High-quality permanent draft genome sequence of the extremely osmotolerant diphenol degrading bacterium Halotalea alkalilenta AW-7(T), and emended description of the genus Halotalea.

Spyridon Ntougias,Alex Copeland,Tanja Woyke,Natalia N Ivanova,Alla Lapidus,T B K Reddy,Georgios I Zervakis,Nikos C Kyrpides,Constantinos Fasseas,Amrita Pati,Victor M Markowitz,Hans-Peter Klenk

doi:10.1186/s40793-015-0052-7

Abstract

Members of the genus Halotalea (family Halomonadaceae) are of high significance since they can tolerate the greatest glucose and maltose concentrations ever reported for known bacteria and are involved in the degradation of industrial effluents. Here, the characteristics and the permanent-draft genome sequence and annotation of Halotalea alkalilenta AW-7T are described. The microorganism was sequenced as a part of the Genomic Encyclopedia of Type Strains, Phase I: the one thousand microbial genomes (KMG) project at the DOE Joint Genome Institute, and it is the only strain within the genus Halotalea having its genome sequenced. The genome is 4,467,826 bp long and consists of 40 scaffolds with 64.62 % average GC content. A total of 4,104 genes were predicted, comprising of 4,028 protein-coding and 76 RNA genes. Most protein-coding genes (87.79 %) were assigned to a putative function. Halotalea alkalilenta AW-7T encodes the catechol and protocatechuate degradation to β-ketoadipate via the β-ketoadipate and protocatechuate ortho-cleavage degradation pathway, and it possesses the genetic ability to detoxify fluoroacetate, cyanate and acrylonitrile. An emended description of the genus Halotalea Ntougias et al. 2007 is also provided in order to describe the delayed fermentation ability of the type strain.

Highlights

The genus Halotalea includes a single species, i.e., H. alkalilenta, which is a motile, rod-shaped, alkalitolerant and halotolerant Gram-negative staining heterotrophic bacterium [1]
In H. alkalilenta AW-7T, protein coding genes involved in the major functional categories are 50 % and 30 % greater in number than those detected in Z. palmae T109T and C. nigrificans CTCBS1T, respectively
Genome sequence and biochemical data of the highly osmotolerant species Halotalea alkalilenta AW-7T revealed the presence of an oxidative phosphorylation pathway that lacks cytochrome c oxidase, and the encoding of the pyruvate fermentation to acetate II (MetaCyc pathway)

Summary

Introduction

The genus Halotalea includes a single species, i.e., H. alkalilenta, which is a motile, rod-shaped, alkalitolerant and halotolerant Gram-negative staining heterotrophic bacterium [1]. 161 m 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 from the Gene Ontology project [53]. In H. alkalilenta AW-7T, protein coding genes involved in the major functional categories (i.e., amino acid, carbohydrate and lipid metabolism, membrane transport, energy metabolism) are 50 % and 30 % greater in number than those detected in Z. palmae T109T and C. nigrificans CTCBS1T, respectively. Genome data uncovered the genetic ability of H. alkalilenta AW-7T to degrade several recalcitrant substrates

20.91 Not in COGs

Findings

Conclusions