Three distinct ORF1a recombinants of the SARS-CoV-2 Delta variant of concern

Dong Wook Lee; Jeong Min Kim; Da Won Kim; Ji Yun Kim; Jeong Ah Kim; Chae Young Lee; Jin Sun No; Il Hwan Kim; Jee Eun Rhee; Eun Jin Kim; Jung Hoon Kwon

doi:10.1016/j.virol.2023.109945

Three distinct ORF1a recombinants of the SARS-CoV-2 Delta variant of concern

Dong Wook Lee, Jeong Min Kim, Da Won Kim, Ji Yun Kim, Jeong Ah Kim, Chae Young Lee, Jin Sun No, Il Hwan Kim, Jee Eun Rhee, Eun Jin Kim, Jung Hoon Kwon

Department of Veterinary Medicine

Research output: Contribution to journal › Article › peer-review

Abstract

The ongoing COVID-19 pandemic caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has led to the emergency of various lineages through mutations and recombination. In the Delta lineage, we identified recombination events in the ORF1a gene, which divided the Delta sublineages into three different genotypes (Delta R1-R3). The regional distributions of Delta R1 and Delta R2 were not correlated, indicating that recombination occurred early in the Delta outbreak. The impact of the ORF1a gene on SARS-CoV-2 transmission remains unclear; however, our findings suggest that recombination may have contributed to the evolution and global spread of the Delta lineage.

Original language	English
Article number	109945
Journal	Virology
Volume	590
DOIs	https://doi.org/10.1016/j.virol.2023.109945
State	Published - Feb 2024

Keywords

COVID-19
Phylogenetic analysis
Recombination
SARS-CoV-2

Access to Document

10.1016/j.virol.2023.109945

Cite this

@article{256f49602cfd4f6bb9280467a4f25187,

title = "Three distinct ORF1a recombinants of the SARS-CoV-2 Delta variant of concern",

abstract = "The ongoing COVID-19 pandemic caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has led to the emergency of various lineages through mutations and recombination. In the Delta lineage, we identified recombination events in the ORF1a gene, which divided the Delta sublineages into three different genotypes (Delta R1-R3). The regional distributions of Delta R1 and Delta R2 were not correlated, indicating that recombination occurred early in the Delta outbreak. The impact of the ORF1a gene on SARS-CoV-2 transmission remains unclear; however, our findings suggest that recombination may have contributed to the evolution and global spread of the Delta lineage.",

keywords = "COVID-19, Phylogenetic analysis, Recombination, SARS-CoV-2",

author = "Lee, {Dong Wook} and Kim, {Jeong Min} and Kim, {Da Won} and Kim, {Ji Yun} and Kim, {Jeong Ah} and Lee, {Chae Young} and No, {Jin Sun} and Kim, {Il Hwan} and Rhee, {Jee Eun} and Kim, {Eun Jin} and Kwon, {Jung Hoon}",

note = "Publisher Copyright: {\textcopyright} 2023 Elsevier Inc.",

year = "2024",

month = feb,

doi = "10.1016/j.virol.2023.109945",

language = "English",

volume = "590",

journal = "Virology",

issn = "0042-6822",

publisher = "Academic Press Inc.",

}

TY - JOUR

T1 - Three distinct ORF1a recombinants of the SARS-CoV-2 Delta variant of concern

AU - Lee, Dong Wook

AU - Kim, Jeong Min

AU - Kim, Da Won

AU - Kim, Ji Yun

AU - Kim, Jeong Ah

AU - Lee, Chae Young

AU - No, Jin Sun

AU - Kim, Il Hwan

AU - Rhee, Jee Eun

AU - Kim, Eun Jin

AU - Kwon, Jung Hoon

PY - 2024/2

Y1 - 2024/2

N2 - The ongoing COVID-19 pandemic caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has led to the emergency of various lineages through mutations and recombination. In the Delta lineage, we identified recombination events in the ORF1a gene, which divided the Delta sublineages into three different genotypes (Delta R1-R3). The regional distributions of Delta R1 and Delta R2 were not correlated, indicating that recombination occurred early in the Delta outbreak. The impact of the ORF1a gene on SARS-CoV-2 transmission remains unclear; however, our findings suggest that recombination may have contributed to the evolution and global spread of the Delta lineage.

AB - The ongoing COVID-19 pandemic caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has led to the emergency of various lineages through mutations and recombination. In the Delta lineage, we identified recombination events in the ORF1a gene, which divided the Delta sublineages into three different genotypes (Delta R1-R3). The regional distributions of Delta R1 and Delta R2 were not correlated, indicating that recombination occurred early in the Delta outbreak. The impact of the ORF1a gene on SARS-CoV-2 transmission remains unclear; however, our findings suggest that recombination may have contributed to the evolution and global spread of the Delta lineage.

KW - COVID-19

KW - Phylogenetic analysis

KW - Recombination

KW - SARS-CoV-2

UR - http://www.scopus.com/inward/record.url?scp=85179166450&partnerID=8YFLogxK

U2 - 10.1016/j.virol.2023.109945

DO - 10.1016/j.virol.2023.109945

M3 - Article

C2 - 38064871

AN - SCOPUS:85179166450

SN - 0042-6822

VL - 590

JO - Virology

JF - Virology

M1 - 109945

ER -

Three distinct ORF1a recombinants of the SARS-CoV-2 Delta variant of concern

Abstract

Keywords

Access to Document

Other files and links

Fingerprint

Cite this