AUTHOR=Peeters Charlotte , Meier-Kolthoff Jan P. , Verheyde Bart , De Brandt Evie , Cooper Vaughn S. , Vandamme Peter 

TITLE=Phylogenomic Study of Burkholderia glathei-like Organisms, Proposal of 13 Novel Burkholderia Species and Emended Descriptions of Burkholderia sordidicola, Burkholderia zhejiangensis, and Burkholderia grimmiae

JOURNAL=Frontiers in Microbiology

VOLUME=7

YEAR=2016

URL=https://www.frontiersin.org/journals/microbiology/articles/10.3389/fmicb.2016.00877

DOI=10.3389/fmicb.2016.00877

ISSN=1664-302X

ABSTRACT=<p>Partial <italic>gyrB</italic> gene sequence analysis of 17 isolates from human and environmental sources revealed 13 clusters of strains and identified them as <italic>Burkholderia glathei</italic> clade (BGC) bacteria. The taxonomic status of these clusters was examined by whole-genome sequence analysis, determination of the G+C content, whole-cell fatty acid analysis and biochemical characterization. The whole-genome sequence-based phylogeny was assessed using the Genome Blast Distance Phylogeny (GBDP) method and an extended multilocus sequence analysis (MLSA) approach. The results demonstrated that these 17 BGC isolates represented 13 novel <italic>Burkholderia</italic> species that could be distinguished by both genotypic and phenotypic characteristics. BGC strains exhibited a broad metabolic versatility and developed beneficial, symbiotic, and pathogenic interactions with different hosts. Our data also confirmed that there is no phylogenetic subdivision in the genus <italic>Burkholderia</italic> that distinguishes beneficial from pathogenic strains. We therefore propose to formally classify the 13 novel BGC <italic>Burkholderia</italic> species as <italic>Burkholderia arvi</italic> sp. nov. (type strain LMG 29317<sup>T</sup> = CCUG 68412<sup>T</sup>), <italic>Burkholderia hypogeia</italic> sp. nov. (type strain LMG 29322<sup>T</sup> = CCUG 68407<sup>T</sup>), <italic>Burkholderia ptereochthonis</italic> sp. nov. (type strain LMG 29326<sup>T</sup> = CCUG 68403<sup>T</sup>), <italic>Burkholderia glebae</italic> sp. nov. (type strain LMG 29325<sup>T</sup> = CCUG 68404<sup>T</sup>), <italic>Burkholderia pedi</italic> sp. nov. (type strain LMG 29323<sup>T</sup> = CCUG 68406<sup>T</sup>), <italic>Burkholderia arationis</italic> sp. nov. (type strain LMG 29324<sup>T</sup> = CCUG 68405<sup>T</sup>), <italic>Burkholderia fortuita</italic> sp. nov. (type strain LMG 29320<sup>T</sup> = CCUG 68409<sup>T</sup>), <italic>Burkholderia temeraria</italic> sp. nov. (type strain LMG 29319<sup>T</sup> = CCUG 68410<sup>T</sup>), <italic>Burkholderia calidae</italic> sp. nov. (type strain LMG 29321<sup>T</sup> = CCUG 68408<sup>T</sup>), <italic>Burkholderia concitans</italic> sp. nov. (type strain LMG 29315<sup>T</sup> = CCUG 68414<sup>T</sup>), <italic>Burkholderia turbans</italic> sp. nov. (type strain LMG 29316<sup>T</sup> = CCUG 68413<sup>T</sup>), <italic>Burkholderia catudaia</italic> sp. nov. (type strain LMG 29318<sup>T</sup> = CCUG 68411<sup>T</sup>) and <italic>Burkholderia peredens</italic> sp. nov. (type strain LMG 29314<sup>T</sup> = CCUG 68415<sup>T</sup>). Furthermore, we present emended descriptions of the species <italic>Burkholderia sordidicola, Burkholderia zhejiangensis</italic> and <italic>Burkholderia grimmiae</italic>. The GenBank/EMBL/DDBJ accession numbers for the 16S rRNA and <italic>gyrB</italic> gene sequences determined in this study are <ext-link ext-link-type="DDBJ/EMBL/GenBank" xlink:href="LT158612" xmlns:xlink="http://www.w3.org/1999/xlink">LT158612</ext-link>-<ext-link ext-link-type="DDBJ/EMBL/GenBank" xlink:href="LT158624" xmlns:xlink="http://www.w3.org/1999/xlink">LT158624</ext-link> and <ext-link ext-link-type="DDBJ/EMBL/GenBank" xlink:href="LT158625" xmlns:xlink="http://www.w3.org/1999/xlink">LT158625</ext-link>-<ext-link ext-link-type="DDBJ/EMBL/GenBank" xlink:href="LT158641" xmlns:xlink="http://www.w3.org/1999/xlink">LT158641</ext-link>, respectively.</p>