Genome Analysis of Epsilon CrAss-like Phages

CrAss-like phages play an important role in maintaining ecological balance in the human intestinal microbiome. However, their genetic diversity and lifestyle are still insufficiently studied. In this study, a novel CrAssE-Sib phage genome belonging to the epsilon crAss-like phage genomes was found....

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Vydané v:	Viruses Ročník 16; číslo 4; s. 513
Hlavní autori:	Babkin, Igor V., Tikunov, Artem Y., Baykov, Ivan K., Morozova, Vera V., Tikunova, Nina V.
Médium:	Journal Article
Jazyk:	English
Vydavateľské údaje:	Switzerland MDPI AG 27.03.2024 MDPI
Predmet:	Amino acids Analysis Bacteriophages Bacteriophages - classification Bacteriophages - genetics Comparative analysis crAss-like phages diversity-generating retroelements DNA DNA polymerase DNA polymerases DNA primase DNA Primase - genetics DNA Primase - metabolism DNA, Viral - genetics domain ecological balance Ecology family Genes Genetic aspects Genetic diversity Genetic Variation genome Genome, Viral Genomes Genomics Genomics - methods humans intestinal microorganisms lifestyle Microbiomes monophyly Nucleotide sequence Phages Phylogeny Primase Prophages - genetics Protein binding Proteins Repressors repressors/anti-repressors Retroelements reverse transcriptase RNA polymerase RNA-directed DNA polymerase RNA-Directed DNA Polymerase - genetics RNA-Directed DNA Polymerase - metabolism sequence analysis Software Transfer RNA Viral Proteins - genetics Viral Proteins - metabolism virus taxonomy Russia United States > US genome repressors/anti-repressors virus taxonomy reverse transcriptase diversity-generating retroelements crAss-like phages
ISSN:	1999-4915, 1999-4915
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Shrnutí:	CrAss-like phages play an important role in maintaining ecological balance in the human intestinal microbiome. However, their genetic diversity and lifestyle are still insufficiently studied. In this study, a novel CrAssE-Sib phage genome belonging to the epsilon crAss-like phage genomes was found. Comparative analysis indicated that epsilon crAss-like phages are divided into two putative genera, which were proposed to be named Epsilonunovirus and Epsilonduovirus; CrAssE-Sib belongs to the former. The crAssE-Sib genome contains a diversity-generating retroelement (DGR) cassette with all essential elements, including the reverse transcriptase (RT) and receptor binding protein (RBP) genes. However, this RT contains the GxxxSP motif in its fourth domain instead of the usual GxxxSQ motif found in all known phage and bacterial DGRs. RBP encoded by CrAssE-Sib and other Epsilonunoviruses has an unusual structure, and no similar phage proteins were found. In addition, crAssE-Sib and other Epsilonunoviruses encode conserved prophage repressor and anti-repressors that could be involved in lysogenic-to-lytic cycle switches. Notably, DNA primase sequences of epsilon crAss-like phages are not included in the monophyletic group formed by the DNA primases of all other crAss-like phages. Therefore, epsilon crAss-like phage substantially differ from other crAss-like phages, indicating the need to classify these phages into a separate family.
Bibliografia:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 14 content type line 23
ISSN:	1999-4915 1999-4915
DOI:	10.3390/v16040513