Metaplasmidome-encoded functions of Siberian low-centered polygonal tundra soils

• Published in: The ISME Journal
• Main Authors: Gorecki, Adrian, Holm, Stine, Dziurzynski, Mikolaj, Winkel, Matthias, Yang, Sizhong, Liebner, Susanne, Wagner, Dirk, Dziewit, Lukasz, Horn, Fabian
• Other Authors: Narodowe Centrum Nauki, EC | Erasmus+, European Commission, German Ministry of Education and Research
• Format: Article in Journal/Newspaper
• Language: English
• Published: Oxford University Press (OUP) 2021
• Subjects: Ecology, Evolution, Behavior and Systematics; Microbiology; permafrost; Tundra
• Online Access: http://dx.doi.org/10.1038/s41396-021-01003-y; https://www.nature.com/articles/s41396-021-01003-y.pdf; https://www.nature.com/articles/s41396-021-01003-y; https://academic.oup.com/ismej/article-pdf/15/11/3258/55253433/41396_2021_article_1003.pdf

Abstract Plasmids have the potential to transfer genetic traits within bacterial communities and thereby serve as a crucial tool for the rapid adaptation of bacteria in response to changing environmental conditions. Our knowledge of the environmental pool of plasmids (the metaplasmidome) and encoded functions is still limited due to a lack of sufficient extraction methods and tools for identifying and assembling plasmids from metagenomic datasets. Here, we present the first insights into the functional potential of the metaplasmidome of permafrost-affected active-layer soil—an environment with a relatively low biomass and seasonal freeze–thaw cycles that is strongly affected by global warming. The obtained results were compared with plasmid-derived sequences extracted from polar metagenomes. Metaplasmidomes from the Siberian active layer were enriched via cultivation, which resulted in a longer contig length as compared with plasmids that had been directly retrieved from the metagenomes of polar environments. The predicted hosts of plasmids belonged to Moraxellaceae, Pseudomonadaceae, Enterobacteriaceae, Pectobacteriaceae, Burkholderiaceae, and Firmicutes. Analysis of their genetic content revealed the presence of stress-response genes, including antibiotic and metal resistance determinants, as well as genes encoding protectants against the cold.