TY - JOUR
T1 - Emergence of SARS-CoV-2 omicron variant JN.1 in Tamil Nadu, India - Clinical characteristics and novel mutations
AU - Selvavinayagam, Sivaprakasam T.
AU - Sankar, Sathish
AU - Yong, Yean K.
AU - Murugesan, Amudhan
AU - Suvaithenamudhan, Suvaiyarasan
AU - Hemashree, Kannan
AU - Rajeshkumar, Manivannan
AU - Kumaresan, Anandhazhvar
AU - Pandey, Ramendra P.
AU - Shanmugam, Saravanan
AU - Arthydevi, Parthiban
AU - Kumar, Masilamani Senthil
AU - Gopalan, Natarajan
AU - Kannan, Meganathan
AU - Cheedarla, Narayanaiah
AU - Tan, Hong Y.
AU - Zhang, Ying
AU - Larsson, Marie
AU - Balakrishnan, Pachamuthu
AU - Velu, Vijayakumar
AU - Byrareddy, Siddappa N.
AU - Shankar, Esaki M.
AU - Raju, Sivadoss
N1 - Publisher Copyright:
© The Author(s) 2024.
PY - 2024/12
Y1 - 2024/12
N2 - In December 2023, we observed a notable shift in the COVID-19 landscape, when JN.1 omicron emerged as the predominant SARS-CoV-2 variant with a 95% incidence. We characterized the clinical profile, and genetic changes in JN.1, an emerging SARS-CoV-2 variant of interest. Whole genome sequencing was performed on SARS-CoV-2 positive clinical specimens, followed by sequence analysis. Mutations within the spike protein sequences were analysed and compared with the previously reported lineages and sub-lineages, to identify the potential impact of the unique mutations on protein structure and possible alterations in the functionality. Several unique and dynamic mutations were identified herein. Molecular docking analysis showed changes in the binding affinity, and key interacting residues of wild-type and mutated structures with key host cell receptors of SARS-CoV-2 entry viz., ACE2, CD147, CD209L and AXL. Our data provides key insights on the emergence of newer variants and highlights the necessity for robust and sustained global genomic surveillance of SARS-CoV-2.
AB - In December 2023, we observed a notable shift in the COVID-19 landscape, when JN.1 omicron emerged as the predominant SARS-CoV-2 variant with a 95% incidence. We characterized the clinical profile, and genetic changes in JN.1, an emerging SARS-CoV-2 variant of interest. Whole genome sequencing was performed on SARS-CoV-2 positive clinical specimens, followed by sequence analysis. Mutations within the spike protein sequences were analysed and compared with the previously reported lineages and sub-lineages, to identify the potential impact of the unique mutations on protein structure and possible alterations in the functionality. Several unique and dynamic mutations were identified herein. Molecular docking analysis showed changes in the binding affinity, and key interacting residues of wild-type and mutated structures with key host cell receptors of SARS-CoV-2 entry viz., ACE2, CD147, CD209L and AXL. Our data provides key insights on the emergence of newer variants and highlights the necessity for robust and sustained global genomic surveillance of SARS-CoV-2.
KW - JN.1 variant
KW - Mutation
KW - Omicron variant
KW - SARS-CoV-2
KW - Spike protein
KW - Whole genome sequencing
UR - http://www.scopus.com/inward/record.url?scp=85200047047&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=85200047047&partnerID=8YFLogxK
U2 - 10.1038/s41598-024-68678-z
DO - 10.1038/s41598-024-68678-z
M3 - Article
C2 - 39080396
AN - SCOPUS:85200047047
SN - 2045-2322
VL - 14
JO - Scientific reports
JF - Scientific reports
IS - 1
M1 - 17476
ER -