植物学报 ›› 2019, Vol. 54 ›› Issue (6): 723-732.DOI: 10.11983/CBB19037
何杰丽1,石甜甜2,陈凌3,王海岗3,高志军4,杨美红1,王瑞云2,3,*(),乔治军3,*()
收稿日期:
2019-02-24
接受日期:
2019-06-18
出版日期:
2019-11-01
发布日期:
2020-07-09
通讯作者:
王瑞云,乔治军
基金资助:
Jieli He1,Tiantian Shi2,Ling Chen3,Haigang Wang3,Zhijun Gao4,Meihong Yang1,Ruiyun Wang2,3,*(),Zhijun Qiao3,*()
Received:
2019-02-24
Accepted:
2019-06-18
Online:
2019-11-01
Published:
2020-07-09
Contact:
Ruiyun Wang,Zhijun Qiao
摘要: 基于前期高通量测序结果设计EST-SSR引物, 用于评估国内外不同生态区144份糜子(Panicum miliaceum)种质资源的遗传差异。结果表明, 200对引物中80对呈多态性, 开发效率为40%; 引物分辨率(Rp)为0.67-4.67 (平均值为2.00), 扩增产物大小为50-500 bp。144份材料在80个位点共检测到206个等位变异, 每个位点为2-3个; 多样性指数(I)为0.659 3 (RYW108)-1.087 2 (RYW124), 平均为0.859 9; 多态性信息含量(PIC)为0.222 9 (RYW98)-0.717 2 (RYW124), 平均为0.457 3。基于UPGMA将144份资源划分为3个群组, 其中2个群组主要为北方春糜子区材料, 另一个群组主要为黄土高原春夏糜子区材料。基于Structure (K=4)将材料划分为4个类群, 即2个代表北方资源基因库以及代表黄土高原和国外资源基因库各1个。基于主成分分析将材料聚为7个类群, 划分结果与材料的地理来源一致。
何杰丽,石甜甜,陈凌,王海岗,高志军,杨美红,王瑞云,乔治军. 糜子EST-SSR分子标记的开发及种质资源遗传多样性分析. 植物学报, 2019, 54(6): 723-732.
Jieli He,Tiantian Shi,Ling Chen,Haigang Wang,Zhijun Gao,Meihong Yang,Ruiyun Wang,Zhijun Qiao. The Genetic Diversity of Common Millet (Panicum miliaceum) Germplasm Resources Based on the EST-SSR Markers. Chinese Bulletin of Botany, 2019, 54(6): 723-732.
Ecotope/abroad | Origin | Number of accession | Total |
---|---|---|---|
Northwest spring and summer-sowing ecotope (NWSS) | Xinjiang | 4 | 4 |
Northern spring-sowing ecotope (NSP) | Qinghai | 13 | 48 |
Gansu | 11 | ||
Inner Mongolia | 14 | ||
Shanxi | 10 | ||
Loess Plateau spring and summer-sowing ecotope (LPSS) | Shanxi | 18 | 37 |
Shaanxi | 8 | ||
Ningxia | 11 | ||
Northeast spring-sowing ecotope (NES) | Heilongjiang | 5 | 9 |
Jilin | 3 | ||
Liaoning | 1 | ||
Northern summer-sowing ecotope (NSU) | Hebei | 9 | 13 |
Shandong | 2 | ||
Anhui | 1 | ||
Henan | 1 | ||
Southern autumn and winter-sowing ecotope (SAW) | Hainan | 2 | 2 |
Abroad | Former Soviet Union | 2 | 31 |
Poland | 2 | ||
India | 27 | ||
Total | 144 |
表1 国内各生态区和国外糜子资源的分布
Table 1 Distribution of common millet accessions in different ecotopes of China and abroad
Ecotope/abroad | Origin | Number of accession | Total |
---|---|---|---|
Northwest spring and summer-sowing ecotope (NWSS) | Xinjiang | 4 | 4 |
Northern spring-sowing ecotope (NSP) | Qinghai | 13 | 48 |
Gansu | 11 | ||
Inner Mongolia | 14 | ||
Shanxi | 10 | ||
Loess Plateau spring and summer-sowing ecotope (LPSS) | Shanxi | 18 | 37 |
Shaanxi | 8 | ||
Ningxia | 11 | ||
Northeast spring-sowing ecotope (NES) | Heilongjiang | 5 | 9 |
Jilin | 3 | ||
Liaoning | 1 | ||
Northern summer-sowing ecotope (NSU) | Hebei | 9 | 13 |
