Which species concept for pathogenic bacteria?An E-Debate

Godreuil, Sylvain; Cohan, Frederick M.; Shah, Haroun N.; Tibayrenc, Michel

doi:10.1016/j.meegid.2004.03.004

Cited by 21 publications

(27 citation statements)

References 54 publications

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“…A more attractive approach is to seek ecological, genomic or phenotypic differences among the major clusters resolved by molecular methods that would justify their separation into species. Cohan (2001Cohan ( , 2002Cohan ( , 2004 and Godreuil et al (2005) have proposed that bacterial species could be split into smaller, more meaningful units by incorporating the concept of the ecotype, and that an ''ecotype model'' could provide a rational basis for demarcating bacterial taxa. Ecotypes are defined as populations that are genetically cohesive and ecologically distinct.…”

Section: The Problem Of Species Usage In Cyanobacteriamentioning

confidence: 99%

Taxonomy of cyanobacteria: a contribution to consensus approach

Palińska

Surosz

2014

Hydrobiologia

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Diversity of Cyanophyceae/cyanobacteria is expressed by their morphological, biochemical and physiological properties, which enable them to settle and persist in a wide range of habitats. Their diverse morphology determined their taxonomic distinction based on phenotypic properties. The oxygenic photosynthesis which characterizes cyanobacteria and their sharing of ecological niches with eukaryotic algae, prompted their treatment in the phycological circles, where they were called blue-green algae, although their prokaryotic nature, akin to bacteria, has been recognized for over a century. The cyanobacteria are named under Botanical and Bacteriological Codes, and the usage of both systems at the same time causes considerable confusion as the rules of the Botanical Code are quite different from those of the Bacteriological one. Herbarium collections are perfect subjects for intensive phylogenetic studies and therefore can contribute to discussions on the traditional and newly emerging concepts of species and speciation in prokaryotes. This article reviews the present status of the taxonomy of cyanobacteria, describes earlier, classical and recent taxonomic approaches and the trends for future, emphasizing improvements in methodology as major catalysts for the progress of this field.

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Section: The Problem Of Species Usage In Cyanobacteriamentioning

confidence: 99%

Taxonomy of cyanobacteria: a contribution to consensus approach

Palińska

Surosz

2014

Hydrobiologia

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“…There are many concepts of bacterial species (Gevers et al, 2005;Godreuil et al, 2005;Hanage et al, 2005;Lan and Reeves, 2001). MLSA is one of the most suitable tool for species definition (Gevers et al, 2005).…”

Section: Article In Pressmentioning

confidence: 99%

Multilocus sequence analysis of atypical Borrelia burgdorferi sensu lato isolates – Description of Borrelia californiensis sp. nov., and genomospecies 1 and 2

Postić

Garnier

Baranton

2007

International Journal of Medical Microbiology

146

140

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“…In macrobial systematics, cluster-based and theory-based approaches have generally yielded the same species demarcations. This is because, having a theory of species, practicing macrobial systematists may continually reset their vision of how large a cluster should be to fit within a species (Godreuil et al 2005). Because mainstream bacterial systematics does not aspire to base its species on theory, there is no opportunity for recalibrating the size of a bacterial species cluster to theory.…”

Section: The 'Species' Of Bacterial Systematicsmentioning

confidence: 99%

“…Consider in particular the implications of a rapid increase in the rate of migration of human pathogens following the advent of jet planes (or perhaps transoceanic shipping). In the geotype-plus-Boeing model (Gevers et al 2005;Godreuil et al 2005;Ward & Cohan 2005), geographically isolated populations of the same ecotype were formerly able to diverge into separate sequence clusters during the time before rapid human transport; in the recent decades, jet planes have been able to carry all the endemic clusters of a single ecotype into each region of the world. In this transitional era when air travel (and even transoceanic sea travel) is still relatively new, we may see multiple sequence clusters (the pre-Boeing geotypes) within one ecotype at one place.…”

Section: Systematics and The Diversity Of Models Of Bacterial Evolutionmentioning

confidence: 99%

“…Sequence data provide a means for inferring that ecological differences observed in the laboratory are important in nature. When two ecologically distinct populations fall into distinct sequence clusters, we may infer that the populations are longstanding in their coexistence, possibly owing to their ecological differences (alternatively to previous geographical separation; Godreuil et al 2005).…”

Section: A Paradigm For Incorporating Evolution and Ecology Into A Symentioning

confidence: 99%

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Towards a conceptual and operational union of bacterial systematics, ecology, and evolution

Cohan

2006

Phil. Trans. R. Soc. B

183

167

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To completely understand the ecology of a bacterial community, we need to identify its ecologically distinct populations (ecotypes). The greatest promise for enumerating a community's constituent ecotypes is held by molecular approaches that identify bacterial ecotypes as DNA sequence clusters. These approaches succeed when ecotypes correspond with sequence clusters, but some models of bacterial speciation predict a one-to-many and others a many-to-one relationship between ecotypes and sequence clusters. A further challenge is that sequence-based phylogenies often contain a hierarchy of clusters and subclusters within clusters, and there is no widely accepted theory to guide systematists and ecologists to the size of cluster most likely to correspond to ecotypes. While present systematics attempts to use universal thresholds of sequence divergence to help demarcate species, the recently developed 'community phylogeny' approach assumes no universal thresholds, but demarcates ecotypes based on the analysis of a lineage's evolutionary dynamics. Theory-based approaches like this one can give a conceptual framework as well as operational criteria for hypothesizing the identity and membership of ecotypes from sequence data; ecology-based approaches can then confirm that the putative ecotypes are actually ecologically distinct. Bacterial ecotypes that are demonstrated to have a history of coexistence as ecologically distinct lineages (based on sequence analysis) and as a prognosis of future coexistence (based on ecological differences), are the fundamental units of bacterial ecology and evolution, and should be recognized by bacterial systematics.

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Which species concept for pathogenic bacteria?An E-Debate

Cited by 21 publications

References 54 publications

Taxonomy of cyanobacteria: a contribution to consensus approach

Taxonomy of cyanobacteria: a contribution to consensus approach

Multilocus sequence analysis of atypical Borrelia burgdorferi sensu lato isolates – Description of Borrelia californiensis sp. nov., and genomospecies 1 and 2

Towards a conceptual and operational union of bacterial systematics, ecology, and evolution

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