Draft genome sequence data of a psychrophilic tundra soil methanotroph, Methylobacter psychrophilus Z-0021 (DSM 9914)

Thumbnail Image
Journal Title
Journal ISSN
Volume Title
Data Article
This publication is imported from Aalto University research portal.
View publication in the Research portal
View/Open full text file from the Research portal
Degree programme
Data in Brief, Volume 45
Psychrophilic methanotrophic bacteria are abundant and play an important role in methane removal in cold methanogenic environments, such as boreal and arctic terrestrial and aquatic ecosystems. They could be also applied in the bio-conversion of biogas and natural gas into value-added products (e.g., chemicals and single-cell protein) in cold regions. Hence, isolation and genome sequencing of psychrophilic methanotrophic bacteria are needed to provide important data on their functional capabilities. However, psychrophilic methanotroph isolates and consequently their genome sequences are rare. Fortunately, Leibniz Institute, DSMZ-German Collection of Microorganisms and Cell Cultures GmbH was able to revive the long-extinct pure culture of a psychrophilic methanotrophic tundra soil isolate, Methylobacter psychrophilus Z-0021 (DSM 9914), from their stocks during 2022. Here, we describe the de novo assembled genome sequence of Methylobacter psychrophilus Z-0021 comprising a total of 4691082 bp in 156 contigs with a G + C content of 43.1% and 4074 coding sequences. The preliminary genome annotation analysis of Z-0021 identified genes encoding oxidation of methane, methanol and formaldehyde, assimilation of carbon and nitrate, and N2 fixation. In pair-wise genome-to-genome comparisons with closely related methanotrophic strains, the strain Z-0021 had an average nucleotide identity (ANI) of 92.9% and 78.2% and a digital DNA-DNA hybridization (dDDH) value of 50.6% and 22% with a recently described psychrophilic, lake isolate, Methylobacter sp. S3L5C and a psychrotrophic, arctic wetland soil isolate, Methylobacter tundripaludum SV96, respectively. In addition, the respective similarities between genomes of the strains S3L5C and SV96 were 78.1% ANI and 21.8% dDDH. Comparison to widely used ANI and dDDH thresholds to delineate unique species ( < 95% ANI and < 70% dDDH) suggests that Methylobacter psychrophilus Z-0021, Methylobacter tundripaludum SV96 and Methylobacter sp. S3L5C are different species. The draft genome of Z-0021 has been deposited at GenBank under the accession JAOEGU000000000.
The work was funded by Kone Foundation (Grant no. 201803224 for AJR and RK) and Academy of Finland (Project No. 323214 & 346983 for RM and No. 346751 & 353750 for AJR). We thank DSMZ on the genome sequencing and assembly. Tampere University provided funding for the publishing (open access) fee.
Methanotroph, Methylobacter, Psychrophilic, Cold ecosystem, Methane, Tundra, Boreal, Arctic, DNA-DNA HYBRIDIZATION
Other note
Rissanen, A J, Mangayil, R, Svenning, M M & Khanongnuch, R 2022, ' Draft genome sequence data of a psychrophilic tundra soil methanotroph, Methylobacter psychrophilus Z-0021 (DSM 9914) ', Data in Brief, vol. 45, 108689 . https://doi.org/10.1016/j.dib.2022.108689