Improved-high-quality draft genome sequence of Rhodococcus sp. JG-3, a eurypsychrophilic Actinobacteria from Antarctic Dry Valley permafrost.

Jacqueline Goordial,Nicole Shapiro,Tanja Woyke,Lyle Whyte,Isabelle Raymond-Bouchard,Corien Bakermans,Jennifer Ronholm

doi:10.1186/s40793-015-0043-8

Jacqueline Goordial, Nicole Shapiro + Show 5 more

Open Access

https://doi.org/10.1186/s40793-015-0043-8

Copy DOI

Abstract

The actinobacterium Rhodococcus sp. JG-3 is an aerobic, eurypsychrophilic, soil bacterium isolated from permafrost in the hyper arid Upper Dry Valleys of Antarctica. It is yellow pigmented, gram positive, moderately halotolerant and capable of growth from 30 °C down to at least −5 °C. The 5.28 Mb high-quality-draft genome is arranged into 6 scaffolds, containing 9 contigs and 4998 protein coding genes, with 64 % GC content. Increasing the availability of genome sequences from cold-adapted species is crucial to gaining a better understanding of the molecular traits of cold adaptation in microbes.Electronic supplementary materialThe online version of this article (doi:10.1186/s40793-015-0043-8) contains supplementary material, which is available to authorized users.

Highlights

Actinobacteria is a ubiquitous phylum in the biosphere, including many environments that exist predominantly and perennially at sub-zero temperatures such as massive ground ice, polar and alpine saline springs and lakes, cryopegs, and permafrost, where it is often a dominant phylum [1]
The molecular traits which allow Actinobacteria to predominate in cryoenvironments remains largely unknown
JG-3 will be used for examination of the molecular traits of cold adaptation and to aid understanding of carbon metabolism in cryoenvironments

Summary

Introduction

Actinobacteria is a ubiquitous phylum in the biosphere, including many environments that exist predominantly and perennially at sub-zero temperatures (cryoenvironments) such as massive ground ice, polar and alpine saline springs and lakes, cryopegs, and permafrost, where it is often a dominant phylum [1]. 37-42 cm below soil surface, in ice-cemented permafrost aEvidence codes - IDA: Inferred from Direct Assay, TAS: traceable author statement (i.e., a direct report exists in the literature), NAS: Non-traceable Author Statement (i.e., not directly observed for the living, isolated sample, but based on a generally accepted property for the species, or anecdotal evidence). These evidence codes are derived from the Gene Ontology project [17]. Genome annotation Genes were identified using Prodigal [27], followed by a round of manual curation using GenePRIMP [28] for

7.89 Function unknown

Findings

Conclusion