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For: Gordon DM, O'Brien CL, Pavli P. Escherichia coli diversity in the lower intestinal tract of humans. Environ Microbiol Rep 2015;7:642-648. [PMID: 26034010 DOI: 10.1111/1758-2229.12300] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/04/2015] [Revised: 05/13/2015] [Accepted: 05/19/2015] [Indexed: 06/04/2023]
Number Cited by Other Article(s)
1
Cookson AL, Devane M, Marshall JC, Moinet M, Gardner A, Collis RM, Rogers L, Biggs PJ, Pita AB, Cornelius AJ, Haysom I, Hayman DTS, Gilpin BJ, Leonard M. Population structure and pathogen interaction of Escherichia coli in freshwater: Implications of land-use for water quality and public health in Aotearoa New Zealand. ENVIRONMENTAL MICROBIOLOGY REPORTS 2024;16:e13319. [PMID: 39096033 PMCID: PMC11297283 DOI: 10.1111/1758-2229.13319] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/22/2024] [Accepted: 07/13/2024] [Indexed: 08/04/2024]
2
Wu Z, Chi H, Han T, Li G, Wang J, Chen W. Differences of Escherichia coli isolated from different organs of the individual sheep: molecular typing, antibiotics resistance, and biofilm formation. Folia Microbiol (Praha) 2024;69:567-578. [PMID: 37540315 DOI: 10.1007/s12223-023-01082-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2023] [Accepted: 07/25/2023] [Indexed: 08/05/2023]
3
Lagerstrom KM, Scales NC, Hadly EA. Impressive pan-genomic diversity of E. coli from a wild animal community near urban development reflects human impacts. iScience 2024;27:109072. [PMID: 38375235 PMCID: PMC10875580 DOI: 10.1016/j.isci.2024.109072] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2023] [Revised: 11/22/2023] [Accepted: 01/26/2024] [Indexed: 02/21/2024]  Open
4
Moreira de Gouveia MI, Bernalier-Donadille A, Jubelin G. Enterobacteriaceae in the Human Gut: Dynamics and Ecological Roles in Health and Disease. BIOLOGY 2024;13:142. [PMID: 38534413 DOI: 10.3390/biology13030142] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2023] [Revised: 02/08/2024] [Accepted: 02/21/2024] [Indexed: 03/28/2024]
5
Lagerstrom KM, Hadly EA. Under-Appreciated Phylogroup Diversity of Escherichia coli within and between Animals at the Urban-Wildland Interface. Appl Environ Microbiol 2023:e0014223. [PMID: 37191541 DOI: 10.1128/aem.00142-23] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]  Open
6
Evidence for a Causal Role for Escherichia coli Strains Identified as Adherent-Invasive (AIEC) in Intestinal Inflammation. mSphere 2023;8:e0047822. [PMID: 36883813 PMCID: PMC10117065 DOI: 10.1128/msphere.00478-22] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/09/2023]  Open
7
Behruznia M, Gordon DM. Molecular and metabolic characteristics of wastewater associated Escherichia coli strains. ENVIRONMENTAL MICROBIOLOGY REPORTS 2022;14:646-654. [PMID: 35638456 PMCID: PMC9543349 DOI: 10.1111/1758-2229.13076] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/11/2022] [Accepted: 04/18/2022] [Indexed: 06/04/2023]
8
Foster-Nyarko E, Pallen MJ. The microbial ecology of Escherichia coli in the vertebrate gut. FEMS Microbiol Rev 2022;46:fuac008. [PMID: 35134909 PMCID: PMC9075585 DOI: 10.1093/femsre/fuac008] [Citation(s) in RCA: 28] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2021] [Revised: 01/31/2022] [Accepted: 02/01/2022] [Indexed: 11/13/2022]  Open
9
Behruznia M, O'Brien CL, Gordon DM. Prevalence, diversity and genetic structure of Escherichia coli isolates from septic tanks. ENVIRONMENTAL MICROBIOLOGY REPORTS 2022;14:138-146. [PMID: 34918455 DOI: 10.1111/1758-2229.13035] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/17/2021] [Accepted: 12/03/2021] [Indexed: 06/14/2023]
10
Baquero F, Martínez JL, F. Lanza V, Rodríguez-Beltrán J, Galán JC, San Millán A, Cantón R, Coque TM. Evolutionary Pathways and Trajectories in Antibiotic Resistance. Clin Microbiol Rev 2021;34:e0005019. [PMID: 34190572 PMCID: PMC8404696 DOI: 10.1128/cmr.00050-19] [Citation(s) in RCA: 66] [Impact Index Per Article: 22.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]  Open
11
Montes-Robledo A, Baldiris-Avila R, Galindo JF. D-Mannoside FimH Inhibitors as Non-Antibiotic Alternatives for Uropathogenic Escherichia coli. Antibiotics (Basel) 2021;10:antibiotics10091072. [PMID: 34572654 PMCID: PMC8465801 DOI: 10.3390/antibiotics10091072] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2021] [Revised: 07/30/2021] [Accepted: 08/03/2021] [Indexed: 11/20/2022]  Open
