Draft Genomes, Phylogenetic Reconstruction, and Comparative Genomics of Two Novel Cohabiting Bacterial Symbionts Isolated from Frankliniella occidentalis

Obligate bacterial symbionts are widespread in many invertebrates, where they are often confined to specialized host cells and are transmitted directly from mother to progeny. Increasing numbers of these bacteria are being characterized but questions remain about their population structure and evolu...

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Published in:	Genome biology and evolution Vol. 7; no. 8; pp. 2188 - 2202
Main Authors:	Facey, Paul D, Méric, Guillaume, Hitchings, Matthew D, Pachebat, Justin A, Hegarty, Matt J, Chen, Xiaorui, Morgan, Laura V A, Hoeppner, James E, Whitten, Miranda M A, Kirk, William D J, Dyson, Paul J, Sheppard, Sam K, Del Sol, Ricardo
Format:	Journal Article
Language:	English
Published:	England Oxford University Press 01-08-2015
Subjects:	Animals Bacterial Secretion Systems - genetics Bacteriology Erwinia - classification Evolution, Molecular Gammaproteobacteria - classification Gammaproteobacteria - genetics Gammaproteobacteria - isolation & purification Genome, Bacterial Genomes Genomics Phylogeny Symbiosis Thysanoptera - microbiology Virulence Factors - genetics symbiont genome BFo evolution Frankliniella thrips
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Summary:	Obligate bacterial symbionts are widespread in many invertebrates, where they are often confined to specialized host cells and are transmitted directly from mother to progeny. Increasing numbers of these bacteria are being characterized but questions remain about their population structure and evolution. Here we take a comparative genomics approach to investigate two prominent bacterial symbionts (BFo1 and BFo2) isolated from geographically separated populations of western flower thrips, Frankliniella occidentalis. Our multifaceted approach to classifying these symbionts includes concatenated multilocus sequence analysis (MLSA) phylogenies, ribosomal multilocus sequence typing (rMLST), construction of whole-genome phylogenies, and in-depth genomic comparisons. We showed that the BFo1 genome clusters more closely to species in the genus Erwinia, and is a putative close relative to Erwinia aphidicola. BFo1 is also likely to have shared a common ancestor with Erwinia pyrifoliae/Erwinia amylovora and the nonpathogenic Erwinia tasmaniensis and genetic traits similar to Erwinia billingiae. The BFo1 genome contained virulence factors found in the genus Erwinia but represented a divergent lineage. In contrast, we showed that BFo2 belongs within the Enterobacteriales but does not group closely with any currently known bacterial species. Concatenated MLSA phylogenies indicate that it may have shared a common ancestor to the Erwinia and Pantoea genera, and based on the clustering of rMLST genes, it was most closely related to Pantoea ananatis but represented a divergent lineage. We reconstructed a core genome of a putative common ancestor of Erwinia and Pantoea and compared this with the genomes of BFo bacteria. BFo2 possessed none of the virulence determinants that were omnipresent in the Erwinia and Pantoea genera. Taken together, these data are consistent with BFo2 representing a highly novel species that maybe related to known Pantoea.
Bibliography:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 These authors contributed equally to this work. Associate editor: Bill Martin Data deposition: The Whole-Genome Shotgun projects of BFo1 and BFo2 described in this article have been deposited at DDBJ/EMBL/GenBank under the BioProject PRJNA234511. The versions described in this article are the first versions, which represent a set of annotated contigs.
ISSN:	1759-6653 1759-6653
DOI:	10.1093/gbe/evv136