TABLE 2.
Nucleotide substitution rate estimates for the overlapping and nonoverlapping regions of the P0 and RdRp genes, and the CP and MP genes of Luteoviridae species
| Virusa | Parameter | P0, nonoverlapping region | P0/RdRp |
CP, nonoverlapping region | CP/MP, overlapping region | |
|---|---|---|---|---|---|---|
| Overlapping region | Nonoverlapping region | |||||
| BYDV (L) | Length (nt) | 141 | 462 | |||
| Sub rateb (HPD)c | 1.9 × 10−2 (3.4 × 10−3-4.2 × 10−2) | 7.6 × 10−4 (4.6 × 10−4-1.1 × 10−3) | ||||
| SbDV (L) | Length (nt) | 33 | 570 | |||
| Sub rate (HPD) | 2.9 × 10−3 (9.4 × 10−5-7.1 × 10−3) | 5.9 × 10−4 (3.2 × 10−4-8.7 × 10−4) | ||||
| BChV (P) | Length (nt) | 136 | 612 | 2,834 | 81 | 528 |
| Sub rate (HPD) | 1.1 × 10−3 (9.2 × 10−4-2.1 × 10−2) | 5.2 × 10−3 (1.0 × 10−3-8.7 × 10−3) | 2.2 × 10−3 2.1 × 10−4-3.9 × 10−3) | NDd | 2.5 × 10−3 (3.2 × 10−4-4.5 × 10−3) | |
| BMYV (P) | Length (nt) | 124 | 596 | 2,649 | 81 | 528 |
| Sub rate (HPD) | 8.3 × 10−4 (1.1 × 10−4-1.6 × 10−3) | 4.3 × 10−4 (2.5 × 10−5-8.6 × 10−4) | ND | 6.0 × 10−3 (3.3 × 10−4-1.0 × 10−2) | 5.3 × 10−5e (4.4 × 10−8-1.5 × 10−4) | |
| CABYV (P) | Length (nt) | 121 | 595 | 2,568 | 28 | 575 |
| Sub rate (HPD) | ND | ND | ND | ND | 3.2 × 10−2 (6.2 × 10−3-6.7 × 10−2) | |
| CYDV (P) | Length (nt) | 151 | 619 | 2,616 | 153 | 462 |
| Sub rate (HPD) | ND | ND | ND | 1.9 × 10−2 (3.4 × 10−3-4.2 × 10−2) | 2.3 × 10−3 1.2 × 10−3-3.3 × 10−3) | |
| PLRV (P) | Length (nt) | 133 | 611 | 2,577 | 156 | 471 |
| Sub rate (HPD) | 1.3 × 10−4e (5.2 × 10−9-3.7 × 10−4) | 1.1 × 10−4e (1.9 × 10−9-2.9 × 10−4) | 5.4 × 10−5e (8.8 × 10−10-1.8 × 10−4) | 5.5 × 10−4 (2.2 × 10−4-9.2 × 10−4) | 1.8 × 10−4e (9.7 × 10−8-3.2 × 10−4) | |
| ScYLV (P) | Length (nt) | 175 | 596 | 2,616 | 138 | 453 |
| Sub rate (HPD) | 3.8 × 10−2 (1.0 × 10−3-8.6 × 10−2) | 4.7 × 10−4 (1.6 × 10−5-1.0 × 10−3) | 3.7 × 10−4 (1.9 × 10−4-5.9 × 10−3) | 2.3 × 10−3 (8.2 × 10−4-3.9 × 10−3) | 9.2 × 10−4 (4.1 × 10−4-1.4 × 10−3) | |
| TuYV (P) | Length (nt) | 142 | 608 | 2,499 | 81 | 528 |
| Sub rate (HPD) | 3.5 × 10−3 (6.6 × 10−4-6.7 × 10−3) | 4.8 × 10−3 (5.8 × 10−4-9.0 × 10−3) | 2.2 × 10−3 (8.5 × 10−4-5.3 × 10−3) | 2.6 × 10−3 (4.8 × 10−4-5.6 × 10−3) | 8.6 × 10−4 (4.2 × 10−4-1.3 × 10−3) | |
a
Virus species. The genus is indicated in parentheses (L, Luteovirus; P, Polerovirus).
b
Sub rate, nucleotide substitution rate (subs/site/year).
c
95% HPD value.
d
ND, not determined due to a lack of a sufficient number of sequences or too-short fragments.
e
Unreliable estimate.