Evolutionary Study of the Crassphage Virus at Gene Level

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Evolutionary Study of the Crassphage Virus at Gene Level. / Rossi, Alessandro; Treu, Laura; Toppo, Stefano; Zschach, Henrike; Campanaro, Stefano; Dutilh, Bas E.

I: Viruses, Bind 12, Nr. 9, 1035, 2020.

Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt

Harvard

Rossi, A, Treu, L, Toppo, S, Zschach, H, Campanaro, S & Dutilh, BE 2020, 'Evolutionary Study of the Crassphage Virus at Gene Level', Viruses, bind 12, nr. 9, 1035. https://doi.org/10.3390/v12091035

APA

Rossi, A., Treu, L., Toppo, S., Zschach, H., Campanaro, S., & Dutilh, B. E. (2020). Evolutionary Study of the Crassphage Virus at Gene Level. Viruses, 12(9), [1035]. https://doi.org/10.3390/v12091035

Vancouver

Rossi A, Treu L, Toppo S, Zschach H, Campanaro S, Dutilh BE. Evolutionary Study of the Crassphage Virus at Gene Level. Viruses. 2020;12(9). 1035. https://doi.org/10.3390/v12091035

Author

Rossi, Alessandro ; Treu, Laura ; Toppo, Stefano ; Zschach, Henrike ; Campanaro, Stefano ; Dutilh, Bas E. / Evolutionary Study of the Crassphage Virus at Gene Level. I: Viruses. 2020 ; Bind 12, Nr. 9.

Bibtex

@article{d068a9dc0c9b48cc9d5569339142b541,
title = "Evolutionary Study of the Crassphage Virus at Gene Level",
abstract = "crAss-like viruses are a putative family of bacteriophages recently discovered. The eponym of the clade, crAssphage, is an enteric bacteriophage estimated to be present in at least half of the human population and it constitutes up to 90% of the sequences in some human fecal viral metagenomic datasets. We focused on the evolutionary dynamics of the genes encoded on the crAssphage genome. By investigating the conservation of the genes, a consistent variation in the evolutionary rates across the different functional groups was found. Gene duplications in crAss-like genomes were detected. By exploring the differences among the functional categories of the genes, we confirmed that the genes encoding capsid proteins were the most ubiquitous, despite their overall low sequence conservation. It was possible to identify a core of proteins whose evolutionary trees strongly correlate with each other, suggesting their genetic interaction. This group includes the capsid proteins, which are thus established as extremely suitable for rebuilding the phylogenetic tree of this viral clade. A negative correlation between the ubiquity and the conservation of viral protein sequences was shown. Together, this study provides an in-depth picture of the evolution of different genes in crAss-like viruses.",
keywords = "crAssphage, gene evolution, human gut, metaviromics, mirrortree",
author = "Alessandro Rossi and Laura Treu and Stefano Toppo and Henrike Zschach and Stefano Campanaro and Dutilh, {Bas E.}",
year = "2020",
doi = "10.3390/v12091035",
language = "English",
volume = "12",
journal = "Viruses",
issn = "1999-4915",
publisher = "M D P I AG",
number = "9",

}

RIS

TY - JOUR

T1 - Evolutionary Study of the Crassphage Virus at Gene Level

AU - Rossi, Alessandro

AU - Treu, Laura

AU - Toppo, Stefano

AU - Zschach, Henrike

AU - Campanaro, Stefano

AU - Dutilh, Bas E.

PY - 2020

Y1 - 2020

N2 - crAss-like viruses are a putative family of bacteriophages recently discovered. The eponym of the clade, crAssphage, is an enteric bacteriophage estimated to be present in at least half of the human population and it constitutes up to 90% of the sequences in some human fecal viral metagenomic datasets. We focused on the evolutionary dynamics of the genes encoded on the crAssphage genome. By investigating the conservation of the genes, a consistent variation in the evolutionary rates across the different functional groups was found. Gene duplications in crAss-like genomes were detected. By exploring the differences among the functional categories of the genes, we confirmed that the genes encoding capsid proteins were the most ubiquitous, despite their overall low sequence conservation. It was possible to identify a core of proteins whose evolutionary trees strongly correlate with each other, suggesting their genetic interaction. This group includes the capsid proteins, which are thus established as extremely suitable for rebuilding the phylogenetic tree of this viral clade. A negative correlation between the ubiquity and the conservation of viral protein sequences was shown. Together, this study provides an in-depth picture of the evolution of different genes in crAss-like viruses.

AB - crAss-like viruses are a putative family of bacteriophages recently discovered. The eponym of the clade, crAssphage, is an enteric bacteriophage estimated to be present in at least half of the human population and it constitutes up to 90% of the sequences in some human fecal viral metagenomic datasets. We focused on the evolutionary dynamics of the genes encoded on the crAssphage genome. By investigating the conservation of the genes, a consistent variation in the evolutionary rates across the different functional groups was found. Gene duplications in crAss-like genomes were detected. By exploring the differences among the functional categories of the genes, we confirmed that the genes encoding capsid proteins were the most ubiquitous, despite their overall low sequence conservation. It was possible to identify a core of proteins whose evolutionary trees strongly correlate with each other, suggesting their genetic interaction. This group includes the capsid proteins, which are thus established as extremely suitable for rebuilding the phylogenetic tree of this viral clade. A negative correlation between the ubiquity and the conservation of viral protein sequences was shown. Together, this study provides an in-depth picture of the evolution of different genes in crAss-like viruses.

KW - crAssphage

KW - gene evolution

KW - human gut

KW - metaviromics

KW - mirrortree

U2 - 10.3390/v12091035

DO - 10.3390/v12091035

M3 - Journal article

C2 - 32957679

AN - SCOPUS:85091473118

VL - 12

JO - Viruses

JF - Viruses

SN - 1999-4915

IS - 9

M1 - 1035

ER -

ID: 249857477