Draft Genome of Scalindua rubra, Obtained from the Interface Above the Discovery Deep Brine in the Red Sea, Sheds Light on Potential Salt Adaptation Strategies in Anammox Bacteria

Speth, Daan R.; Lagkouvardos, Ilias; Wang, Yong; Qian, Pei Yuan; Dutilh, Bas E.; Jetten, M.S.M.

doi:10.1007/s00248-017-0929-7

Draft Genome of Scalindua rubra, Obtained from the Interface Above the Discovery Deep Brine in the Red Sea, Sheds Light on Potential Salt Adaptation Strategies in Anammox Bacteria

Title

Draft Genome of Scalindua rubra, Obtained from the Interface Above the Discovery Deep Brine in the Red Sea, Sheds Light on Potential Salt Adaptation Strategies in Anammox Bacteria

Author

Speth, Daan R. (Radboud Universiteit Nijmegen; California Institute of Technology)
Lagkouvardos, Ilias (Technische Universität München)
Wang, Yong (Chinese Academy of Sciences)
Qian, Pei Yuan (The Hong Kong University of Science and Technology)
Dutilh, Bas E. (Universiteit Utrecht; Universidade Federal do Rio de Janeiro; Radboud Universiteit Nijmegen)
Jetten, M.S.M. (TU Delft BT/Environmental Biotechnology; Radboud Universiteit Nijmegen)

Date

2017

Abstract

Several recent studies have indicated that members of the phylum Planctomycetes are abundantly present at the brine-seawater interface (BSI) above multiple brine pools in the Red Sea. Planctomycetes include bacteria capable of anaerobic ammonium oxidation (anammox). Here, we investigated the possibility of anammox at BSI sites using metagenomic shotgun sequencing of DNA obtained from the BSI above the Discovery Deep brine pool. Analysis of sequencing reads matching the 16S rRNA and hzsA genes confirmed presence of anammox bacteria of the genus Scalindua. Phylogenetic analysis of the 16S rRNA gene indicated that this Scalindua sp. belongs to a distinct group, separate from the anammox bacteria in the seawater column, that contains mostly sequences retrieved from high-salt environments. Using coverage- and composition-based binning, we extracted and assembled the draft genome of the dominant anammox bacterium. Comparative genomic analysis indicated that this Scalindua species uses compatible solutes for osmoadaptation, in contrast to other marine anammox bacteria that likely use a salt-in strategy. We propose the name Candidatus Scalindua rubra for this novel species, alluding to its discovery in the Red Sea.

Subject

Anammox
Genome binning
Metagenomics
Red Sea
Salt adaptation
Scalindua

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http://resolver.tudelft.nl/uuid:29b17dc4-ca5c-405d-8b38-83cc04224c3d

DOI

https://doi.org/10.1007/s00248-017-0929-7

ISSN

0095-3628

Source

Microbial Ecology, 74 (1)

Part of collection

Institutional Repository