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Syst Appl Microbiol. 2019 Jan;42(1):54-66. doi: 10.1016/j.syapm.2018.12.003. Epub 2018 Dec 14.

Discovery and ecogenomic context of a global Caldiserica-related phylum active in thawing permafrost, Candidatus Cryosericota phylum nov., Ca. Cryosericia class nov., Ca. Cryosericales ord. nov., Ca. Cryosericaceae fam. nov., comprising the four species Cryosericum septentrionale gen. nov. sp. nov., Ca. C. hinesii sp. nov., Ca. C. odellii sp. nov., Ca. C. terrychapinii sp. nov.

Author information

1
Department of Microbiology, The Ohio State University, Columbus, OH 43210, United States.
2
Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, University of Queensland, Australia.
3
Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, United States.
4
Ronin Institute, Montclair, NJ 07043, United States.
5
Department of Microbiology, The Ohio State University, Columbus, OH 43210, United States; Department of Earth, Ocean, and Atmospheric Science, Florida State University, Tallahassee, FL 32306, United States.
6
Department of Soil, Water and Environmental Sciences, University of Arizona, Tucson, AZ 85716, United States.
7
School of Biosciences, University of Exeter, Exeter, EX4 4QD, UK.
8
Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 85716, United States.
9
Department of Microbiology, The Ohio State University, Columbus, OH 43210, United States; Department of Soil, Water and Environmental Sciences, University of Arizona, Tucson, AZ 85716, United States. Electronic address: rich.270@osu.edu.

Abstract

The phylum Caldiserica was identified from the hot spring 16S rRNA gene lineage 'OP5' and named for the sole isolate Caldisericum exile, a hot spring sulfur-reducing chemoheterotroph. Here we characterize 7 Caldiserica metagenome-assembled genomes (MAGs) from a thawing permafrost site in Stordalen Mire, Arctic Sweden. By 16S rRNA and marker gene phylogenies, and average nucleotide and amino acid identities, these Stordalen Mire Caldiserica (SMC) MAGs form part of a divergent clade from C. exile. Genome and meta-transcriptome and proteome analyses suggest that unlike Caldisericum, the SMCs (i) are carbohydrate- and possibly amino acid fermenters that can use labile plant compounds and peptides, and (ii) encode adaptations to low temperature. The SMC clade rose to community dominance within permafrost, with a peak metagenome-based relative abundance of ∼60%. It was also physiologically active in the upper seasonally-thawed soil. Beyond Stordalen Mire, analysis of 16S rRNA gene surveys indicated a global distribution of this clade, predominantly in anaerobic, carbon-rich and cold environments. These findings establish the SMCs as four novel phenotypically and ecologically distinct species within a single novel genus, distinct from C. exile clade at the phylum level. The SMCs are thus part of a novel cold-habitat phylum for an understudied, globally-distributed superphylum encompassing the Caldiserica. We propose the names Candidatus Cryosericota phylum nov., Ca. Cryosericia class nov., Ca. Cryosericales ord. nov., Ca. Cryosericaceae fam. nov., Ca. Cryosericum gen. nov., Ca. Cryosericum septentrionale sp. nov., Ca. C. hinesii sp. nov., Ca. C. odellii sp. nov., and Ca. C. terrychapinii sp. nov.

KEYWORDS:

Ca. Cryosericota; Ca. Cryosericum; Caldiserica; Metagenome-assembled genome; Permafrost; Stordalen Mire

PMID:
30616913
DOI:
10.1016/j.syapm.2018.12.003
[Indexed for MEDLINE]
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