Phylogenomics of Rhodobacteraceae reveals evolutionary adaptation to marine and non-marine habitats.
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Authors
Simon, MeinhardScheuner, Carmen
Meier-Kolthoff, Jan P
Brinkhoff, Thorsten
Wagner-Döbler, Irene
Ulbrich, Marcus
Klenk, Hans-Peter
Schomburg, Dietmar
Petersen, Jörn
Göker, Markus
Issue Date
2017-01-20
Metadata
Show full item recordAbstract
Marine Rhodobacteraceae (Alphaproteobacteria) are key players of biogeochemical cycling, comprise up to 30% of bacterial communities in pelagic environments and are often mutualists of eukaryotes. As 'Roseobacter clade', these 'roseobacters' are assumed to be monophyletic, but non-marine Rhodobacteraceae have not yet been included in phylogenomic analyses. Therefore, we analysed 106 genome sequences, particularly emphasizing gene sampling and its effect on phylogenetic stability, and investigated relationships between marine versus non-marine habitat, evolutionary origin and genomic adaptations. Our analyses, providing no unequivocal evidence for the monophyly of roseobacters, indicate several shifts between marine and non-marine habitats that occurred independently and were accompanied by characteristic changes in genomic content of orthologs, enzymes and metabolic pathways. Non-marine Rhodobacteraceae gained high-affinity transporters to cope with much lower sulphate concentrations and lost genes related to the reduced sodium chloride and organohalogen concentrations in their habitats. Marine Rhodobacteraceae gained genes required for fucoidan desulphonation and synthesis of the plant hormone indole 3-acetic acid and the compatible solutes ectoin and carnitin. However, neither plasmid composition, even though typical for the family, nor the degree of oligotrophy shows a systematic difference between marine and non-marine Rhodobacteraceae. We suggest the operational term 'Roseobacter group' for the marine Rhodobacteraceae strains.The ISME Journal advance online publication, 20 January 2017; doi:10.1038/ismej.2016.198.Citation
Phylogenomics of Rhodobacteraceae reveals evolutionary adaptation to marine and non-marine habitats. 2017 ISME JAffiliation
Helmholtz Centre for infection research, Ihoffenstr. 7, 38124 Braunschweig, Germany.Journal
The ISME journalPubMed ID
28106881Type
ArticleLanguage
enISSN
1751-7370ae974a485f413a2113503eed53cd6c53
10.1038/ismej.2016.198
Scopus Count
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- Creative Commons
Except where otherwise noted, this item's license is described as http://creativecommons.org/licenses/by-nc-sa/4.0/
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