biostudies-literatureUnknown11Raghav SDepartment of Biotechnology, Ministry of Science and Technology, IndiaCoronavirus disease 2019 (COVID-19), caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) virus, has emerged as a global pandemic worldwide. In this study, we used ARTIC primers-based amplicon sequencing to profile 225 SARS-CoV-2 genomes from India. Phylogenetic analysis of 202 high-quality assemblies identified the presence of all the five reported clades 19A, 19B, 20A, 20B, and 20C in the population. The analyses revealed Europe and Southeast Asia as two major routes for introduction of the disease in India followed by local transmission. Interestingly, the19B clade was found to be more prevalent in our sequenced genomes (17%) compared to other genomes reported so far from India. Haplotype network analysis showed evolution of 19A and 19B clades in parallel from predFrontiers in microbiology594928https://www.ebi.ac.uk/biostudies/studies/S-EPMC7732478biostudies-literatureAnalysis of Indian SARS-CoV-2 Genomes Reveals Prevalence of D614G Mutation in Spike Protein Predicting an Increase in Interaction With TMPRSS2 and Virus Infectivity.PMC7732478Mohanty SSatpathy MMohapatra DSatapathy DMChatterjee APrasad PDatey ABeuria TKKumar SSingh AKBarik SPradhan SSingh NOdisha COVID-19 Study GroupChattopadhyay SRay ASherpa TChatterjee STuruk JRaghav SKhuntia ADutta SSen KMamidi PGosh SSmita SRout SSuranjika SKeshry SSBiswas VKDodia HGDe SPrasad DPalo SKMohapatra PVaishali PMPriyadarshini MLaha EDas RDas SAggarwal SSenapati SDas NMinz APriyadarshini SSwain RSahu DPKhatri JSNath PPanda JMadhulika SAvula KSahoo SKrishna SSahoo DPDogra DPPanda SYadav RVasudevan DKanungo SDixit AShyamli PSGhosh ASyed GHBarik DILS COVID-19 TeamSuryawanshi AChawla JAnsari SJha APradhan SKPati SSingh BMahapatra SSingh DYadav AChaini NSabat JPatro BKJena KRattan RDash RShriwas OMishra AMishra BDas DBhattacharya DBoral SJena DKshatri JSParida BParida AMishra KfalseAnalysis of Indian SARS-CoV-2 Genomes Reveals Prevalence of D614G Mutation in Spike Protein Predicting an Increase in Interaction With TMPRSS2 and Virus Infectivity.Coronavirus disease 2019 (COVID-19), caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) virus, has emerged as a global pandemic worldwide. In this study, we used ARTIC primers-based amplicon sequencing to profile 225 SARS-CoV-2 genomes from India. Phylogenetic analysis of 202 high-quality assemblies identified the presence of all the five reported clades 19A, 19B, 20A, 20B, and 20C in the population. The analyses revealed Europe and Southeast Asia as two major routes for introduction of the disease in India followed by local transmission. Interestingly, the19B clade was found to be more prevalent in our sequenced genomes (17%) compared to other genomes reported so far from India. Haplotype network analysis showed evolution of 19A and 19B clades in parallel from pred2020-01-01T00:00:00Z20202026-04-08T08:52:34.446Z2021-02-20T17:13:16ZS-EPMC77324783332948010.3389/fmicb.2020.594928