Table 4.
Molecular evolution ratesa among LACV isolates and NSm genes from SI+ and I+ mosquitoes.
| Domain | Sites | S | Hap | ηε | π | πσ | πα | πα/πσ | θ | F* |
|---|---|---|---|---|---|---|---|---|---|---|
| S segment | ||||||||||
| SI+ isolates | ||||||||||
| 5' S non-coding (nt 1-81) | 81 | 2 | 3 | 0 | 0.0124 | 0.96 | 0.2386 | |||
| Nucleocapsid (nt 82-789) | 708 | 11 | 4 | 2 | 0.0088 | 0.0378 | 0.0000 | - | 5.28 | 1.3261 |
| NSs (nt 102-379) | 278 | 0 | 1 | 1 | 0.0000 | 0.0000 | 0.0000 | - | 0.01 | - |
| 3' S non-coding (nt 787-984) | 195 | 5 | 4 | 2 | 0.0133 | 2.40 | 0.5779 | |||
| All | 984 | 18 | 11 | 5 | 0.0100 | 8.64 | 1.0574 | |||
| Previous isolates | ||||||||||
| 5' | 1 | 2 | 1 | 0.0059 | 0.48 | -0.7715 | ||||
| Nucleocapsid | 13 | 3 | 11 | 0.0088 | 0.0378 | 0.0000 | - | 6.24 | -0.7910 | |
| NSs | 1 | 2 | 0 | 0.0017 | 0.0108 | 0.0000 | - | 0.48 | 1.1573 | |
| 3' | 9 | 3 | 9 | 0.0222 | 4.32 | -1.2451 | ||||
| All | 23 | 4 | 21 | 0.0098 | 11.04 | -1.0400 | ||||
| M segment | ||||||||||
| SI+ isolates | ||||||||||
| 5' M non-coding (nt 1 - 61) | 61 | 1 | 2 | 0 | 0.0094 | 0.41 | 1.1015 | |||
| G2 (nt 62-961) | 900 | 44 | 4 | 3 | 0.0267 | 0.1007 | 0.0041 | 0.0411 | 17.96 | 1.7100* |
| NSm (nt 962-1483) | 522 | 37 | 4 | 1 | 0.0400 | 0.1626 | 0.0056 | 0.0344 | 15.10 | 1.8884** |
| G1(nt 1484-4388) | 2905 | 190 | 7 | 25 | 0.0346 | 0.1406 | 0.0041 | 0.0292 | 77.55 | 1.4902 |
| 3' M non-coding (nt 4389-4526) | 138 | 17 | 6 | 7 | 0.0549 | 6.94 | 0.3115 | |||
| Total | 4526 | 289 | 7 | 36 | 0.0339 | 117.96 | 1.5238 | |||
| Previous Isolates | ||||||||||
| 5' | 3 | 3 | 3 | 0.0089 | 1.02 | -2.0309 | ||||
| G2 | 104 | 8 | 79 | 0.0287 | 0.1040 | 0.0060 | 0.0574 | 36.87 | -1.7512 | |
| NSm | 80 | 8 | 57 | 0.0373 | 0.1303 | 0.0111 | 0.0851 | 28.00 | -1.6129 | |
| G1 | 421 | 9 | 296 | 0.0361 | 0.1378 | 0.0068 | 0.0492 | 145.79 | -1.5991 | |
| 3' | 14 | 5 | 13 | 0.0225 | 5.12 | -2.1718 | ||||
| 622 | 9 | 448 | 0.0340 | 216.80 | -1.6626 | |||||
| L segment | ||||||||||
| SI+ isolates | ||||||||||
| 5' L non-coding (nt 1-61) | 61 | 2 | 3 | 0 | 0.0197 | 0.96 | 1.4316 | |||
| RNA polymerase (nt 5572-12360) | 6789 | 249 | 5 | 79 | 0.0197 | 0.0878 | 0.0016 | 0.0179 | 119.52 | 0.9799 |
| 3' non-coding (nt 12361-12490) | 131 | 6 | 4 | 3 | 0.0260 | 3.36 | 0.4325 | |||
| Total | 6980 | 257 | 5 | 82 | 0.0198 | 123.84 | 0.9754 | |||
| Previous isolates | ||||||||||
| 5' | 4 | 4 | 3 | 0.0295 | 1.92 | -0.4175 | ||||
| RNA polymerase | 398 | 5 | 288 | 0.0270 | 0.1204 | 0.0021 | 0.0177 | 192.96 | -0.4076 | |
| 3' | 6 | 5 | 2 | 0.0244 | 2.88 | 0.7913 | ||||
| Total | 408 | 5 | 293 | 0.0270 | 197.76 | -0.3893 | ||||
| NSm gene | ||||||||||
| SI+ mosquitoes | 522 | 37 | 3 | 0 | 0.0308 | 0.1257 | 0.0042 | 0.0334 | 16.0710 | 1.5685* |
| I+ mosquitoes | 5 | 5 | 4 | 0.0037 | 0.0140 | 0.0008 | 0.0587 | 1.9330 | -0.8121 | |
a Sites = number of nucleotides in each gene or segment region. S = number of segregating sites. Hap = number of distinct haplotypes. ηe = number of singletons, π = nucleotide diversity, the average number of nucleotide differences per site between two sequences, πs = nucleotide diversity among synonymous sites, πs = nucleotide diversity among replacement sites, θ = E(π expected number of pairwise differences in S, F* = Fu and Li (1993). * |F*| > 0 with probability of 0.05, ** |F*| > 0 with probability of 0.01