The 29-nucleotide deletion in SARS-CoV: truncated versions of ORF8 are under purifying selection

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F61988987%3A17310%2F23%3AA2402LWE" target="_blank" >RIV/61988987:17310/23:A2402LWE - isvavai.cz</a>

Result on the web

<a href="https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-023-09482-3" target="_blank" >https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-023-09482-3</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1186/s12864-023-09482-3" target="_blank" >10.1186/s12864-023-09482-3</a>

Result language

angličtina

Original language name

The 29-nucleotide deletion in SARS-CoV: truncated versions of ORF8 are under purifying selection

Original language description

BackgroundAccessory proteins have diverse roles in coronavirus pathobiology. One of them in SARS-CoV (the causative agent of the severe acute respiratory syndrome outbreak in 2002-2003) is encoded by the open reading frame 8 (ORF8). Among the most dramatic genomic changes observed in SARS-CoV isolated from patients during the peak of the pandemic in 2003 was the acquisition of a characteristic 29-nucleotide deletion in ORF8. This deletion cause splitting of ORF8 into two smaller ORFs, namely ORF8a and ORF8b. Functional consequences of this event are not entirely clear.ResultsHere, we performed evolutionary analyses of ORF8a and ORF8b genes and documented that in both cases the frequency of synonymous mutations was greater than that of nonsynonymous ones. These results suggest that ORF8a and ORF8b are under purifying selection, thus proteins translated from these ORFs are likely to be functionally important. Comparisons with several other SARS-CoV genes revealed that another accessory gene, ORF7a, has a similar ratio of nonsynonymous to synonymous mutations suggesting that ORF8a, ORF8b, and ORF7a are under similar selection pressure.ConclusionsOur results for SARS-CoV echo the known excess of deletions in the ORF7a-ORF7b-ORF8 complex of accessory genes in SARS-CoV-2. A high frequency of deletions in this gene complex might reflect recurrent searches in "functional space" of various accessory protein combinations that may eventually produce more advantageous configurations of accessory proteins similar to the fixed deletion in the SARS-CoV ORF8 gene.

Czech name

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Czech description

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Type

J_imp - Article in a specialist periodical, which is included in the Web of Science database

CEP classification

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OECD FORD branch

10607 - Virology

Project

<a href="/en/project/EF16_019%2F0000759" target="_blank" >EF16_019/0000759: Centre for research of pathogenicity and virulence of parasites</a><br>

Continuities

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year

2023

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

BMC GENOMICS

ISSN

1471-2164

e-ISSN

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Volume of the periodical

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Issue of the periodical within the volume

1

Country of publishing house

GB - UNITED KINGDOM

Number of pages

11

Pages from-to

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UT code for WoS article

001026957600003

EID of the result in the Scopus database

2-s2.0-85164291210