Genomics and pathotypes of the many faces of Escherichia coli

J Geurtsen, M de Been, E Weerdenburg… - FEMS microbiology …, 2022 - academic.oup.com
Escherichia coli is the most researched microbial organism in the world. Its varied impact on
human health, consisting of commensalism, gastrointestinal disease, or extraintestinal …

The bacterial species definition in the genomic era

KT Konstantinidis, A Ramette… - … Transactions of the …, 2006 - royalsocietypublishing.org
The bacterial species definition, despite its eminent practical significance for identification,
diagnosis, quarantine and diversity surveys, remains a very difficult issue to advance …

Microbial diversity and the genetic nature of microbial species

M Achtman, M Wagner - Nature reviews microbiology, 2008 - nature.com
The earth contains a huge number of largely uncharacterized Bacteria and Archaea.
Microbiologists are struggling to summarize their genetic diversity and classify them, which …

A comparison of homologous recombination rates in bacteria and archaea

M Vos, X Didelot - The ISME journal, 2009 - academic.oup.com
It is a standard practice to test for the signature of homologous recombination in studies
examining the genetic diversity of bacterial populations. Although it has emerged that …

Prokaryotic taxonomy and phylogeny in the genomic era: advancements and challenges ahead

KT Konstantinidis, JM Tiedje - Current opinion in microbiology, 2007 - Elsevier
Advancing prokaryotic taxonomy constitutes a contemporary academic challenge as well as
practical necessity. Genome sequencing has greatly facilitated the evaluation of the current …

[HTML][HTML] Species

M Ereshefsky - 2002 - plato.stanford.edu
The nature of species is controversial in biology and philosophy. Biologists disagree on the
definition of the term 'species,'and philosophers disagree over the ontological status of …

The bacterial species dilemma and the genomic–phylogenetic species concept

JT Staley - … Transactions of the Royal Society B …, 2006 - royalsocietypublishing.org
The number of species of Bacteria and Archaea (ca 5000) is surprisingly small considering
their early evolution, genetic diversity and residence in all ecosystems. The bacterial species …

The nineteenth century roots of'everything is everywhere'

MA O'Malley - Nature Reviews Microbiology, 2007 - nature.com
The identification of geographical patterns in microbial distributions has begun to challenge
purely ecological explanations of biogeography and the underlying principle of “everything …

On the origin of prokaryotic species

WF Doolittle, O Zhaxybayeva - Genome research, 2009 - genome.cshlp.org
The notion that all prokaryotes belong to genomically and phenomically cohesive clusters
that we might legitimately call “species” is a contentious one. At issue are (1) whether such …

'Everything is everywhere: but the environment selects': ubiquitous distribution and ecological determinism in microbial biogeography

MA O'Malley - Studies in History and Philosophy of Science Part C …, 2008 - Elsevier
Recent discoveries of geographical patterns in microbial distribution are undermining
microbiology's exclusively ecological explanations of biogeography and their fundamental …