Genome sequence of Phaeobacter caeruleus type strain (DSM 24564(T)), a surface-associated member of the marine Roseobacter clade

Paul G Beyersmann; Olga Chertkov; Jörn Petersen; Anne Fiebig; Amy Chen; Amrita Pati; Natalia Ivanova; Alla Lapidus; Lynne A Goodwin; Patrick Chain; John C Detter; Manfred Rohde; Sabine Gronow; Nikos C Kyrpides; Tanja Woyke; Meinhard Simon; Markus Göker; Hans-Peter Klenk; Thorsten Brinkhoff

doi:10.4056/sigs.3927623

Genome sequence of Phaeobacter caeruleus type strain (DSM 24564(T)), a surface-associated member of the marine Roseobacter clade

Stand Genomic Sci. 2013 Jul 30;8(3):403-19. doi: 10.4056/sigs.3927623.

Authors

Paul G Beyersmann¹, Olga Chertkov², Jörn Petersen³, Anne Fiebig³, Amy Chen⁴, Amrita Pati⁵, Natalia Ivanova⁵, Alla Lapidus⁵, Lynne A Goodwin⁶, Patrick Chain², John C Detter⁶, Manfred Rohde⁷, Sabine Gronow³, Nikos C Kyrpides⁵, Tanja Woyke⁵, Meinhard Simon¹, Markus Göker³, Hans-Peter Klenk³, Thorsten Brinkhoff¹

Affiliations

¹ Institute for Chemistry and Biology of the Marine Environment (ICMB), Oldenburg, Germany.
² Los Alamos National Laboratory, Bioscience Division, Los Alamos, New Mexico, USA.
³ Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany.
⁴ Biological Data Management and Technology Center, Lawrence Berkeley National Laboratory, Berkeley, California, USA.
⁵ DOE Joint Genome Institute, Walnut Creek, California, USA.
⁶ Los Alamos National Laboratory, Bioscience Division, Los Alamos, New Mexico, USA ; DOE Joint Genome Institute, Walnut Creek, California, USA.
⁷ HZI - Helmholtz Centre for Infection Research, Braunschweig, Germany.

Abstract

In 2009 Phaeobacter caeruleus was described as a novel species affiliated with the marine Roseobacter clade, which, in turn, belongs to the class Alphaproteobacteria. The genus Phaeobacter is well known for members that produce various secondary metabolites. Here we report of putative quorum sensing systems, based on the finding of six N-acyl-homoserine lactone synthetases, and show that the blue color of P. caeruleus is probably due to the production of the secondary metabolite indigoidine. Therefore, P. caeruleus might have inhibitory effects on other bacteria. In this study the genome of the type strain DSM 24564(T) was sequenced, annotated and characterized. The 5,344,419 bp long genome with its seven plasmids contains 5,227 protein-coding genes (3,904 with a predicted function) and 108 RNA genes.

Keywords: Alphaproteobacteria; Rhodobacteraceae; biofilm; indigoidine; motile; quorum sensing; siderophores.