The population genetics of pathogenic Escherichia coli
E Denamur, O Clermont, S Bonacorsi… - Nature Reviews …, 2021 - nature.com
Escherichia coli is a commensal of the vertebrate gut that is increasingly involved in various
intestinal and extra-intestinal infections as an opportunistic pathogen. Numerous pathotypes …
intestinal and extra-intestinal infections as an opportunistic pathogen. Numerous pathotypes …
Environmental Escherichia coli: ecology and public health implications—a review
J Jang, HG Hur, MJ Sadowsky… - Journal of applied …, 2017 - academic.oup.com
Escherichia coli is classified as a rod‐shaped, Gram‐negative bacterium in the family
Enterobacteriaceae. The bacterium mainly inhabits the lower intestinal tract of warm …
Enterobacteriaceae. The bacterium mainly inhabits the lower intestinal tract of warm …
The EnteroBase user's guide, with case studies on Salmonella transmissions, Yersinia pestis phylogeny, and Escherichia core genomic diversity
EnteroBase is an integrated software environment that supports the identification of global
population structures within several bacterial genera that include pathogens. Here, we …
population structures within several bacterial genera that include pathogens. Here, we …
High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries
A fundamental question in microbiology is whether there is continuum of genetic diversity
among genomes, or clear species boundaries prevail instead. Whole-genome similarity …
among genomes, or clear species boundaries prevail instead. Whole-genome similarity …
High proportions of bacteria and archaea across most biomes remain uncultured
A recent paper by Martiny argues that “high proportions” of bacteria in diverse Earth
environments have been cultured. Here we reanalyze a portion of the data in that paper, and …
environments have been cultured. Here we reanalyze a portion of the data in that paper, and …
ClermonTyping: an easy-to-use and accurate in silico method for Escherichia genus strain phylotyping
J Beghain, A Bridier-Nahmias… - Microbial …, 2018 - microbiologyresearch.org
The genus Escherichia is composed of Escherichia albertii, E. fergusonii, five cryptic
Escherichia clades and E. coli sensu stricto. Furthermore, the E. coli species can be divided …
Escherichia clades and E. coli sensu stricto. Furthermore, the E. coli species can be divided …
The Clermont Escherichia coli phylo‐typing method revisited: improvement of specificity and detection of new phylo‐groups
O Clermont, JK Christenson… - Environmental …, 2013 - Wiley Online Library
There is extensive genetic substructure within the species E scherichia coli. In 2000 a simple
triplex PCR method was described by C lermont and colleagues that enables an E. coli …
triplex PCR method was described by C lermont and colleagues that enables an E. coli …
[PDF][PDF] Bypassing cultivation to identify bacterial species
LM Rodriguez-R, KT Konstantinidis - Microbe, 2014 - researchgate.net
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by IP: 191.101.6.51 On: Thu, 09 Mar 2017 16:25:59 Bypassing Cultivation To Identify Bacterial …
by IP: 191.101.6.51 On: Thu, 09 Mar 2017 16:25:59 Bypassing Cultivation To Identify Bacterial …
Phylogenetic background and habitat drive the genetic diversification of Escherichia coli
Escherichia coli is mostly a commensal of birds and mammals, including humans, where it
can act as an opportunistic pathogen. It is also found in water and sediments. We …
can act as an opportunistic pathogen. It is also found in water and sediments. We …
Automated reconstruction of whole-genome phylogenies from short-sequence reads
Studies of microbial evolutionary dynamics are being transformed by the availability of
affordable high-throughput sequencing technologies, which allow whole-genome …
affordable high-throughput sequencing technologies, which allow whole-genome …