Biodiv Sci ›› 2021, Vol. 29 ›› Issue (12): 1629-1637. DOI: 10.17520/biods.2021341
• Original Papers:Plant Diversity • Previous Articles Next Articles
Received:
2021-08-30
Accepted:
2021-11-19
Online:
2021-12-20
Published:
2021-12-16
Contact:
Bin Tian
Junwei Ye, Bin Tian. Genetic structure and its causes of an important woody oil plant in Southwest China, Prinsepia utilis (Rosaceae)[J]. Biodiv Sci, 2021, 29(12): 1629-1637.
代号 Code | 地点 Site | 经纬度 Location | 海拔 Altitude (m) | n | AO | HE | HO | RS | PAR | FIS |
---|---|---|---|---|---|---|---|---|---|---|
BAZY | 云南昆明 Kunming, Yunnan | 102.72˚ E, 25.40˚ N | 2,370 | 9 | 20 | 0.45 | 0.63 | 2.45 | 0.01 | -0.35 |
BBM | 西藏波密 Bomi, Xizang | 95.34˚ E, 29.99˚ N | 2,750 | 14 | 22 | 0.54 | 0.76 | 2.61 | 0 | -0.37 |
BDC | 四川稻城 Daocheng, Sichuan | 100.30˚ E, 28.58˚ N | 3,310 | 12 | 21 | 0.46 | 0.62 | 2.55 | 0.12 | -0.31 |
BDCQ | 云南会泽 Huize, Yunnan | 103.10˚ E, 25.94˚ N | 2,220 | 10 | 22 | 0.48 | 0.67 | 2.74 | 0.07 | -0.35 |
BES | 云南峨山 E’shan, Yunnan | 102.11˚ E, 24.28˚ N | 2,060 | 6 | 15 | 0.38 | 0.62 | - | - | -0.58 |
BHD | 四川会东 Huidong, Sichuan | 102.78˚ E, 26.55˚ N | 2,370 | 14 | 22 | 0.47 | 0.65 | 2.61 | 0 | -0.36 |
BHQ | 云南鹤庆 Heqing, Yunnan | 100.18˚ E, 26.56˚ N | 2,200 | 15 | 27 | 0.64 | 0.86 | 3.28 | 0 | -0.31 |
BJL | 西藏吉隆 Jilong, Xizang | 85.36˚ E, 28.39˚ N | 3,140 | 12 | 19 | 0.46 | 0.65 | 2.40 | 0.03 | -0.38 |
BJP | 云南澄江 Chengjiang, Yunnan | 102.86˚ E, 24.73˚ N | 2,180 | 15 | 25 | 0.58 | 0.81 | 2.93 | 0 | -0.38 |
BLD | 云南玉龙 Yulong, Yunnan | 99.46˚ E, 27.18˚ N | 2,630 | 16 | 21 | 0.56 | 0.88 | 2.59 | 0 | -0.54 |
BLJ | 云南丽江 Lijiang, Yunnan | 100.23˚ E, 27.18˚ N | 3,650 | 5 | 19 | 0.52 | 0.78 | - | - | -0.47 |
BLJS | 云南老君山 Laojun Mountains, Yunnan | 103.93˚ E, 23.30˚ N | 1,640 | 15 | 25 | 0.55 | 0.84 | 2.83 | 0 | -0.51 |
BLJW | 贵州安顺 Anshun, Guizhou | 105.94˚ E, 26.25˚ N | 1,400 | 15 | 23 | 0.49 | 0.69 | 2.63 | 0.10 | -0.36 |
BLLX | 贵州龙里 Longli, Guizhou | 106.90˚ E, 26.43˚ N | 1,150 | 10 | 18 | 0.45 | 0.61 | 2.30 | 0 | -0.37 |
BLP | 云南兰坪 Lanping, Yunnan | 99.42˚ E, 26.46˚ N | 2,540 | 12 | 24 | 0.61 | 0.98 | 2.93 | 0 | -0.57 |
BMG | 云南马关 Maguan, Yunnan | 104.39˚ E, 23.02˚ N | 1,340 | 12 | 24 | 0.53 | 0.79 | 2.80 | 0.02 | -0.45 |
BML | 四川木里 Muli, Sichuan | 101.25˚ E, 27.97˚ N | 2,500 | 12 | 26 | 0.61 | 0.96 | 3.05 | 0.19 | -0.55 |
BNH | 云南南华 Nanhua, Yunnan | 101.01˚ E, 25.33˚ N | 2,320 | 9 | 21 | 0.52 | 0.75 | 2.73 | 0 | -0.39 |
BQJ | 云南曲靖 Qujing, Yunnan | 103.91˚ E, 25.36˚ N | 1,900 | 8 | 20 | 0.49 | 0.74 | - | - | -0.44 |
BQL | 贵州贵阳 Guiyang, Guizhou | 106.69˚ E, 26.60˚ N | 1,160 | 6 | 17 | 0.45 | 0.60 | - | - | -0.24 |
