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

doi:10.1186/s40793-015-0052-7

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

Stand Genomic Sci. 2015 Aug 13:10:52. doi: 10.1186/s40793-015-0052-7. eCollection 2015.

Affiliations

¹ Laboratory of Wastewater Management and Treatment Technologies, Department of Environmental Engineering, Democritus University of Thrace, Xanthi, Greece.
² Theodosius Dobzhansky Center for Genome Bioinformatics, St. Petersburg State University, St. Petersburg, Russia ; Algorithmic Biology Lab, St. Petersburg Academic University, St. Petersburg, Russia.
³ Department of Energy Joint Genome Institute, Genome Biology Program, Walnut Creek, CA USA.
⁴ Biological Data Management and Technology Center, Lawrence Berkeley National Laboratory, Berkeley, CA USA.
⁵ Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany.
⁶ Electron Microscopy Laboratory, Agricultural University of Athens, Athens, Greece.
⁷ Department 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.
⁸ Laboratory of General and Agricultural Microbiology, Agricultural University of Athens, Athens, Greece.

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-7(T) 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-7(T) 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.

Keywords: Alkaline two-phase olive mill waste; Catechol to β-ketoadipate degradation pathway; Cyanate and acrylonitrile detoxification; GEBA-KMG; Halomonadaceae; Protocatechuate ortho-cleavage.