Table 1.
Nucleotide identities (%) for full-length genome (nt) and IR and amino acid (aa) sequence identities (%) for ORFs of two begomoviruses associated with RaLCD in India and selected previously characterized begomoviruses
| Begomoviruses | DNA-A | Rep | TrAP | REn | AC4 | CP | AV2 | ICR |
|---|---|---|---|---|---|---|---|---|
| RaLCV-[IN:Var:05] | ||||||||
| ToLCBDV-[BD:2] | 87.7 | 84.8 | 80.6 | 86.6 | 54.6 | 94.1 | 98.8 | 75.3 |
| TbCSV-[CN:Yn35:01] | 87.0 | 84.5 | 87.3 | 88.1 | 50.5 | 93.9 | 99.2 | 71.2 |
| AEV-[NP:01] | 86.9 | 84.5 | 85.8 | 88.1 | 65.9 | 93.9 | 98.4 | 74.0 |
| TbCSV-[CN:Yn282:Age:03] | 86.9 | 83.9 | 88.1 | 88.1 | 48.0 | 93.0 | 99.2 | 71.2 |
| PaLCuV-IN[IN:Luc] | 86.4 | 73.6 | 96.3 | 97.0 | 44.7 | 91.5 | 97.7 | 58.0 |
| CLCuKV-Man[PK:M806b:96] | 85.8 | 87.5 | 84.3 | 82.8 | 66.0 | 96.6 | 98.8 | 40.2 |
| EuLCV-[CN:Gx35:02] | 85.7 | 90.0 | 82.1 | 88.1 | 86.5 | 78.0 | 93.8 | 69.7 |
| ChiLCV-IN[IN::05] | 84.0 | 86.4 | 82.1 | 73.1 | 52.9 | 98.8 | 89.3 | 75.3 |
| ChiLCV-Mul[PK:Mul:98] | 83.0 | 84.5 | 79.4 | 80.6 | 53.6 | 87.3 | 96.1 | 64.4 |
| ToLCGV-[IN:Var:01] | 80.7 | 83.1 | 79.9 | 77.6 | 51.0 | 86.1 | 80.9 | 68.4 |
| CYVMV-[IN] | 80.4 | 75.9 | 83.6 | 87.3 | 48.2 | 87.3 | 83.2 | 59.1 |
| BYVMV-IN[IN:Mad] | 74.9 | 81.2 | 64.9 | 67.9 | 69.6 | 70.3 | 93.4 | 38.7 |
| ToLCNDV-IN[IN:ND:Svr:92] | 74.2 | 77.8 | 60.4 | 66.4 | 62.1 | 73.2 | 93.0 | 60.0 |
| SLCCNV-IN[IN:Luc:Pum] | 73.6 | 75.6 | 57.5 | 64.8 | 53.5 | 71.4 | 93.0 | 40.3 |
| MYMIV-[IN:ND:Bg3:91] | 63.5 | 70.6 | 52.2 | 40.2 | 45.5 | 50.0 | 72.2 | 10.9 |
| CYVMV-[IN:Pat:Rad:08] | ||||||||
| RaLCV | 79.6 | 75.6 | 82.8 | 89.6 | 44.7 | 83.2 | 87.3 | 71.6 |
| ToLCBDV-[BD:2] | 80.1 | 77.0 | 85.8 | 84.3 | 54.6 | 82.8 | 91.5 | 67.5 |
| TbCSV-[CN:Yn35:01] | 80.0 | 76.7 | 77.6 | 85.1 | 35.3 | 83.2 | 92.2 | 71.3 |
| AEV-[NP:01] | 80.9 | 77.8 | 79.9 | 86.6 | 52.9 | 82.4 | 91.3 | 70.5 |
| TbCSV-[CN:Yn282:Age:03] | 79.9 | 76.2 | 78.4 | 85.1 | 34.1 | 83.2 | 91.3 | 71.3 |
| PaLCuV-IN[IN:Luc] | 86.0 | 92.2 | 81.3 | 88.1 | 95.3 | 82.4 | 97.7 | 59.7 |
| CLCuKV-Man[PK:M806b:96] | 78.1 | 75.0 | 86.6 | 87.3 | 44.7 | 83.6 | 98.8 | 54.5 |
| EuLCV-[CN:Gx35:02] | 78.1 | 77.7 | 85.8 | 88.8 | 45.9 | 79.7 | 72.9 | 73.3 |
| ChiLCV-IN[IN::05] | 78.4 | 77.3 | 82.1 | 77.6 | 35.3 | 82.4 | 89.0 | 70.1 |
| ChiLCV-Mul[PK:Mul:98] | 78.3 | 76.5 | 82.4 | 84.3 | 31.8 | 82.0 | 83.1 | 74.6 |
| ToLCGV-[IN:Var:01] | 80.5 | 76.5 | 83.6 | 81.3 | 35.3 | 96.5 | 85.2 | 66.9 |
| CYVMV-[IN] | 95.8 | 94.7 | 96.3 | 93.3 | 90.6 | 100 | 98.3 | 94.4 |
| BYVMV-IN[IN:Mad] | 71.3 | 70.0 | 64.2 | 71.6 | 40.0 | 80.5 | 66.9 | 54.2 |
| ToLCNDV-IN[IN:ND:Svr:92] | 71.5 | 69.5 | 64.9 | 64.2 | 34.5 | 82.8 | 68.8 | 64.2 |
| SLCCNV-IN[IN:Var:Pum] | 70.8 | 67.3 | 60.4 | 68.0 | 37.9 | 81.2 | 67.0 | 61.5 |
| MYMIV-[IN:ND:Bg3:91] | 62.0 | 65.8 | 50.0 | 40.2 | 30.6 | 74.1 | 47.3 | 46.2 |
*Identity over 80% is Bold