Shandong | 2 | ||
Anhui | 1 | ||
Henan | 1 | ||
Southern autumn and winter-sowing ecotope (SAW) | Hainan | 2 | 2 |
Abroad | Former Soviet Union | 2 | 31 |
Poland | 2 | ||
India | 27 | ||
Total | 144 |
Number | Unicode | Accession name | Origin |
---|---|---|---|
1 | 00000177 | Hongmizi | Ningan, Heilongjiang |
2 | 00000750 | Baimizi | Shawan, Xinjiang |
3 | 00006653 | Jinshu | Hainan |
4 | 00007238 | Dahongmizi | Bameng, Inner Mongolia |
5 | 00007478 | Baigedami | Huangzhong, Qinghai |
6 | No unicode | Hongshuzi | Anyang, Henan |
表2 糜子SSR引物筛选
Table 2 Screening of SSR primers for common millet
Number | Unicode | Accession name | Origin |
---|---|---|---|
1 | 00000177 | Hongmizi | Ningan, Heilongjiang |
2 | 00000750 | Baimizi | Shawan, Xinjiang |
3 | 00006653 | Jinshu | Hainan |
4 | 00007238 | Dahongmizi | Bameng, Inner Mongolia |
5 | 00007478 | Baigedami | Huangzhong, Qinghai |
6 | No unicode | Hongshuzi | Anyang, Henan |
Ecotope/ abroad | Accessions | Na | Ne | I | Ho | He | PIC |
---|---|---|---|---|---|---|---|
NWSS | 4 | 2.3375±0.5017 | 2.1517±0.4194 | 0.7644±0.2178 | 0.8042±0.2688 | 0.5944±0.1193 | 0.3551 |
NSP | 48 | 2.5750±0.4975 | 2.3106±0.3211 | 0.8604±0.1576 | 0.8228±0.1308 | 0.5655±0.0604 | 0.4536 |
LPSS | 37 | 2.5750±0.4975 | 2.2803±0.3110 | 0.8506±0.1534 | 0.8384±0.1166 | 0.5615±0.0595 | 0.4203 |
NES | 9 | 2.5125±0.5030 | 2.2435±0.3929 | 0.8289±0.1823 | 0.7937±0.1732 | 0.5737±0.0909 | 0.4212 |
NSU | 13 | 2.5625±0.4992 | 2.2815±0.3527 | 0.8496±0.1632 | 0.7946±0.1608 | 0.5712±0.0667 | 0.4304 |
SAW | 2 | 2.2375±0.5092 | 2.0608±0.4387 | 0.7347±0.2316 | 0.7812±0.3265 | 0.6813±0.2006 | 0.2156 |
Domestic | 113 | 2.5750 ±0.4975 | 2.3122±0.3086 | 0.8628±0.1554 | 0.8200±0.1188 | 0.5625±0.0584 | 0.4651 |
Abroad | 31 | 2.5750±0.4975 | 2.2464±0.2909 | 0.8387±0.1449 | 0.8540±0.1193 | 0.5571±0.0561 | 0.3896 |
表3 不同生态区糜子的遗传多样性参数
Table 3 Parameters of genetic diversity in different ecotope of common millet
Ecotope/ abroad | Accessions | Na | Ne | I | Ho | He | PIC |
---|---|---|---|---|---|---|---|
NWSS | 4 | 2.3375±0.5017 | 2.1517±0.4194 | 0.7644±0.2178 | 0.8042±0.2688 | 0.5944±0.1193 | 0.3551 |
NSP | 48 | 2.5750±0.4975 | 2.3106±0.3211 | 0.8604±0.1576 | 0.8228±0.1308 | 0.5655±0.0604 | 0.4536 |
LPSS | 37 | 2.5750±0.4975 | 2.2803±0.3110 | 0.8506±0.1534 | 0.8384±0.1166 | 0.5615±0.0595 | 0.4203 |
NES | 9 | 2.5125±0.5030 | 2.2435±0.3929 | 0.8289±0.1823 | 0.7937±0.1732 | 0.5737±0.0909 | 0.4212 |
NSU | 13 | 2.5625±0.4992 | 2.2815±0.3527 | 0.8496±0.1632 | 0.7946±0.1608 | 0.5712±0.0667 | 0.4304 |
