Genomic comparison between members of the Salinibacteraceae family, and description of a new species of Salinibacter (Salinibacter altiplanensis sp. nov.) isolated from high altitude hypersaline environments of the Argentinian Altiplano

Tomeu Viver; Luis Orellana; Pedro González-Torres; Sara Díaz; Mercedes Urdiain; María Eugenia Farías; Vladimir Benes; Peter Kaempfer; Azadeh Shahinpei; Mohammad Ali Amoozegar; Rudolf Amann; Josefa Antón; Konstantinos T Konstantinidis; Ramon Rosselló-Móra

doi:10.1016/j.syapm.2017.12.004

Genomic comparison between members of the Salinibacteraceae family, and description of a new species of Salinibacter (Salinibacter altiplanensis sp. nov.) isolated from high altitude hypersaline environments of the Argentinian Altiplano

Syst Appl Microbiol. 2018 May;41(3):198-212. doi: 10.1016/j.syapm.2017.12.004. Epub 2018 Jan 31.

Authors

Affiliations

¹ Marine Microbiology Group, Department of Ecology and Marine Resources, Mediterranean Institute for Advanced Studies (IMEDEA, CSIC-UIB), E-07190 Esporles, Spain. Electronic address: tviver@imedea.uib-csic.es.
² School of Civil & Environmental Engineering, Georgia Institute of Technology, Atlanta, GA, USA.
³ Department of Physiology, Genetics and Microbiology, University of Alicante, Alicante, Spain.
⁴ Marine Microbiology Group, Department of Ecology and Marine Resources, Mediterranean Institute for Advanced Studies (IMEDEA, CSIC-UIB), E-07190 Esporles, Spain.
⁵ Laboratorio de Investigaciones Microbiológicas de Lagunas Andinas (LIMLA), Planta Piloto de Procesos Industriales Microbiológicos (PROIMI), CCT, CONICET, Tucumán, Argentina.
⁶ European Molecular Biology Laboratory (EMBL), Genomics Core Facility, Meyerhofstr. 1, D-69117 Heidelberg, Germany.
⁷ Institut für Angewandte Mikrobiologie, Justus-Liebig-Universität Giessen, IFZ-Heinrich-Buff-Ring, Giessen, Germany.
⁸ Extremophiles Laboratory, Department of Microbiology, Faculty of Biology and Center of Excellence in Phylogeny of Living Organisms, Collage of Science, University of Tehran, Tehran, Iran.
⁹ Department of Molecular Ecology, Max-Planck-Institut für Marine Mikrobiologie, Bremen D-28359, Germany.

PMID: 29429564
DOI: 10.1016/j.syapm.2017.12.004

Abstract

The application of tandem MALDI-TOF MS screening with 16S rRNA gene sequencing of selected isolates has been demonstrated to be an excellent approach for retrieving novelty from large-scale culturing. The application of such methodologies in different hypersaline samples allowed the isolation of the culture-recalcitrant Salinibacter ruber second phylotype (EHB-2) for the first time, as well as a new species recently isolated from the Argentinian Altiplano hypersaline lakes. In this study, the genome sequences of the different species of the phylum Rhodothermaeota were compared and the genetic repertoire along the evolutionary gradient was analyzed together with each intraspecific variability. Altogether, the results indicated an open pan-genome for the family Salinibacteraceae, as well as the codification of relevant traits such as diverse rhodopsin genes, CRISPR-Cas systems and spacers, and one T6SS secretion system that could give ecological advantages to an EHB-2 isolate. For the new Salinibacter species, we propose the name Salinibacter altiplanensis sp. nov. (the designated type strain is AN15^T=CECT 9105^T=IBRC-M 11031^T).

Keywords: Genomic; Halophiles; MALDI-TOF MS; Salinibacter ruber; Salt lake; Salterns.

Publication types

Comparative Study

MeSH terms

Altitude
Argentina
Bacterial Typing Techniques
Bacteroidetes / classification*
Bacteroidetes / genetics
Bacteroidetes / isolation & purification
CRISPR-Cas Systems
DNA, Bacterial / genetics
Genome, Bacterial*
Lakes / microbiology*
Phylogeny*
RNA, Ribosomal, 16S / genetics
Rhodopsin / genetics
Salinity*
Sequence Analysis, DNA
Type VI Secretion Systems / genetics
Water Microbiology

Substances

DNA, Bacterial
RNA, Ribosomal, 16S
Type VI Secretion Systems
Rhodopsin