Imperial College London
Alternate

DrXavierDidelot

Faculty of Medicine, School of Public Health

Visiting Professor
 
 
 
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Contact

 

+44 (0)20 7594 3622x.didelot

 
 
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Location

 

G30Medical SchoolSt Mary's Campus

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Summary

 

Publications

Citation

BibTex format

@article{Lassalle:2019:10.1101/690347,
author = {Lassalle, F and Dastgheib, SMM and Zhao, F-J and Zhang, J and Verbarg, S and Frühling, A and Brinkmann, H and Osborne, TH and Sikorski, J and Balloux, F and Didelot, X and Santini, JM and Petersen, J},
doi = {10.1101/690347},
title = {Phylogenomic analysis reveals the basis of adaptation of <i>Pseudorhizobium</i> species to extreme environments},
url = {http://dx.doi.org/10.1101/690347},
year = {2019}
}
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RIS format (EndNote, RefMan)

TY  - JOUR
AB  - <jats:title>Abstract</jats:title><jats:p>The family <jats:italic>Rhizobiaceae</jats:italic> includes many genera of soil bacteria, often isolated for their association with plants. Herein, we investigate the genomic diversity of a group of <jats:italic>Rhizobium</jats:italic> species and unclassified strains isolated from atypical environments, including seawater, rock matrix or polluted soil. Based on whole-genome similarity and core genome phylogeny, we show that this group corresponds to the genus <jats:italic>Pseudorhizobium.</jats:italic> We thus reclassify <jats:italic>Rhizobium halotolerans, R. marinum, R. flavum</jats:italic> and <jats:italic>R. endolithicum</jats:italic> as <jats:italic>P. halotolerans</jats:italic> comb. nov., <jats:italic>P. marinum</jats:italic> comb. nov.<jats:italic>, P. flavum</jats:italic> comb. nov. and <jats:italic>R. endolithicum</jats:italic> comb. nov., respectively, and show that <jats:italic>P. pelagicum</jats:italic> is a synonym of <jats:italic>P. marinum</jats:italic>. We also delineate a new chemolithoautotroph species, <jats:italic>P. banfieldiae</jats:italic> sp. nov., whose type strain is NT-26<jats:sup>T</jats:sup> (= DSM 106348<jats:sup>T</jats:sup> = CFBP 8663<jats:sup>T</jats:sup>). This genome-based classification was supported by a chemotaxonomic comparison, with gradual taxonomic resolution provided by fatty acid, protein and metabolic profiles. In addition, we used a phylogenetic approach to infer scenarios of duplication, horizontal transfer and loss for all genes in the <jats:italic>Pseudorhizobium</jats:italic> pangenome. We thus identify the key functions associated with the diversification of each species and higher clades, shedding light on the mechanisms of adaptation to their respective ecological
AU  - Lassalle,F
AU  - Dastgheib,SMM
AU  - Zhao,F-J
AU  - Zhang,J
AU  - Verbarg,S
AU  - Frühling,A
AU  - Brinkmann,H
AU  - Osborne,TH
AU  - Sikorski,J
AU  - Balloux,F
AU  - Didelot,X
AU  - Santini,JM
AU  - Petersen,J
DO  - 10.1101/690347
PY  - 2019///
TI  - Phylogenomic analysis reveals the basis of adaptation of <i>Pseudorhizobium</i> species to extreme environments
UR  - http://dx.doi.org/10.1101/690347
ER  -
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