1.
Worby CJ, Schreiber HL, Straub TJ, et al. Longitudinal multi-omics analyses link gut microbiome dysbiosis with recurrent urinary tract infections in women. Nat Microbiol. 2022;7(5):630-639. doi:10.1038/s41564-022-01107-x.
1.
Nielsen KL, Stegger M, Kiil K, et al. Whole-genome comparison of urinary pathogenic Escherichia coli and faecal isolates of UTI patients and healthy controls. Int J Med Microbiol. 2017;307(8):497-507. doi:10.1016/j.ijmm.2017.09.007.
1.
Certain LK, Way JC, Pezone MJ, Collins JJ. Using Engineered Bacteria to Characterize Infection Dynamics and Antibiotic Effects In Vivo. Cell Host Microbe. 2017;22(3):263-268.e4. doi:10.1016/j.chom.2017.08.001.
1.
Yang JH, Bhargava P, McCloskey D, Mao N, Palsson BO, Collins JJ. Antibiotic-Induced Changes to the Host Metabolic Environment Inhibit Drug Efficacy and Alter Immune Function. Cell Host Microbe. 2017;22(6):757-765.e3. doi:10.1016/j.chom.2017.10.020.
1.
Pacheco AR, Lazarus JE, Sit B, et al. CRISPR Screen Reveals that EHEC’s T3SS and Shiga Toxin Rely on Shared Host Factors for Infection. mBio. 2018;9(3). doi:10.1128/mBio.01003-18.
1.
Lopatkin AJ, Bening SC, Manson AL, et al. Clinically relevant mutations in core metabolic genes confer antibiotic resistance. Science. 2021;371(6531). doi:10.1126/science.aba0862.
1.
Navarro-Garcia F. Escherichia coli O104:H4 Pathogenesis: an Enteroaggregative E. coli/Shiga Toxin-Producing E. coli Explosive Cocktail of High Virulence. Microbiol Spectr. 2014;2(6). doi:10.1128/microbiolspec.EHEC-0008-2013.
1.
Heath RJW, Leong JM, Visegrády B, Machesky LM, Xavier RJ. Bacterial and host determinants of MAL activation upon EPEC infection: the roles of Tir, ABRA, and FLRT3. PLoS Pathog. 2011;7(4):e1001332. doi:10.1371/journal.ppat.1001332.
1.
Nielsen KL, Godfrey PA, Stegger M, Andersen PS, Feldgarden M, Frimodt-Møller N. Selection of unique Escherichia coli clones by random amplified polymorphic DNA (RAPD): Evaluation by whole genome sequencing. J Microbiol Methods. 2014;103:101-3. doi:10.1016/j.mimet.2014.05.018.
1.
Luo C, Walk ST, Gordon DM, Feldgarden M, Tiedje JM, Konstantinidis KT. Genome sequencing of environmental Escherichia coli expands understanding of the ecology and speciation of the model bacterial species. Proc Natl Acad Sci U S A. 2011;108(17):7200-5. doi:10.1073/pnas.1015622108.