12
Foster-Nyarko E, Alikhan NF, Ikumapayi UN, Sarwar G, Okoi C, Tientcheu PEM, Defernez M, O'Grady J, Antonio M, Pallen MJ. Genomic diversity of Escherichia coli from healthy children in rural Gambia. PeerJ 2021;9:e10572. [PMID: 33505796 PMCID: PMC7796664 DOI: 10.7717/peerj.10572] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2020] [Accepted: 11/23/2020] [Indexed: 01/21/2023]  Open
13
Ramiro RS, Durão P, Bank C, Gordo I. Low mutational load and high mutation rate variation in gut commensal bacteria. PLoS Biol 2020;18:e3000617. [PMID: 32155146 PMCID: PMC7064181 DOI: 10.1371/journal.pbio.3000617] [Citation(s) in RCA: 40] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2019] [Accepted: 02/05/2020] [Indexed: 12/14/2022]  Open
14
Hendriks ACA, Reubsaet FAG, Kooistra-Smid AMDM, Rossen JWA, Dutilh BE, Zomer AL, van den Beld MJC. Genome-wide association studies of Shigella spp. and Enteroinvasive Escherichia coli isolates demonstrate an absence of genetic markers for prediction of disease severity. BMC Genomics 2020;21:138. [PMID: 32041522 PMCID: PMC7011524 DOI: 10.1186/s12864-020-6555-7] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2019] [Accepted: 02/04/2020] [Indexed: 11/22/2022]  Open
15
Panyukov VV, Kiselev SS, Ozoline ON. Unique k-mers as Strain-Specific Barcodes for Phylogenetic Analysis and Natural Microbiome Profiling. Int J Mol Sci 2020;21:ijms21030944. [PMID: 32023871 PMCID: PMC7037511 DOI: 10.3390/ijms21030944] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2019] [Revised: 01/21/2020] [Accepted: 01/28/2020] [Indexed: 02/07/2023]  Open
16
Mulberry N, Rutherford A, Colijn C. Systematic comparison of coexistence in models of drug-sensitive and drug-resistant pathogen strains. Theor Popul Biol 2019;133:150-158. [PMID: 31887315 DOI: 10.1016/j.tpb.2019.12.001] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2019] [Revised: 12/03/2019] [Accepted: 12/04/2019] [Indexed: 10/25/2022]
17
Escherichia coli Clonobiome: Assessing the Strain Diversity in Feces and Urine by Deep Amplicon Sequencing. Appl Environ Microbiol 2019;85:AEM.01866-19. [PMID: 31540992 DOI: 10.1128/aem.01866-19] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2019] [Accepted: 09/12/2019] [Indexed: 12/13/2022]  Open
18
Arimizu Y, Kirino Y, Sato MP, Uno K, Sato T, Gotoh Y, Auvray F, Brugere H, Oswald E, Mainil JG, Anklam KS, Döpfer D, Yoshino S, Ooka T, Tanizawa Y, Nakamura Y, Iguchi A, Morita-Ishihara T, Ohnishi M, Akashi K, Hayashi T, Ogura Y. Large-scale genome analysis of bovine commensal Escherichia coli reveals that bovine-adapted E. coli lineages are serving as evolutionary sources of the emergence of human intestinal pathogenic strains. Genome Res 2019;29:1495-1505. [PMID: 31439690 PMCID: PMC6724679 DOI: 10.1101/gr.249268.119] [Citation(s) in RCA: 28] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2019] [Accepted: 07/03/2019] [Indexed: 01/15/2023]
19
Mosavie M, Blandy O, Jauneikaite E, Caldas I, Ellington MJ, Woodford N, Sriskandan S. Sampling and diversity of Escherichia coli from the enteric microbiota in patients with Escherichia coli bacteraemia. BMC Res Notes 2019;12:335. [PMID: 31196206 PMCID: PMC6563364 DOI: 10.1186/s13104-019-4369-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2019] [Accepted: 06/05/2019] [Indexed: 12/03/2022]  Open
20
Davies NG, Flasche S, Jit M, Atkins KE. Within-host dynamics shape antibiotic resistance in commensal bacteria. Nat Ecol Evol 2019;3:440-449. [PMID: 30742105 PMCID: PMC6420107 DOI: 10.1038/s41559-018-0786-x] [Citation(s) in RCA: 51] [Impact Index Per Article: 10.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2018] [Accepted: 12/11/2018] [Indexed: 12/21/2022]
21
Temporal Variability of Escherichia coli Diversity in the Gastrointestinal Tracts of Tanzanian Children with and without Exposure to Antibiotics. mSphere 2018;3:3/6/e00558-18. [PMID: 30404930 PMCID: PMC6222053 DOI: 10.1128/msphere.00558-18] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
22
Responses of the Human Gut Escherichia coli Population to Pathogen and Antibiotic Disturbances. mSystems 2018;3:mSystems00047-18. [PMID: 30057943 PMCID: PMC6060285 DOI: 10.1128/msystems.00047-18] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2018] [Accepted: 07/06/2018] [Indexed: 11/23/2022]  Open
