Draft genome sequence of Marinobacterium rhizophilum CL-YJ9T (DSM 18822T), isolated from the rhizosphere of the coastal tidal-flat plant Suaeda japonica

Dong Han Choi; Gwang Ii Jang; Alla Lapidus; Alex Copeland; T B K Reddy; Supratim Mukherjee; Marcel Huntemann; Neha Varghese; Natalia Ivanova; Manoj Pillay; Brian J Tindall; Markus Göker; Tanja Woyke; Hans-Peter Klenk; Nikos C Kyrpides; Byung Cheol Cho

doi:10.1186/s40793-017-0275-x

Draft genome sequence of Marinobacterium rhizophilum CL-YJ9^T (DSM 18822^T), isolated from the rhizosphere of the coastal tidal-flat plant Suaeda japonica

Stand Genomic Sci. 2017 Oct 30:12:65. doi: 10.1186/s40793-017-0275-x. eCollection 2017.

Authors

Dong Han Choi^#¹, Gwang Ii Jang^#², Alla Lapidus^{3

4}, Alex Copeland⁵, T B K Reddy⁵, Supratim Mukherjee⁵, Marcel Huntemann⁵, Neha Varghese⁴, Natalia Ivanova⁵, Manoj Pillay⁶, Brian J Tindall⁷, Markus Göker⁷, Tanja Woyke⁵, Hans-Peter Klenk⁸, Nikos C Kyrpides⁵, Byung Cheol Cho²

Affiliations

¹ Marine Ecosystem and Biological Research Center, Korea Institute of Ocean Science and Technology, Ansan, 426-744 Republic of Korea.
² Microbial Oceanography Laboratory, School of Earth and Environmental Sciences, and Research Institute of Oceanography, Seoul National University, Gwanak-ro, Gwanak-gu, Seoul, 151-742 Republic of Korea.
³ Centre for Algorithmic Biotechnology, St. Petersburg State University, St. Petersburg, Russia.
⁴ Department of Cytology and Histology, St. Petersburg Academic University, St. Petersburg, Russia.
⁵ Department of Energy Joint Genome Institute, Walnut Creek, CA USA.
⁶ Biological Data Management and Technology Center, Lawrence Berkeley National Laboratory, Berkeley, CA USA.
⁷ Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany.
⁸ School of Biology, Newcastle University, Newcastle upon Tyne, UK.

^# Contributed equally.

Abstract

The genus Marinobacterium belongs to the family Alteromonadaceae within the class Gammaproteobacteria and was reported in 1997. Currently the genus Marinobacterium contains 16 species. Marinobacterium rhizophilum CL-YJ9^T was isolated from sediment associated with the roots of a plant growing in a tidal flat of Youngjong Island, Korea. The genome of the strain CL-YJ9^T was sequenced through the Genomic Encyclopedia of Type Strains, Phase I: KMG project. Here we report the main features of the draft genome of the strain. The 5,364,574 bp long draft genome consists of 58 scaffolds with 4762 protein-coding and 91 RNA genes. Based on the genomic analyses, the strain seems to adapt to osmotic changes by intracellular production as well as extracellular uptake of compatible solutes, such as ectoine and betaine. In addition, the strain has a number of genes to defense against oxygen stresses such as reactive oxygen species and hypoxia.

Keywords: GEBA; Genome; Marinobacterium rhizophilum; Rhizosphere; Suaeda Japonica.

Publication types

Case Reports