Crops ›› 2018, Vol. 34 ›› Issue (5): 21-26.doi: 10.16035/j.issn.1001-7283.2018.05.004

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Genetic Diversity Analysis of Red Rice from Hani’s Terraced Fields in Yunnan Province

Ma Mengli,Zheng Yun,Zhou Xiaomei,Zhang Tingting,Zhang Xiaoqian,Lu Bingyue   

  1. College of Life Science and Technology/Key Laboratory of Crop High Quality and Efficient Cultivation and Security Control of College in Yunnan Province, Honghe University, Mengzi 661100, Yunnan, China
  • Received:2018-04-13 Revised:2018-07-12 Online:2018-10-15 Published:2018-10-12
  • Contact: Bingyue Lu

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Abstract:

There are abundant rice landraces in Hani’s terraces fields of Yunnan, especially red rice resources. A set of 60 red rice landraces were characterized using 100 simple sequence repeat (SSR) markers to study genetic diversity. A total of 477 fragments were amplified, averaging 4.770 alleles per primer pair. Effective number of alleles (Ne) ranged from 1.035 to 6.000 with an average of 2.518. Shannon's information index (I) ranged from 0.086 to 1.912 with an average of 1.016. The polymorphism information content (PIC) ranged from 0.064 to 0.838 with an average of 0.519. Heterozygosity (H) was estimated as 0.167. Cluster analysis showed that all genotypes grouped into two major clusters. Subspecies of indica rice clusters included 57 rice landraces as main rice cultivation types. Subspecies of japonica only contained 3 rice landraces. The results showed that these rice landraces had a wide genetic diversity.

Key words: Hani’s terraces fields;, Rice, Red rice, Landraces, Genetic diversity

Table 1

Code, name and collecting place of red rice landraces"

编号
Code		 名称
Name		 采集地
Collection place		 编号
Code		 名称
Name		 采集地
Collection place		 编号
Code		 名称
Name		 采集地
Collection place
1 独苗谷 上新城 21 古填车 未知 41 车福 新街镇
2 安兴谷 黄茅岭 22 绿脚谷 新街镇 42 甲谷 未知
3 容忍车 牛角寨 23 本地红谷 上新城 43 称尼 未知
4 容忍人车 牛角寨 24 老品种 攀枝花 44 老粳红米 黄草岭
5 车玛欧正 未知 25 大龙谷 俄扎乡 45 石欧迁 黄草岭
6 红谷糯 上新城 26 龙山岭谷 新街镇 46 车你龙格 黄草岭
7 高山红谷 上新城 27 丫多谷 新街镇 47 合林谷 俄扎乡
8 罗格 牛角寨 28 车努 胜村乡 48 伍普车你 俄扎乡
9 白脚老粳 新街镇 29 建水谷 新街镇 49 啊喷喷车 黄草岭
10 车满车 牛角寨 30 花矮谷 新街镇 50 红谷 大坪乡
11 车那 未知 31 花谷 胜村乡 51 杂交糯谷 未知
12 毛车 牛角寨 32 车那 新街镇 52 六月谷 新街镇
13 编号3 小新街 33 高山红谷 未知 53 老母鸡谷 上新城
14 老品种红米 攀枝花 34 毛车 新街镇 54 红糯谷 沙拉托乡
15 花谷 黄茅岭 35 爱者然车 新街镇 55 杂交红谷 未知
16 太阳谷 上新城 36 厕所谷 大坪乡 56 水旱稻 黄茅岭
17 尹谷 新街镇 37 卖抽 俄扎乡 57 红谷 大坪乡
18 车脚脚儿 未知 38 红谷 嘎娘乡 58 车染 新街镇
19 泼行谷 小新街 39 坡竹谷 未知 59 车甲谷 新街镇
20 本地红谷 未知 40 称科 未知 60 月亮谷 新街镇

Table 2

100 pairs of SSR primers used in this study"

