Genome rearrangements and selection in multi-chromosome bacteria Burkholderia spp.

Détails

Ressource 1Télécharger: BMCgenomic.pdf (2274.48 [Ko])
Etat: Public
Version: Final published version
ID Serval
serval:BIB_6472B5BCD4D2
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Titre
Genome rearrangements and selection in multi-chromosome bacteria Burkholderia spp.
Périodique
BMC genomics
Auteur(s)
Bochkareva O.O., Moroz E.V., Davydov I.I., Gelfand M.S.
ISSN
1471-2164 (Electronic)
ISSN-L
1471-2164
Statut éditorial
Publié
Date de publication
27/12/2018
Peer-reviewed
Oui
Volume
19
Numéro
1
Pages
965
Langue
anglais
Notes
Publication types: Journal Article
Publication Status: epublish
Résumé
The genus Burkholderia consists of species that occupy remarkably diverse ecological niches. Its best known members are important pathogens, B. mallei and B. pseudomallei, which cause glanders and melioidosis, respectively. Burkholderia genomes are unusual due to their multichromosomal organization, generally comprised of 2-3 chromosomes.
We performed integrated genomic analysis of 127 Burkholderia strains. The pan-genome is open with the saturation to be reached between 86,000 and 88,000 genes. The reconstructed rearrangements indicate a strong avoidance of intra-replichore inversions that is likely caused by selection against the transfer of large groups of genes between the leading and the lagging strands. Translocated genes also tend to retain their position in the leading or the lagging strand, and this selection is stronger for large syntenies. Integrated reconstruction of chromosome rearrangements in the context of strains phylogeny reveals parallel rearrangements that may indicate inversion-based phase variation and integration of new genomic islands. In particular, we detected parallel inversions in the second chromosomes of B. pseudomallei with breakpoints formed by genes encoding membrane components of multidrug resistance complex, that may be linked to a phase variation mechanism. Two genomic islands, spreading horizontally between chromosomes, were detected in the B. cepacia group.
This study demonstrates the power of integrated analysis of pan-genomes, chromosome rearrangements, and selection regimes. Non-random inversion patterns indicate selective pressure, inversions are particularly frequent in a recent pathogen B. mallei, and, together with periods of positive selection at other branches, may indicate adaptation to new niches. One such adaptation could be a possible phase variation mechanism in B. pseudomallei.
Mots-clé
Burkholderia/classification, Burkholderia/genetics, Chromosomes, Bacterial, Databases, Genetic, Gene Rearrangement/genetics, Phylogeny, Burkholderia, Comparative genomics, Genome rearrangements, Multi-chromosome bacteria, Pan-genome, Positive selection, Strain phylogeny
Pubmed
Web of science
Open Access
Oui
Création de la notice
17/01/2019 15:11
Dernière modification de la notice
10/01/2020 17:28
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