Additional file 1 of Whole-genome characterization of common rotavirus strains circulating in Vellore, India from 2002 to 2017: emergence of non-classical genomic constellations
Creators: name: Khakha, Shainey Alokit
name: Varghese, Tintu
name: Giri, Sidhartha
name: Durbin, Alan
name: Tan, Gene S.
name: Kalaivanan, Maheswari
name: Prasad, Jasmin Helan
name: Kang, Gagandeep
Publisher: name: figshare
Year: 2024
Subjects: subject: Space Science
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Infectious Diseases
subject: FOS: Health sciences

description: Additional file 1 Table S1. List of primers for Rotavirus 11 genes amplification. Additional file 2: Table S2. Whole genome constellation of Wa-like strains sequenced from Vellore, arranged in the order of year of collection. Green colour box indicates the complete sequence of the classical gene, yellow colour box indicates the complete sequence of the reassortant genes, and the red colour box indicates the missing gene(the segment which could not be sequenced). Additional file 3: Table S3. Whole genome constellation of DS-1-like strains sequenced from Vellore, arranged in the order of year of collection. Green colour box indicates the complete sequence of the classical gene, yellow colour box indicates the complete sequence of the reassortant genes, and the red colour box indicates the missing gene(the segment which could not be sequenced). Additional file 4: Table S4. Details of the reference strains used for distance analysis and phylogenetic analysis. Additional file 5: Table S5. Observed sequence identities among the protein coding regions of the 11 RVA genes among different genotypes of the sequenced Wa-like strains. (NT-Nucleotide identity, AA-Amino Acid identity in percentage). Additional file 6: Table S6. Observed sequence identities among the protein coding regions of the 11 RVA genes among different genotypes of the sequenced DS-1-like strains. (NT-Nucleotide identity, AA-Amino Acid identity in percentage). Additional file 7: Table S7. Observed sequence identities of the protein coding sequences of Wa-like strains compared with reference strains from GenBank. The highest and the lowest identity in comparison with classical strains is highlighted in orange and green respectively. Identity score in comparison to circulating human strains from India are highlighted in red (NT-Nucleotide identity, AA-Amino Acid identity in percentage). Additional file 8: Table S8. Observed sequence identities of the protein coding sequences of VP4 and VP7 genes of Wa-like strains compared with reference strains from GenBank. The highest and the lowest identity in comparison with reference strains is highlighted in orange and green respectively. (NT-Nucleotide identity, AA-Amino Acid identity in percentage). Additional file 9: Table S9. Observed sequence identities of the protein coding sequences of DS-1-like strains compared with reference strains from GenBank. The highest and the lowest identity in comparison with classical strains is highlighted in orange and green respectively. Identity score in comparison to circulating human strains from India are highlighted in red (NT-Nucleotide identity, AA-Amino Acid identity in percentage).