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Stand Genomic Sci. 2015 Nov 11;10:98. doi: 10.1186/s40793-015-0088-8. eCollection 2015.

High-quality draft genome sequence of Gracilimonas tropica CL-CB462(T) (DSM 19535(T)), isolated from a Synechococcus culture.

Author information

  • 1Biological Oceanography & Marine Biology Division, Korea Institute of Ocean Science and Technology, Ansan, 426-744 Republic of Korea.
  • 2Microbial 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.
  • 3Theodosius Dobzhansky Center for Genome Bioinformatics, St. Petersburg State University, St. Petersburg, Russia ; Algorithmic Biology Lab, St. Petersburg Academic University, St. Petersburg, Russia.
  • 4Department of Energy Joint Genome Institute, Genome Biology Program, Walnut Creek, CA USA.
  • 5Algorithmic Biology Lab, St. Petersburg Academic University, St. Petersburg, Russia.
  • 6Biological Data Management and Technology Center, Lawrence Berkeley National Laboratory, Berkeley, CA USA.
  • 7Central Facility for Microscopy, HZI - Helmholtz Centre for Infection Research, Braunschweig, Germany.
  • 8Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany.
  • 9Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany ; School of Biology, Newcastle University, Newcastle upon Tyne, UK.
  • 10Department of Energy Joint Genome Institute, Genome Biology Program, Walnut Creek, CA USA ; Department of Biological Sciences, Faculty of Science, King Abdulaziz University, Jeddah, Saudi Arabia.

Abstract

Gracilimonas tropica Choi et al. 2009 is a member of order Sphingobacteriales, class Sphingobacteriia. Three species of the genus Gracilimonas have been isolated from marine seawater or a salt mine and showed extremely halotolerant and mesophilic features, although close relatives are extremely halophilic or thermophilic. The type strain of the type species of Gracilimonas, G. tropica DSM19535(T), was isolated from a Synechococcus culture which was established from the tropical sea-surface water of the Pacific Ocean. The genome of the strain DSM19535(T) was sequenced through the Genomic Encyclopedia of Type Strains, Phase I: the one thousand microbial genomes project. Here, we describe the genomic features of the strain. The 3,831,242 bp long draft genome consists of 48 contigs with 3373 protein-coding and 53 RNA genes. The strain seems to adapt to phosphate limitation and requires amino acids from external environment. In addition, genomic analyses and pasteurization experiment suggested that G. tropica DSM19535(T) did not form spore.

KEYWORDS:

GEBA; Genome; Gracilimonas tropica; Marine; Sphingobacteriia

PMID:
26566423
PMCID:
PMC4642740
DOI:
10.1186/s40793-015-0088-8
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