Complete genome sequence of Halomicrobium mukohataei type strain (arg-2T)

Brian J Tindall,Cynthia D Jeffries,Feng Chen,John C Detter,Tijana Glavina Del Rio,Miriam Land,Jonathan A Eisen,Sam Pitluck,Victor Markowitz,Krishna Palaniappan,Alla Lapidus,Jim Bristow,Hope Tice,Matt Nolan,Natalia Ivanova,Nikos C Kyrpides,Cliff Han,Philip Hugenholtz,David Bruce,Amrita Pati,Alex Copeland,Konstantinos Mavrommatis,Amy Chen,Markus Göker,Loren Hauser,Manfred Rohde,Thomas Brettin,Susan Lucas,Lynne Goodwin,Elizabeth Saunders,Natalia Mikhailova,Patrick Chain,Susanne A Schneider ,Hans Peter Klenk ,Jan‐Fang Cheng ,Yun Juan Chang

doi:10.4056/sigs.42644

Abstract

Halomicrobium mukohataei (Ihara et al. 1997) Oren et al. 2002 is the type species of the genus Halomicrobium. It is of phylogenetic interest because of its isolated location within the large euryarchaeal family Halobacteriaceae. H. mukohataei is an extreme halophile that grows essentially aerobically, but can also grow anaerobically under a change of morphology and with nitrate as electron acceptor. The strain, whose genome is described in this report, is a free-living, motile, Gram-negative euryarchaeon, originally isolated from Salinas Grandes in Jujuy, Andes highlands, Argentina. Its genome contains three genes for the 16S rRNA that differ from each other by up to 9%. Here we describe the features of this organism, together with the complete genome sequence and annotation. This is the first completed genome sequence from the poorly populated genus Halomicrobium, and the 3,332,349 bp long genome (chromosome and one plasmid) with its 3416 protein-coding and 56 RNA genes is part of the Genomic Encyclopedia of Bacteria and Archaea project.

Highlights

Strain arg-2T (= DSM 12286 = ATCC 700874 = JCM 9738) is the type strain of the species Halomicrobium mukohataei, and represents the type species of the genus Halomicrobium [1]
H. mukohataei was initially described as Haloarcula mukohataei by Ihara et al 1997 [2]
The organism is of significant interest for its isolated position in the tree of life within the genus Halomicrobium in the family Halobacteriaceae

Summary

Introduction

The organism is of significant interest for its isolated position in the tree of life within the genus Halomicrobium in the family Halobacteriaceae. We present a summary classification and a set of features for H. mukohataei arg-2T, together with the description of the complete genomic sequencing and annotation. Two of the three 16S rRNA gene copies in the H. mukohataei arg-2T genome are identical, but differ by 131 nucleotides (9%) from the third copy (23S rRNA gene sequences differ by only 1-1.7%, this study).

Results

Conclusion