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Volume 14   Issue 2   Year 2019
Homologs of RNA Ligase 2 of the Bacteriophage T4 in Metagenomes of Ocean Microbiota

Andrei Zimin1, Nikita Nikulin1, Nafisa Nazipova2

1G.K. Scriabin Institute of Biochemistry and Physiology of Microorganisms Russian Academy of Sciences, Pushchino, Russia
2Institute of Mathematical Problems of Biology RAS, Keldysh Institute of Applied Mathematics RAS, Pushchino, Russia

 Abstract. T4 phage RNA ligase 2 is a unique enzyme that is, unlike other RNA ligases, functionally similar to the DNA ligases, as well as it is related to editing RNA ligases of parasitic Trypanosoma and Leishmania. RNA ligases 2 are present in a limited (small) number of genomes, which, moreover, are strongly scattered throughout the tree of life. A search was made for homologs of T4 phage RNA ligase 2 in the databases of pelagic oceanic genetic data (GOS) and deep-sea sedimentary microbiota (LCGC14). In the metagenomes of the pelagic and sedimentary deep-water microbiota, , 6 and 15 homologs, respectively, of RNA ligase 2 of bacteriophage T4 were found , suitable for analysis. Phylogenetic analysis of the detected amino acid sequences showed that most of them are similar to the homologs of RNA ligase 2 from bacteria and fungi. Five homologues of oceanic origin were found on a branch of a phylogenetic tree common to homologs from Tevenvirinae subfamily and Euglenozoa phylum. This result indicates the presence both in the water column of the open ocean and at its bottom of new, still unknown, organisms whose genomes encode this rare enzyme.

Key words: oceanic metagenomes, genetic studies of deep-sea sedimentary and pelagic microbiota, RNA ligase 2, genomics of bacteriophages.

Table of Contents Original Article
Math. Biol. Bioinf.
doi: 10.17537/2019.14.683
published in Russian

Abstract (rus.)
Abstract (eng.)
Full text (rus., pdf)
References Translation into English
Math. Biol. Bioinf.
2020, 15(Suppl):t88-t108
doi: 10.17537/2020.15.t88

Full text (eng., pdf)


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