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Circulation and Evolution of SARS-CoV-2 in India: Let the Data Speak.
Limaye, Sanket; Kasibhatla, Sunitha M; Ramtirthkar, Mukund; Kinikar, Meenal; Kale, Mohan M; Kulkarni-Kale, Urmila.
Afiliación
  • Limaye S; Bioinformatics Centre, Savitribai Phule Pune University (Formerly University of Pune), Pune 411007, India.
  • Kasibhatla SM; Bioinformatics Centre, Savitribai Phule Pune University (Formerly University of Pune), Pune 411007, India.
  • Ramtirthkar M; HPC-Medical & Bioinformatics Applications Group, Centre for Development of Advanced Computing, Pune 411008, India.
  • Kinikar M; Department of Statistics, Savitribai Phule Pune University (Formerly University of Pune), Pune 411007, India.
  • Kale MM; Bioinformatics Centre, Savitribai Phule Pune University (Formerly University of Pune), Pune 411007, India.
  • Kulkarni-Kale U; Department of Statistics, Savitribai Phule Pune University (Formerly University of Pune), Pune 411007, India.
Viruses ; 13(11)2021 11 08.
Article en En | MEDLINE | ID: mdl-34835044
The COVID-19 pandemic is a global challenge that impacted 200+ countries. India ranks in the second and third positions in terms of number of reported cases and deaths. Being a populous country with densely packed cities, SARS-CoV-2 spread exponentially. India sequenced ≈0.14% isolates from confirmed cases for pandemic surveillance and contributed ≈1.58% of complete genomes sequenced globally. This study was designed to map the circulating lineage diversity and to understand the evolution of SARS-CoV-2 in India using comparative genomics and population genetics approaches. Despite varied sequencing coverage across Indian States and Union Territories, isolates belonging to variants of concern (VoC) and variants of interest (VoI) circulated, persisted, and diversified during the first seventeen months of the pandemic. Delta and Kappa lineages emerged in India and spread globally. The phylogenetic tree shows lineage-wise monophyletic clusters of VoCs/VoIs and diversified tree topologies for non-VoC/VoI lineages designated as 'Others' in this study. Evolutionary dynamics analyses substantiate a lack of spatio-temporal clustering, which is indicative of multiple global and local introductions. Sites under positive selection and significant variations in spike protein corroborate with the constellation of mutations to be monitored for VoC/VoI as well as substitutions that are characteristic of functions with implications in virus-host interactions, differential glycosylation, immune evasion, and escape from neutralization.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Glicoproteína de la Espiga del Coronavirus / SARS-CoV-2 / COVID-19 Tipo de estudio: Prognostic_studies Límite: Humans País/Región como asunto: Asia Idioma: En Revista: Viruses Año: 2021 Tipo del documento: Article País de afiliación: India Pais de publicación: Suiza
Texto completo
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Glicoproteína de la Espiga del Coronavirus / SARS-CoV-2 / COVID-19 Tipo de estudio: Prognostic_studies Límite: Humans País/Región como asunto: Asia Idioma: En Revista: Viruses Año: 2021 Tipo del documento: Article País de afiliación: India Pais de publicación: Suiza