BSZ | 云南师宗 Shizong, Yunnan | 103.98˚ E, 24.82˚ N | 1,870 | 12 | 25 | 0.52 | 0.71 | 2.91 | 0.03 | -0.34 |
BTM | 西藏林芝 Linzhi, Xizang | 96.58˚ E, 30.50˚ N | 4,720 | 15 | 25 | 0.59 | 0.85 | 2.83 | 0.09 | -0.41 |
BWM | 云南禄劝 Luquan, Yunnan | 102.83˚ E, 26.02˚ N | 2,760 | 14 | 22 | 0.47 | 0.69 | 2.49 | 0 | -0.46 |
BWN | 贵州威宁 Weining, Guizhou | 104.11˚ E, 26.74˚ N | 2,450 | 13 | 24 | 0.48 | 0.68 | 2.61 | 0 | -0.38 |
BWX | 云南维西 Weixi, Yunnan | 99.02˚ E, 27.80˚ N | 2,290 | 9 | 24 | 0.59 | 0.87 | 2.97 | 0.05 | -0.43 |
BXC | 四川西昌 Xichang, Sichuan | 102.35˚ E, 27.70˚ N | 2,680 | 11 | 20 | 0.39 | 0.57 | 2.38 | 0.03 | -0.41 |
BXCX | 云南西畴 Xichou, Yunnan | 104.79˚ E, 23.38˚ N | 1,450 | 9 | 25 | 0.53 | 0.75 | 2.86 | 0 | -0.37 |
BXJ | 云南文山新街 Xinjie, Wenshan, Yunnan | 104.00˚ E, 23.20˚ N | 1,880 | 15 | 23 | 0.53 | 0.81 | 2.76 | 0 | -0.49 |
BXZC | 云南开远 Kaiyuan, Yunnan | 103.62˚ E, 23.79˚ N | 1,480 | 10 | 21 | 0.54 | 0.80 | 2.77 | 0 | -0.43 |
BYG | 西藏波密 Bomi, Xizang | 95.57˚ E, 30.50˚ N | 5,230 | 15 | 22 | 0.58 | 0.88 | 2.79 | 0.01 | -0.48 |
BYXB | 四川越西 Yuexi, Sichuan | 102.45˚ E, 28.76˚ N | 2,970 | 12 | 16 | 0.39 | 0.60 | 2.12 | 0 | -0.49 |
BZNX | 云南文山 Wenshan, Yunnan | 104.42˚ E, 23.69˚ N | 1,570 | 15 | 25 | 0.55 | 0.81 | 2.97 | 0 | -0.45 |
Table 1 Sampling and genetic diversity information of Prinsepia utilis
代号 Code | 地点 Site | 经纬度 Location | 海拔 Altitude (m) | n | AO | HE | HO | RS | PAR | FIS |
---|---|---|---|---|---|---|---|---|---|---|
BAZY | 云南昆明 Kunming, Yunnan | 102.72˚ E, 25.40˚ N | 2,370 | 9 | 20 | 0.45 | 0.63 | 2.45 | 0.01 | -0.35 |
BBM | 西藏波密 Bomi, Xizang | 95.34˚ E, 29.99˚ N | 2,750 | 14 | 22 | 0.54 | 0.76 | 2.61 | 0 | -0.37 |
BDC | 四川稻城 Daocheng, Sichuan | 100.30˚ E, 28.58˚ N | 3,310 | 12 | 21 | 0.46 | 0.62 | 2.55 | 0.12 | -0.31 |
BDCQ | 云南会泽 Huize, Yunnan | 103.10˚ E, 25.94˚ N | 2,220 | 10 | 22 | 0.48 | 0.67 | 2.74 | 0.07 | -0.35 |
BES | 云南峨山 E’shan, Yunnan | 102.11˚ E, 24.28˚ N | 2,060 | 6 | 15 | 0.38 | 0.62 | - | - | -0.58 |
BHD | 四川会东 Huidong, Sichuan | 102.78˚ E, 26.55˚ N | 2,370 | 14 | 22 | 0.47 | 0.65 | 2.61 | 0 | -0.36 |
BHQ | 云南鹤庆 Heqing, Yunnan | 100.18˚ E, 26.56˚ N | 2,200 | 15 | 27 | 0.64 | 0.86 | 3.28 | 0 | -0.31 |
BJL | 西藏吉隆 Jilong, Xizang | 85.36˚ E, 28.39˚ N | 3,140 | 12 | 19 | 0.46 | 0.65 | 2.40 | 0.03 | -0.38 |
BJP | 云南澄江 Chengjiang, Yunnan | 102.86˚ E, 24.73˚ N | 2,180 | 15 | 25 | 0.58 | 0.81 | 2.93 | 0 | -0.38 |
BLD | 云南玉龙 Yulong, Yunnan | 99.46˚ E, 27.18˚ N | 2,630 | 16 | 21 | 0.56 | 0.88 | 2.59 | 0 | -0.54 |
BLJ | 云南丽江 Lijiang, Yunnan | 100.23˚ E, 27.18˚ N | 3,650 | 5 | 19 | 0.52 | 0.78 | - | - | -0.47 |
