High quality draft genome sequence and analysis of Pontibacter roseus type strain SRC-1(T) (DSM 17521(T)) isolated from muddy waters of a drainage system in Chandigarh, India

Supratim Mukherjee; Alla Lapidus; Nicole Shapiro; Jan-Fang Cheng; James Han; Tbk Reddy; Marcel Huntemann; Natalia Ivanova; Natalia Mikhailova; Amy Chen; Krishna Palaniappan; Stefan Spring; Markus Göker; Victor Markowitz; Tanja Woyke; Brian J Tindall; Hans-Peter Klenk; Nikos C Kyrpides; Amrita Pati

doi:10.1186/1944-3277-10-8

High quality draft genome sequence and analysis of Pontibacter roseus type strain SRC-1(T) (DSM 17521(T)) isolated from muddy waters of a drainage system in Chandigarh, India

Stand Genomic Sci. 2015 Feb 9:10:8. doi: 10.1186/1944-3277-10-8. eCollection 2015.

Authors

Supratim Mukherjee¹, Alla Lapidus², Nicole Shapiro¹, Jan-Fang Cheng¹, James Han¹, Tbk Reddy¹, Marcel Huntemann¹, Natalia Ivanova¹, Natalia Mikhailova¹, Amy Chen³, Krishna Palaniappan³, Stefan Spring⁴, Markus Göker⁴, Victor Markowitz³, Tanja Woyke¹, Brian J Tindall⁴, Hans-Peter Klenk⁴, Nikos C Kyrpides⁵, Amrita Pati¹

Affiliations

¹ DOE Joint Genome Institute, Walnut Creek, California, USA.
² T. Dobzhansky Center for Genome Bionformatics, St. Petersburg State University, St. Petersburg, Russia ; Algorithmic Biology Lab, St. Petersburg Academic University, St. Petersburg, Russia.
³ Biological Data Management and Technology Center, Lawrence Berkeley National Laboratory, Berkeley, California, USA.
⁴ Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany.
⁵ DOE Joint Genome Institute, Walnut Creek, California, USA ; King Abdulaziz University, Jeddah, Saudi Arabia.

Abstract

Pontibacter roseus is a member of genus Pontibacter family Cytophagaceae, class Cytophagia. While the type species of the genus Pontibacter actiniarum was isolated in 2005 from a marine environment, subsequent species of the same genus have been found in different types of habitats ranging from seawater, sediment, desert soil, rhizosphere, contaminated sites, solar saltern and muddy water. Here we describe the features of Pontibacter roseus strain SRC-1(T) along with its complete genome sequence and annotation from a culture of DSM 17521(T). The 4,581,480 bp long draft genome consists of 12 scaffolds with 4,003 protein-coding and 50 RNA genes and is a part of Genomic Encyclopedia of Type Strains: KMG-I project.

Keywords: Aerobic; GEBA; Gram-negative; Halotolerant; KMG-I; Menaquinone; Non-motile; Obligate aerobe.