引物
Primer		 染色体
Chromosome		 引物
Primer		 染色体
Chromosome		 引物
Primer		 染色体
Chromosome		 引物
Primer		 染色体
Chromosome		 引物
Primer		 染色体
Chromosome
RM495 1 RM208 2 RM348 4 RM505 7 RM467 10
RM84 1 RM138 2 RM127 4 RM478 7 RM258 10
RM583 1 RM60 3 RM122 5 RM248 7 RM294 10
RM23 1 RM175 3 RM593 5 RM506 8 RM147 10
RM9 1 RM36 3 RM169 5 RM6863 8 RM496 10
RM246 1 RM218 3 RM163 5 RM4085 8 RM286 11
RM5501 1 RM282 3 RM7415 5 RM25 8 RM7557 11
RM297 1 RM7097 3 RM480 5 RM339 8 RM332 11
RM472 1 RM16 3 RM540 6 RM419 8 RM167 11
RM14 1 RM319 3 RM204 6 RM80 8 RM287 11
RM109 2 RM168 3 RM136 6 RM281 8 RM21 11
RM8 2 RM293 3 RM3 6 RM444 9 RM206 11
RM7288 2 RM570 3 RM8239 6 RM342 9 RM224 11
RM4499 2 RM307 4 RM275 6 RM105 9 RM20 12
RM8254 2 RM335 4 RM30 6 RM6854 9 RM19 12
RM475 2 RM261 4 RM412 6 RM553 9 RM512 12
RM1385 2 RM471 4 RM481 7 OSR28 9 RM519 12
RM263 2 RM564 4 RM125 7 RM215 9 RM7102 12
RM221 2 RM273 4 RM346 7 RM5095 10 RM235 12
RM240 2 RM303 4 RM336 7 RM311 10 RM17 12

Table 3

Genetic diversity parameters of red rice in Hani′s terraced fields based on SSR markers"