SAW | 2 | 2.2375±0.5092 | 2.0608±0.4387 | 0.7347±0.2316 | 0.7812±0.3265 | 0.6813±0.2006 | 0.2156 |
Domestic | 113 | 2.5750 ±0.4975 | 2.3122±0.3086 | 0.8628±0.1554 | 0.8200±0.1188 | 0.5625±0.0584 | 0.4651 |
Abroad | 31 | 2.5750±0.4975 | 2.2464±0.2909 | 0.8387±0.1449 | 0.8540±0.1193 | 0.5571±0.0561 | 0.3896 |
Population | NWSS | NSP | LPSS | NES | NSU | SAW | Abroad |
---|---|---|---|---|---|---|---|
NWSS | 0.9560 | 0.9614 | 0.9487 | 0.9380 | 0.8694 | 0.9477 | |
NSP | 0.0449 | 0.9884 | 0.9678 | 0.9794 | 0.9110 | 0.9864 | |
LPSS | 0.0394 | 0.0117 | 0.9716 | 0.9830 | 0.9116 | 0.9865 | |
NES | 0.0527 | 0.0327 | 0.0288 | 0.9675 | 0.8974 | 0.9587 | |
NSU | 0.0640 | 0.0208 | 0.0171 | 0.0331 | 0.9023 | 0.9762 | |
SAW | 0.1400 | 0.0932 | 0.0926 | 0.1083 | 0.1029 | 0.9102 | |
Abroad | 0.0537 | 0.0137 | 0.0136 | 0.0422 | 0.0240 | 0.0941 |
表4 各糜子群体间的Nei氏遗传距离与遗传一致度
Table 4 Parameters of Nei’s genetic distance and Nei’s genetic agreement in common millet populations
Population | NWSS | NSP | LPSS | NES | NSU | SAW | Abroad |
---|---|---|---|---|---|---|---|
NWSS | 0.9560 | 0.9614 | 0.9487 | 0.9380 | 0.8694 | 0.9477 | |
NSP | 0.0449 | 0.9884 | 0.9678 | 0.9794 | 0.9110 | 0.9864 | |
LPSS | 0.0394 | 0.0117 | 0.9716 | 0.9830 | 0.9116 | 0.9865 | |
NES | 0.0527 | 0.0327 | 0.0288 | 0.9675 | 0.8974 | 0.9587 | |
NSU | 0.0640 | 0.0208 | 0.0171 | 0.0331 | 0.9023 | 0.9762 | |
SAW | 0.1400 | 0.0932 | 0.0926 | 0.1083 | 0.1029 | 0.9102 | |
Abroad | 0.0537 | 0.0137 | 0.0136 | 0.0422 | 0.0240 | 0.0941 |
图2 基于UPGMA的糜子资源聚类分析 NWSS、NSP、LPSS、NES、NSU和SAW同表1。
Figure 2 Cluster analysis chart of common millet accessions based on UPGMA NWSS, NSP, LPSS, NES, NSU and SAW are the same as Table 1.
Group | Accessions | Na | Ne | I | Ho | He | PIC |
---|---|---|---|---|---|---|---|
A | 33 | 2.5750±0.4975 | 2.3226±0.3374 | 0.8654±0.1620 | 0.8055±0.1417 | 0.5696±0.0636 | 0.4716 |
B | 15 | 2.5125±0.5030 | 2.2471±0.3383 | 0.8330±0.1627 | 0.8153±0.1530 | 0.5651±0.0686 | 0.3993 |
C | 96 | 2.5750±0.4975 | 2.2922±0.2894 | 0.8571±0.1495 | 0.8363±0.1111 | 0.5599±0.0553 | 0.4380 |
C1 | 70 | 2.5750±0.4975 | 2.3136±0.3098 | 0.8635±0.1551 | 0.8291±0.1199 | 0.5643±0.0584 | 0.4531 |
C2 | 26 | 2.5625±0.4992 | 2.1912±0.2797 | 0.8163±0.1391 | 0.8555 ±0.1212 | 0.5477±0.0558 | 0.3420 |
C11 | 37 | 2.5750±0.4975 | 2.3014±0.3143 | 0.8589±0.1561 | 0.8332±0.1182 | 0.5664±0.0603 | 0.4382 |
C12 | 33 | 2.5750±0.4975 | 2.3028±0.3224 | 0.8583±0.1571 | 0.8255±0.1383 | 0.5654±0.0610 | 0.4348 |
表5 基于UPGMA聚类分析糜子各类群的遗传多样性
Table 5 Genetic diversity of common millet groups based on UPGMA cluster analysis
Group | Accessions | Na | Ne | I | Ho | He | PIC |
