Author: Timokratis Karamitros; Gethsimani Papadopoulou; Maria Bousali; Anastasios Mexias; Sotiris Tsiodras; Andreas Mentis
Title: SARS-CoV-2 exhibits intra-host genomic plasticity and low-frequency polymorphic quasispecies Document date: 2020_3_28
ID: jxm69ndw_15
Snippet: Intra-host variants were distributed across 7 out of the 10 protein-coding genes of the viral genome, namely ORF1ab, S, ORF3a, ORF6, ORF7a, ORF8 and N. After normalising for the gene length (variants / kb-gene-length -"v/kbgl"), the higher density was observed in the small ORF6 (16.21 v/kbgl), followed by ORF8 (8.21 v/kbgl), N (4.76 v/kbgl), S (4.18 v/kbgl), ORF1ab (3.47 v/kbgl), ORF7a (2.73 v/kbgl) and ORF3a (1.21 v/kbgl). Interestingly, the maj.....
Document: Intra-host variants were distributed across 7 out of the 10 protein-coding genes of the viral genome, namely ORF1ab, S, ORF3a, ORF6, ORF7a, ORF8 and N. After normalising for the gene length (variants / kb-gene-length -"v/kbgl"), the higher density was observed in the small ORF6 (16.21 v/kbgl), followed by ORF8 (8.21 v/kbgl), N (4.76 v/kbgl), S (4.18 v/kbgl), ORF1ab (3.47 v/kbgl), ORF7a (2.73 v/kbgl) and ORF3a (1.21 v/kbgl). Interestingly, the majority of the SNPs corresponded to missense changes (leading to amino-acid change) compared to synonymous changes (72 vs. 29 respectively, ratio 2.48:1) ( Table 1) . The average intra-host variant frequency did not differ substantially either between missense and synonymous polymorphisms (Figure 1 .C), neither between their hosting genes (Figure 1
Search related documents:
Co phrase search for related documents- amino acid and high density: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15
- amino acid and host gene: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39
- amino acid and intra host: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10
- amino acid and kb gene: 1, 2, 3, 4
- amino acid and kb gene length: 1, 2
- amino acid and protein code: 1, 2, 3, 4, 5, 6
- amino acid and protein code gene: 1
- amino acid and synonymous missense: 1, 2, 3, 4, 5, 6, 7
- amino acid and variant frequency: 1, 2, 3, 4, 5, 6
- amino acid and viral genome: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76
- amino acid change and high density: 1
- amino acid change and viral genome: 1, 2, 3, 4, 5
- amino acid change lead and viral genome: 1
- gene length and host gene: 1, 2, 3, 4, 5
- gene length and kb gene: 1, 2, 3, 4, 5, 6
- gene length and kb gene length: 1, 2, 3, 4, 5
- gene length and viral genome: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12
- high density and host gene: 1
- high density and protein code: 1
Co phrase search for related documents, hyperlinks ordered by date