BLJS | 云南老君山 Laojun Mountains, Yunnan | 103.93˚ E, 23.30˚ N | 1,640 | 15 | 25 | 0.55 | 0.84 | 2.83 | 0 | -0.51 |
BLJW | 贵州安顺 Anshun, Guizhou | 105.94˚ E, 26.25˚ N | 1,400 | 15 | 23 | 0.49 | 0.69 | 2.63 | 0.10 | -0.36 |
BLLX | 贵州龙里 Longli, Guizhou | 106.90˚ E, 26.43˚ N | 1,150 | 10 | 18 | 0.45 | 0.61 | 2.30 | 0 | -0.37 |
BLP | 云南兰坪 Lanping, Yunnan | 99.42˚ E, 26.46˚ N | 2,540 | 12 | 24 | 0.61 | 0.98 | 2.93 | 0 | -0.57 |
BMG | 云南马关 Maguan, Yunnan | 104.39˚ E, 23.02˚ N | 1,340 | 12 | 24 | 0.53 | 0.79 | 2.80 | 0.02 | -0.45 |
BML | 四川木里 Muli, Sichuan | 101.25˚ E, 27.97˚ N | 2,500 | 12 | 26 | 0.61 | 0.96 | 3.05 | 0.19 | -0.55 |
BNH | 云南南华 Nanhua, Yunnan | 101.01˚ E, 25.33˚ N | 2,320 | 9 | 21 | 0.52 | 0.75 | 2.73 | 0 | -0.39 |
BQJ | 云南曲靖 Qujing, Yunnan | 103.91˚ E, 25.36˚ N | 1,900 | 8 | 20 | 0.49 | 0.74 | - | - | -0.44 |
BQL | 贵州贵阳 Guiyang, Guizhou | 106.69˚ E, 26.60˚ N | 1,160 | 6 | 17 | 0.45 | 0.60 | - | - | -0.24 |
BSZ | 云南师宗 Shizong, Yunnan | 103.98˚ E, 24.82˚ N | 1,870 | 12 | 25 | 0.52 | 0.71 | 2.91 | 0.03 | -0.34 |
BTM | 西藏林芝 Linzhi, Xizang | 96.58˚ E, 30.50˚ N | 4,720 | 15 | 25 | 0.59 | 0.85 | 2.83 | 0.09 | -0.41 |
BWM | 云南禄劝 Luquan, Yunnan | 102.83˚ E, 26.02˚ N | 2,760 | 14 | 22 | 0.47 | 0.69 | 2.49 | 0 | -0.46 |
BWN | 贵州威宁 Weining, Guizhou | 104.11˚ E, 26.74˚ N | 2,450 | 13 | 24 | 0.48 | 0.68 | 2.61 | 0 | -0.38 |
BWX | 云南维西 Weixi, Yunnan | 99.02˚ E, 27.80˚ N | 2,290 | 9 | 24 | 0.59 | 0.87 | 2.97 | 0.05 | -0.43 |
BXC | 四川西昌 Xichang, Sichuan | 102.35˚ E, 27.70˚ N | 2,680 | 11 | 20 | 0.39 | 0.57 | 2.38 | 0.03 | -0.41 |
BXCX | 云南西畴 Xichou, Yunnan | 104.79˚ E, 23.38˚ N | 1,450 | 9 | 25 | 0.53 | 0.75 | 2.86 | 0 | -0.37 |
BXJ | 云南文山新街 Xinjie, Wenshan, Yunnan | 104.00˚ E, 23.20˚ N | 1,880 | 15 | 23 | 0.53 | 0.81 | 2.76 | 0 | -0.49 |
BXZC | 云南开远 Kaiyuan, Yunnan | 103.62˚ E, 23.79˚ N | 1,480 | 10 | 21 | 0.54 | 0.80 | 2.77 | 0 | -0.43 |
BYG | 西藏波密 Bomi, Xizang | 95.57˚ E, 30.50˚ N | 5,230 | 15 | 22 | 0.58 | 0.88 | 2.79 | 0.01 | -0.48 |
BYXB | 四川越西 Yuexi, Sichuan | 102.45˚ E, 28.76˚ N | 2,970 | 12 | 16 | 0.39 | 0.60 | 2.12 | 0 | -0.49 |
BZNX | 云南文山 Wenshan, Yunnan | 104.42˚ E, 23.69˚ N | 1,570 | 15 | 25 | 0.55 | 0.81 | 2.97 | 0 | -0.45 |
Fig. 1 Color-coded clustering (a) and histogram of the cluster assignment of different individuals (b) of the 32 Prinsepia utilis populations when K = 4. Blue represents Himalayas group, green represents Hengduan Mountains group, red and orange represent west and east Yunnan-Guizhou Plateau group, respectively. Population codes are the same as that in Table 1.