引物Primer Na Ne I PIC H
RM495 2 1.142 0.245 0.117 0.000
RM84 5 3.575 1.369 0.740 0.083
RM583 6 4.132 1.557 0.731 0.067
RM23 8 4.345 1.636 0.733 0.167
RM9 4 2.029 0.960 0.485 0.017
RM246 4 2.665 1.100 0.550 0.133
RM5501 6 3.080 1.284 0.696 0.267
RM297 10 3.024 1.526 0.685 0.833
RM472 4 3.255 1.261 0.662 0.100
RM14 7 5.333 1.790 0.822 0.533
RM109 3 1.479 0.599 0.294 0.017
RM8 4 2.100 0.864 0.431 0.167
RM7288 9 3.189 1.446 0.695 0.150
RM4499 2 1.035 0.086 0.064 0.000
RM8254 8 3.867 1.619 0.732 0.817
RM475 4 1.276 0.463 0.231 0.033
RM1385 3 1.108 0.233 0.124 0.000
RM263 6 3.862 1.481 0.718 0.133
引物Primer Na Ne I PIC H
RM221 2 1.258 0.359 0.281 0.117
RM240 6 2.001 1.043 0.469 0.100
RM208 2 1.984 0.689 0.477 0.067
RM138 3 1.189 0.347 0.180 0.000
RM60 2 1.457 0.493 0.290 0.083
RM175 4 2.204 0.890 0.444 0.950
RM36 5 2.090 1.026 0.502 0.100
RM218 4 2.063 0.862 0.487 0.133
RM282 4 2.118 0.992 0.485 0.000
RM7097 4 1.804 0.871 0.415 0.050
RM16 4 1.644 0.736 0.396 0.000
RM319 3 1.515 0.603 0.347 0.000
RM168 4 1.737 0.837 0.396 0.017
RM293 2 1.977 0.687 0.476 0.083
RM570 5 3.105 1.267 0.619 0.133
RM307 5 3.536 1.408 0.746 0.150
RM335 10 4.285 1.769 0.781 0.717
RM261 3 1.655 0.639 0.353 0.050
RM471 4 2.378 1.025 0.506 0.083
RM564 5 2.159 0.970 0.502 0.000
RM273 3 1.145 0.291 0.123 0.000
RM303 5 3.317 1.339 0.692 0.033
RM348 3 1.203 0.350 0.159 0.017
RM127 2 1.392 0.455 0.268 0.033
RM122 3 2.174 0.898 0.623 0.100
RM593 4 3.243 1.234 0.630 0.000
RM169 4 2.843 1.150 0.626 0.117
RM163 5 1.502 0.693 0.334 0.033
RM7415 3 2.027 0.735 0.432 0.833
RM480 5 1.697 0.850 0.408 0.083
RM540 5 2.554 1.202 0.622 0.200
RM204 8 2.495 1.289 0.607 0.050
RM136 3 1.504 0.613 0.303 0.067
RM3 5 2.304 1.050 0.625 0.033
RM8239 2 1.162 0.268 0.291 0.000
RM275 6 2.866 1.243 0.611 0.050
RM30 3 2.120 0.902 0.469 0.733
RM412 3 2.018 0.831 0.428 0.100
RM481 11 3.509 1.693 0.744 0.850
RM125 5 1.466 0.666 0.297 0.033
RM346 5 2.302 0.969 0.517 0.067
RM336 6 3.600 1.404 0.671 0.117
RM505 2 1.997 0.693 0.495 0.867
RM478 3 2.781 1.057 0.565 0.117
RM248 7 4.622 1.662 0.798 0.067
RM506 5 2.687 1.141 0.601 0.033
RM6863 3 2.085 0.843 0.587 0.083
RM4085 4 1.788 0.777 0.423 0.150
RM25 6 2.273 1.129 0.521 0.050
RM339 8 3.561 1.573 0.730 0.083
RM419 2 1.145 0.248 0.147 0.000
引物Primer Na Ne I PIC H
RM80 8 5.093 1.778 0.792 0.183
RM281 5 2.531 1.109 0.580 0.017
RM444 9 6.000 1.912 0.838 0.067
RM342 5 3.057 1.261 0.642 0.200
RM105 7 2.128 1.138 0.545 0.033
RM6854 3 1.972 0.818 0.420 0.000
RM553 5 2.086 1.013 0.529 0.117
OSR28 9 2.520 1.367 0.645 0.100
RM215 3 2.910 1.083 0.626 0.083
RM5095 8 5.463 1.864 0.826 0.050
RM311 7 4.517 1.604 0.783 0.883
RM467 4 1.258 0.461 0.328 0.000
RM258 5 2.253 1.081 0.573 0.000
RM294 3 2.203 0.857 0.442 0.900
RM147 3 1.472 0.610 0.321 0.000
RM496 4 1.723 0.726 0.470 0.000
RM286 5 2.987 1.263 0.624 0.050
RM7557 2 1.107 0.201 0.121 0.000
RM332 4 2.638 1.103 0.566 0.067
RM167 3 1.364 0.508 0.270 0.100
RM287 5 2.797 1.219 0.605 0.117
RM21 6 2.718 1.352 0.660 0.200
RM206 8 5.052 1.831 0.814 0.067
RM224 3 2.009 0.842 0.521 0.033
RM20 6 2.855 1.263 0.687 0.750
RM19 6 2.483 1.069 0.591 0.017
RM512 3 2.018 0.788 0.407 0.000
RM519 5 2.910 1.259 0.644 0.067
RM7102 6 3.316 1.390 0.717 0.517
RM235 8 4.174 1.626 0.773 0.600
RM17 4 2.106 0.947 0.492 0.133
平均Average 4.770 2.518 1.016 0.519 0.167

Fig.1

Dendrogram of red rice in Hani′s terraces fields based on SSR markers"

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