Table 3.
Tests of geography–phylogeny association for P1 and CP genes in PVY isolates originated from China and Japan
| Gene | Country | Statistic | Isolates | Observed mean (95% HPD) | Null mean (95% HPD) | Significance |
|---|---|---|---|---|---|---|
| P1 | AI | 0.06 (0.02, 0.19) | 4.61 (3.72, 5.35) | <.001*** | ||
| PS | 3.15 (3.00, 4.00) | 26.79 (23.77, 29.41) | <.001*** | |||
| China | 51 | 30.71 (28.00, 31.00) | 4.75 (3.31, 7.16) | .01** | ||
| MC (Guizhou) | 2 | 1.44 (1.00, 2.00) | 1.01 (1.00, 1.05) | 1.00ns | ||
| MC (Heilongjiang) | 2 | 2.00 (2.00. 2.00) | 1.01 (1.00, 1.03) | .02* | ||
| MC (Henan) | 1 | n/a | n/a | n/a | ||
| MC (Hunan) | 20 | 6.00 (6.00, 6.00) | 1.98 (1.46, 2.54) | .02* | ||
| MC (Fujian) | 17 | 5.80 (4.00, 6.00) | 1.78 (1.33, 2.27) | .01** | ||
| MC (Hebei) | 7 | 3.91 (2.00, 4.00) | 1.16 (1.00, 1.75) | .01** | ||
| MC (Shaanxi) | 2 | 1.00 (1.00, 1.00) | 1.00 (1.00, 1.03) | 1.00ns | ||
| Japan | 34 | 23.42 (17.00, 24.00) | 2.82 (2.22, 3.82) | .01** | ||
| MC (Kyushu) | 18 | 3.58 (2.00, 6.00) | 1.88 (1.32, 2.84) | .05* | ||
| MC (Okinawa) | 3 | 1.14 (1.00, 2.00) | 1.04 (1.00, 1.15) | 1.00ns | ||
| MC (Hokkaido) | 7 | 2.61 (1.00, 4.00) | 1.18 (1.00, 2.00) | .07ns | ||
| MC (Honshu) | 6 | 2.00 (2.00, 6.00) | 1.09 (1.00, 1.30) | .02* | ||
| CP | AI | 0.14 (0.08, 0.35) | 4.90 (4.10, 6.65) | <.001*** | ||
| PS | 3.85 (3.00, 4.00) | 27.13 (24.76, 28.65) | <.001*** | |||
| China | 95 | 74.29 (55.00, 82.00) | 8.49 (6.18, 11.33) | .01** | ||
| MC (Guizhou) | 2 | 1.00 (1.00, 1.00) | 1.00 (1.00, 1.00) | 1.00ns | ||
| MC (Shandong) | 7 | 1.65 (1.00, 2.00) | 1.11 (1.00, 1.55) | .03* | ||
| MC (Henan) | 2 | 1.00 (1.00, 1.00) | 1.00 (1.00, 1.00) | 1.00ns | ||
| MC (Hunan) | 24 | 2.48 (2.00, 4.00) | 1.98 (1.55, 2.41) | .43ns | ||
| MC (Fujian) | 45 | 7.23 (7.00, 9.00) | 2.87 (2.21, 3.66) | .01** | ||
| MC (Hebei) | 12 | 2.19 (2.00, 3.00) | 1.27 (1.01, 1.99) | .05* | ||
| MC (Shaanxi) | 3 | 1.40 (1.00, 2.00) | 1.01 (1.00, 1.04) | 1.00ns | ||
| Japan | 30 | 22.83 (22.00, 23.00) | 2.19 (1.75, 3.05) | .01** | ||
| MC (Kyshu) | 17 | 3.11 (2.00, 5.00) | 1.58 (1.14, 2.13) | .02* | ||
| MC (Okinawa) | 3 | 1.12 (1.00, 2.00) | 1.01 (1.00, 1.04) | 1.00ns | ||
| MC (Hokkaido) | 6 | 2.26 (2.00, 3.00) | 1.05 (1.00, 1.14) | 1.00ns | ||
| MC (Honshu) | 4 | 2.00 (2.00, 2.00) | 1.02 (1.00, 1.12) | .02* |
AI, association index; PS, parsimony score; MC, maximum monophyletic clade; HPD, highest probability density interval; n/a: no data available because of insufficient sample size (n < 2).
Significance thresholds: *.01 < p < .05; **.001 < p < .01; *** p < .001.