遗传群组 Genetic cluster | 等位基因数量 AO | 观测杂合度 HO | 期望杂合度 HE | 等位基因丰富度 RS | 私有等位基因丰富度 PAR |
---|---|---|---|---|---|
喜马拉雅 Himalayas | 30 | 0.79 | 0.62 | 3.18 | 0.70 |
横断山 Hengduan Mountains | 35 | 0.86 | 0.65 | 3.39 | 0.53 |
云贵高原西部 West Yunnan-Guizhou Plateau | 36 | 0.73 | 0.56 | 3.04 | 0.19 |
云贵高原东部 East Yunnan-Guizhou Plateau | 26 | 0.65 | 0.50 | 2.69 | 0.24 |
Table 2 Genetic diversity of different genetic cluster of Prinsepia utilis
遗传群组 Genetic cluster | 等位基因数量 AO | 观测杂合度 HO | 期望杂合度 HE | 等位基因丰富度 RS | 私有等位基因丰富度 PAR |
---|---|---|---|---|---|
喜马拉雅 Himalayas | 30 | 0.79 | 0.62 | 3.18 | 0.70 |
横断山 Hengduan Mountains | 35 | 0.86 | 0.65 | 3.39 | 0.53 |
云贵高原西部 West Yunnan-Guizhou Plateau | 36 | 0.73 | 0.56 | 3.04 | 0.19 |
云贵高原东部 East Yunnan-Guizhou Plateau | 26 | 0.65 | 0.50 | 2.69 | 0.24 |
Fig. 2 Principal component analysis of climate variables of 32 Prinsepia utilis populations. Coded colors of different genetic clusters correspond to those in Fig. 1.
Fig. 3 Illustration of three different scenarios of divergence history of Prinsepia utilis populations. n1-4 represent effective population sizes of Himalayas, Hengduan Mountains, west and east Yunnan-Guizhou Plateau genetic groups, respectively; t1-3 represent divergence time of different divergence events (in generations); and PP represents posterior probability.
n1 | n2 | n3 | n4 | T1 | T2 | T3 | μ | P | |
---|---|---|---|---|---|---|---|---|---|
中位值 Median | 6.84×104 | 6.30×104 | 5.84×104 | 3.90×104 | 8.53×104 | 1.25×105 | 5.11×105 | 4.30×10-6 | 0.21 |
95%置信区间下限 95% HPD lower | 3.30×104 | 2.68×104 | 2.39×104 | 1.21×104 | 1.80×104 | 2.73×104 | 1.92×105 | 2.19×10-6 | 0.11 |
95%置信区间上限 95% HPD upper | 9.53×104 | 9.44×104 | 9.15×104 | 8.50×104 | 3.49×105 | 4.49×105 | 8.82×105 | 1.01×10-5 | 0.70 |
Table 3 Posterior median and 95% highest posterior density interval (HPD) estimate for demographic parameters in the most possible divergence scenario of Prinsepia utilis in DIYABC
n1 | n2 | n3 | n4 | T1 | T2 | T3 | μ | P | |
---|---|---|---|---|---|---|---|---|---|
中位值 Median | 6.84×104 | 6.30×104 | 5.84×104 | 3.90×104 | 8.53×104 | 1.25×105 | 5.11×105 | 4.30×10-6 | 0.21 |
95%置信区间下限 95% HPD lower | 3.30×104 | 2.68×104 | 2.39×104 | 1.21×104 | 1.80×104 | 2.73×104 | 1.92×105 | 2.19×10-6 | 0.11 |
95%置信区间上限 95% HPD upper | 9.53×104 | 9.44×104 | 9.15×104 | 8.50×104 | 3.49×105 | 4.49×105 | 8.82×105 | 1.01×10-5 | 0.70 |
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[ 叶俊伟, 张阳, 王晓娟 (2017) 中国-日本植物区系中的谱系地理间断及其形成机制. 植物生态学报, 41, 1003-1019.]
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