherichia coli O157:H7 isolates related to the 2006 spinach-associated outbreak. Applied and Environmental Microbiology. 78:455-463.
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Evolutionary silence of the acid chaperone protein HdeB in enterohemorrhagic Escherichia coli O157:H7
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Carter, M.Q., Louie, J.W., Fagerquist, C.K., Sultan, O., Miller, W.G., Mandrell, R.E. 2012. Evolutionary silence of the acid chaperone protein HdeB in enterohemorrhagic Escherichia coli O157:H7. Applied and Environmental Microbiology. 78:1004-1014.
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Salmonella biofilm formation on Aspergillus niger involves cellulose - chitin interactions
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Brandl, M., Carter, M.Q., Parker, C., Chapman, M.R., Huynh, S., Zhou, Y. 2011. Salmonella biofilm formation on Aspergillus niger involves cellulose - chitin interactions. PloS ONE 6(10):e25553.
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Curli variants of enterohemorrhagic Escherichia coli O157:H7 display distinct survival fitness
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Carter, M.Q., Brandl, M., Louie, J.W., Kyle, J.L., Carychao, D.K., Cooley, M.B., Parker, C., Bates, A.H., Mandrell, R.E. 2011. Curli variants of enterohemorrhagic Escherichia coli O157:H7 display distinct survival fitness. Applied and Environmental Microbiology. 77:3685-3695.
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Molecular Insights into the Phenotypic Divergence in Natural Curli Variants of Escherichia coli O157:H7
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The Pseudomonas aeruginosa Pathogenicity Island PAPI-1 is transferred via a novel Type IV pilus
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Phenotypic Divergence in Curli Variants of Enterohemorrhagic Escherichia coli O157:H7
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Transcriptome and phenotypic difference of Escherichia coli O157:H7 isolates related to the 2006 spinach-associated outbreak reveals variants in the bag
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