Your browser doesn't support javascript.
Oligonucleotide usage in coronavirus genomes mimics that in exon regions in host genomes.
Iwasaki, Yuki; Abe, Takashi; Ikemura, Toshimichi.
  • Iwasaki Y; Department of Bioscience, Nagahama Institute of Bio-Science and Technology, Tamura-Cho 1266, Nagahama-Shi, Shiga-Ken, 526-0829, Japan.
  • Abe T; Department of Information Engineering, Graduate School of Science and Technology, Niigata University, Niigata-Ken, 950-2181, Japan.
  • Ikemura T; Department of Bioscience, Nagahama Institute of Bio-Science and Technology, Tamura-Cho 1266, Nagahama-Shi, Shiga-Ken, 526-0829, Japan. t_ikemura@nagahama-i-bio.ac.jp.
Virol J ; 20(1): 39, 2023 03 01.
Article in English | MEDLINE | ID: covidwho-2264179
ABSTRACT

BACKGROUND:

Viruses use various host factors for their growth, and efficient growth requires efficient use of these factors. Our previous study revealed that the occurrence frequency of oligonucleotides in the influenza virus genome is distinctly different among derived hosts, and the frequency tends to adapt to the host cells in which they grow. We aimed to study the adaptation mechanisms of a zoonotic virus to host cells.

METHODS:

Herein, we compared the frequency of oligonucleotides in the genome of alpha- and betacoronavirus with those in the genomes of humans and bats, which are typical hosts of the viruses.

RESULTS:

By comparing the oligonucleotide frequency in coronaviruses and their host genomes, we found a statistically tested positive correlation between the frequency of coronaviruses and that of the exon regions of the host from which the virus is derived. To examine the characteristics of early-stage changes in the viral genome, which are assumed to accompany the host change from non-humans to humans, we compared the oligonucleotide frequency between severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) at the beginning of the pandemic and the prevalent variants thereafter, and found changes towards the frequency of the host exon regions.

CONCLUSIONS:

In alpha- and betacoronaviruses, the genome oligonucleotide frequency is thought to change in response to the cellular environment in which the virus is replicating, and actually the frequency has approached the frequency in exon regions in the host.
Subject(s)
Keywords

Full text: Available Collection: International databases Database: MEDLINE Main subject: Chiroptera / COVID-19 Topics: Variants Limits: Animals Language: English Journal: Virol J Journal subject: Virology Year: 2023 Document Type: Article Affiliation country: S12985-023-01995-3

Similar

MEDLINE

...
LILACS

LIS


Full text: Available Collection: International databases Database: MEDLINE Main subject: Chiroptera / COVID-19 Topics: Variants Limits: Animals Language: English Journal: Virol J Journal subject: Virology Year: 2023 Document Type: Article Affiliation country: S12985-023-01995-3