23
Xiaoli L, Figler HM, Goswami Banerjee K, Hayes CS, Dudley EG. Non-pathogenic Escherichia coli Enhance Stx2a Production of E. coli O157:H7 Through Both bamA-Dependent and Independent Mechanisms. Front Microbiol 2018;9:1325. [PMID: 29973923 PMCID: PMC6020778 DOI: 10.3389/fmicb.2018.01325] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2018] [Accepted: 05/30/2018] [Indexed: 01/14/2023]  Open
24
Comparative ecology of Escherichia coli in endangered Australian sea lion (Neophoca cinerea) pups. INFECTION GENETICS AND EVOLUTION 2018;62:262-269. [PMID: 29730275 DOI: 10.1016/j.meegid.2018.05.002] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/01/2018] [Revised: 05/01/2018] [Accepted: 05/02/2018] [Indexed: 02/07/2023]
25
Stork C, Kovács B, Rózsai B, Putze J, Kiel M, Dorn Á, Kovács J, Melegh S, Leimbach A, Kovács T, Schneider G, Kerényi M, Emödy L, Dobrindt U. Characterization of Asymptomatic Bacteriuria Escherichia coli Isolates in Search of Alternative Strains for Efficient Bacterial Interference against Uropathogens. Front Microbiol 2018;9:214. [PMID: 29491858 PMCID: PMC5817090 DOI: 10.3389/fmicb.2018.00214] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2017] [Accepted: 01/30/2018] [Indexed: 12/16/2022]  Open
26
Draft Genome Sequence of Escherichia coli Strain SN137, a Bacterium with Extracellular Proteolytic Activity on Immunoglobulins and Persistence in Human Tissue Blood. GENOME ANNOUNCEMENTS 2018;6:6/3/e01455-17. [PMID: 29348341 PMCID: PMC5773726 DOI: 10.1128/genomea.01455-17] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 12/04/2022]
27
Dixit OVA, O'Brien CL, Pavli P, Gordon DM. Within-host evolution versus immigration as a determinant of Escherichia coli diversity in the human gastrointestinal tract. Environ Microbiol 2017;20:993-1001. [PMID: 29266651 DOI: 10.1111/1462-2920.14028] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2017] [Accepted: 12/12/2017] [Indexed: 11/28/2022]
28
Vangchhia B, Blyton MDJ, Collignon P, Kennedy K, Gordon DM. Factors affecting the presence, genetic diversity and antimicrobial sensitivity of Escherichia coli in poultry meat samples collected from Canberra, Australia. Environ Microbiol 2017;20:1350-1361. [PMID: 29266683 DOI: 10.1111/1462-2920.14030] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2017] [Revised: 11/29/2017] [Accepted: 12/12/2017] [Indexed: 11/30/2022]
29
O'Brien CL, Bringer MA, Holt KE, Gordon DM, Dubois AL, Barnich N, Darfeuille-Michaud A, Pavli P. Comparative genomics of Crohn's disease-associated adherent-invasive Escherichia coli. Gut 2017;66:1382-1389. [PMID: 27196580 DOI: 10.1136/gutjnl-2015-311059] [Citation(s) in RCA: 75] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 11/08/2015] [Accepted: 03/22/2016] [Indexed: 02/07/2023]
30
Day-to-Day Dynamics of Commensal Escherichia coli in Zimbabwean Cows Evidence Temporal Fluctuations within a Host-Specific Population Structure. Appl Environ Microbiol 2017;83:AEM.00659-17. [PMID: 28411228 DOI: 10.1128/aem.00659-17] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2017] [Accepted: 04/11/2017] [Indexed: 12/31/2022]  Open
31
Figler HM, Dudley EG. The interplay of Escherichia coli O157:H7 and commensal E. coli: the importance of strain-level identification. Expert Rev Gastroenterol Hepatol 2016;10:415-7. [PMID: 26885676 DOI: 10.1586/17474124.2016.1155449] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
32
Madoshi BP, Kudirkiene E, Mtambo MMA, Muhairwa AP, Lupindu AM, Olsen JE. Characterisation of Commensal Escherichia coli Isolated from Apparently Healthy Cattle and Their Attendants in Tanzania. PLoS One 2016;11:e0168160. [PMID: 27977751 PMCID: PMC5158034 DOI: 10.1371/journal.pone.0168160] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2016] [Accepted: 11/26/2016] [Indexed: 12/13/2022]  Open
33
Vangchhia B, Abraham S, Bell JM, Collignon P, Gibson JS, Ingram PR, Johnson JR, Kennedy K, Trott DJ, Turnidge JD, Gordon DM. Phylogenetic diversity, antimicrobial susceptibility and virulence characteristics of phylogroup F Escherichia coli in Australia. MICROBIOLOGY-SGM 2016;162:1904-1912. [PMID: 27666313 DOI: 10.1099/mic.0.000367] [Citation(s) in RCA: 44] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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