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Announcement
2 October 2014

Genome Sequence of Maribius sp. Strain MOLA 401, a Marine Roseobacter with a Quorum-Sensing Cell-Dependent Physiology

ABSTRACT

Maribius sp. strain MOLA401 is an alphaproteobacterium isolated from a coral reef lagoon located in New Caledonia, France. We report the genome sequence and its annotation which, interestingly, reveals the presence of genes involved in quorum sensing. This is the first report of a full genome within the genus Maribius.

GENOME ANNOUNCEMENT

Maribius sp. strain MOLA401 (MOLA culture collection WDCM911 [http://collection.obs-banyuls.fr/index.php]) was isolated on 3 December 2004, at a 4-m depth, from marine waters in the southwest lagoon of New Caledonia (France) (22°21.23′ S/166°23.43′ E). The sampling station was located between oligotrophic water near the coral barrier and mesotrophic waters in the near-shore environment subjected to terrestrial inputs and effluents from the city of Nouméa (146,000 inhabitants) (1). Based on its 16S rRNA gene sequences, the strain is phylogenetically related to Maribius pelagius B5-6T (96% sequence identity of 16S rRNA genes) and belongs to the Rhodobacteraceae (Roseobacter clade).
The strain was cultivated in 100 mL of marine broth 2216 medium (BD Difco, Sparks, MD) at 25°C for 48 h. DNA was extracted using a cetyltrimethylammonium bromide (CTAB)-based method (2). Genome sequencing steps conducted by MrDNA (Texas) included fragmentation, ligation to sequencing adapters, and purification. Following the amplification and denaturation steps, libraries were sequenced in a pool. A total of 50 ng of DNA was used to prepare the library, using the Nextera DNA sample preparation kit (Illumina). The library insert size was determined by an Experion automated electrophoresis station (Bio-Rad). The insert sizes of the libraries ranged from 300 to 850 bp (average, 500 bp). The library (12 pM) was loaded (in a pool) to a 600-cycle v3 reagent cartridge (Illumina) and the sequencing was performed on a MiSeq sequencer (Illumina) and de novo assembled with NGEN v. 11 (DNASTAR, Inc.). The genome was annotated using Prokka 1.7 (3).
The draft genome sequence of Maribius sp. strain MOLA401 is 3,856,666 bp, with a GC content of 67.6%, including 3,764 coding sequences, 1 rRNA, and 50 tRNAs. The genome annotation revealed the presence of genes involved in quorum sensing. The autoinducer type 1 synthase homologuous to luxI, and its corresponding receptor luxR (4) are located in the same operon. The genome annotation also revealed a gene encoding an RhtB-like protein, known to be involved in long-chain homoserinelactone transmembrane transport (5). This is the first report of quorum-sensing genes within the marine genus Maribius. Thus, this draft genome reinforces previous observations suggesting that marine bacteria are able to communicate using quorum sensing in microenvironments (6) where these cells can be found at high concentrations.

Nucleotide sequence accession number.

The whole-genome shotgun project has been deposited at DDJB/EMBL/GenBank under the accession number JQEY00000000.

ACKNOWLEDGMENTS

This work was supported by a UPMC Emergence grant.
We thank the Bio2Mar (http://bio2mar.obs-banyuls.fr) platform for access to instrumentation and to MrDNA for sequencing the genome.

REFERENCES

1.
Conan P, Joux F, Torréton JP, Pujo-Pay M, Douki T, Rochelle-Newall E, and Mari X. 2008. Effect of solar ultraviolet radiation on bacterio- and phytoplankton activity in a large coral reef lagoon (southwest New Caledonia). Aquat. Microb. Ecol. 52:83–98.
2.
Dempster EL, Pryor KV, Francis D, Young JE, and Rogers HJ. 1999. Rapid DNA extraction from ferns for PCR-based analyses. BioTechniques 27:66–68.
3.
Seemann T. 2014. Prokka: rapid prokaryotic genome annotation. Bioinformatics 30:2068–2069.
4.
Fuqua WC, Winans SC, and Greenberg EP. 1994. Quorum sensing in bacteria: the luxR-luxI family of cell density-responsive transcriptional regulators. J. Bacteriol. 176:269–275.
5.
Zakataeva NP, Aleshin VV, Tokmakova IL, Troshin PV, and Livshits VA. 1999. The novel transmembrane Escherichia coli proteins involved in the amino acid efflux. FEBS Lett. 452:228–232.
6.
Hmelo LR, Mincer TJ, and VanMooy BA. 2011. Possible influence of bacterial quorum sensing on the hydrolysis of sinking particulate organic carbon in marine environments. Environ. Microbiol. Rep. 3:682–688.

Information & Contributors

Information

Published In

cover image Genome Announcements
Genome Announcements
Volume 2Number 530 October 2014
eLocator: 10.1128/genomea.00997-14

History

Received: 26 August 2014
Accepted: 28 August 2014
Published online: 2 October 2014

Contributors

Authors

Margot Doberva
Sorbonne Universités, UPMC Université Paris, USR 3579, LBBM, Observatoire Océanologique, Banyuls-sur-Mer, France
CNRS, USR3579, LBBM, Observatoire Océanologique, Banyuls-sur-Mer, France
Sophie Sanchez-Ferandin
Sorbonne Universités, UPMC Université Paris, UMR7232, BIOM, Observatoire Océanologique, Banyuls-sur-Mer, France
CNRS, UMR7232, BIOM, Observatoire Océanologique, Banyuls-sur-Mer, France
Yoan Ferandin
Sorbonne Universités, UPMC Université Paris, USR 3579, LBBM, Observatoire Océanologique, Banyuls-sur-Mer, France
CNRS, USR3579, LBBM, Observatoire Océanologique, Banyuls-sur-Mer, France
Laurent Intertaglia
Sorbonne Universités, UPMC Université Paris, UMS 2348, Observatoire Océanologique, Banyuls-sur-Mer, France
CNRS, UMS2348, Observatoire Océanologique, Banyuls-sur-Mer, France
Fabien Joux
Sorbonne Universités, UPMC Université Paris, UMR 7621, LOMIC, Observatoire Océanologique, Banyuls-sur-Mer, France
CNRS, UMR 7621, LOMIC, Observatoire Océanologique, Banyuls-sur-Mer, France
Philippe Lebaron
Sorbonne Universités, UPMC Université Paris, USR 3579, LBBM, Observatoire Océanologique, Banyuls-sur-Mer, France
CNRS, USR3579, LBBM, Observatoire Océanologique, Banyuls-sur-Mer, France
Raphaël Lami
Sorbonne Universités, UPMC Université Paris, USR 3579, LBBM, Observatoire Océanologique, Banyuls-sur-Mer, France
CNRS, USR3579, LBBM, Observatoire Océanologique, Banyuls-sur-Mer, France

Notes

Address correspondence to Raphaël Lami, [email protected].

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