---|---|---|---|---|---|---|---|
A | 33 | 2.5750±0.4975 | 2.3226±0.3374 | 0.8654±0.1620 | 0.8055±0.1417 | 0.5696±0.0636 | 0.4716 |
B | 15 | 2.5125±0.5030 | 2.2471±0.3383 | 0.8330±0.1627 | 0.8153±0.1530 | 0.5651±0.0686 | 0.3993 |
C | 96 | 2.5750±0.4975 | 2.2922±0.2894 | 0.8571±0.1495 | 0.8363±0.1111 | 0.5599±0.0553 | 0.4380 |
C1 | 70 | 2.5750±0.4975 | 2.3136±0.3098 | 0.8635±0.1551 | 0.8291±0.1199 | 0.5643±0.0584 | 0.4531 |
C2 | 26 | 2.5625±0.4992 | 2.1912±0.2797 | 0.8163±0.1391 | 0.8555 ±0.1212 | 0.5477±0.0558 | 0.3420 |
C11 | 37 | 2.5750±0.4975 | 2.3014±0.3143 | 0.8589±0.1561 | 0.8332±0.1182 | 0.5664±0.0603 | 0.4382 |
C12 | 33 | 2.5750±0.4975 | 2.3028±0.3224 | 0.8583±0.1571 | 0.8255±0.1383 | 0.5654±0.0610 | 0.4348 |
图4 基于Structure的糜子资源遗传结构 颜色代表类群; 条形和横坐标数字分别表示资源及其编号。
Figure 4 Genetic structure of common millet based on Structure Color represents group; bar and the horizontal coordinate represent origin and its serial number, respectively.
Cluster | Accessions | Na | Ne | I | Ho | He | PIC | |
---|---|---|---|---|---|---|---|---|
K=2 | Red | 68 | 2.5750±0.4975 | 2.2446±0.2626 | 0.8407±0.1403 | 0.8602±0.1056 | 0.5528±0.0520 | 0.3773 |
Green | 76 | 2.5750±0.4975 | 2.3396±0.3329 | 0.8711±0.1620 | 0.7975±0.1315 | 0.5679±0.0619 | 0.5031 | |
K=4 | Red | 47 | 2.5750± 0.4975 | 2.3496±0.3944 | 0.8745±0.1768 | 0.7439±0.1668 | 0.5785±0.0743 | 0.5296 |
Green | 31 | 2.5750± 0.4975 | 2.2844±0.3202 | 0.8516± 0.1549 | 0.8225±0.1399 | 0.5635±0.0607 | 0.4414 | |
Blue | 19 | 2.5750±0.4975 | 2.2973±0.3199 | 0.8575±0.1568 | 0.8190±0.1311 | 0.5628±0.0608 | 0.4450 | |
Yellow | 47 | 2.5750±0.4975 | 2.2238±0.2723 | 0.8312±0.1387 | 0.3634±0.2702 | 0.4984±0.1050 | 0.3543 |
表6 遗传结构图中K=2和K=4各类群的遗传多样性分析
Table 6 Genetic diversity analysis of different cluster based on genetic structure (K=2 and K=4)
Cluster | Accessions | Na | Ne | I | Ho | He | PIC | |
---|---|---|---|---|---|---|---|---|
K=2 | Red | 68 | 2.5750±0.4975 | 2.2446±0.2626 | 0.8407±0.1403 | 0.8602±0.1056 | 0.5528±0.0520 | 0.3773 |
Green | 76 | 2.5750±0.4975 | 2.3396±0.3329 | 0.8711±0.1620 | 0.7975±0.1315 | 0.5679±0.0619 | 0.5031 | |
K=4 | Red | 47 | 2.5750± 0.4975 | 2.3496±0.3944 | 0.8745±0.1768 | 0.7439±0.1668 | 0.5785±0.0743 | 0.5296 |
Green | 31 | 2.5750± 0.4975 | 2.2844±0.3202 | 0.8516± 0.1549 | 0.8225±0.1399 | 0.5635±0.0607 | 0.4414 | |
Blue | 19 | 2.5750±0.4975 | 2.2973±0.3199 | 0.8575±0.1568 | 0.8190±0.1311 | 0.5628±0.0608 | 0.4450 | |
Yellow | 47 | 2.5750±0.4975 | 2.2238±0.2723 | 0.8312±0.1387 | 0.3634±0.2702 | 0.4984±0.1050 | 0.3543 |
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