Journal
FEMS MICROBIOLOGY ECOLOGY
Volume 97, Issue 10, Pages -Publisher
OXFORD UNIV PRESS
DOI: 10.1093/femsec/fiab127
Keywords
cold-adapted proteins; soil metagenomics; soil metatranscriptomics; permafrost; Greenland Ice Sheet (GrIS); bioengineering
Categories
Funding
- Natural Environment Research Council [NE/J02399X/1]
- European Union [675546]
- NERC [NE/J02399X/1] Funding Source: UKRI
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This study collected permafrost samples from southwest Greenland to create a Cold-Adapted Predicted Protein (CAPP) database with over three million predicted proteins, which can provide information for protein engineering of cold-adapted enzymes in the future.
Permafrost represents a reservoir for the biodiscovery of cold-adapted proteins which are advantageous in industrial and medical settings. Comparisons between different thermo-adapted proteins can give important information for cold-adaptation bioengineering. We collected permafrost active layer samples from 34 points along a proglacial transect in southwest Greenland. We obtained a deep read coverage assembly (>164x) from nanopore and Illumina sequences for the purposes of i) analysing metagenomic and metatranscriptomic trends of the microbial community of this area, and creating the Cold-Adapted Predicted Protein (CAPP) database. The community showed a similar taxonomic composition in all samples along the transect, with a solid permafrost-shaped community, rather than microbial trends typical of proglacial systems. We retrieved 69 high- and medium-quality metagenome-assembled clusters, 213 complete biosynthetic gene clusters and more than three million predicted proteins. The latter constitute the CAPP database that can provide cold-adapted protein sequence information for protein- and taxon-focused amino acid sequence modifications for the future bioengineering of cold-adapted enzymes. As an example, we focused on the enzyme polyphenol oxidase, and demonstrated how sequence variation information could inform its protein engineering.
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