Crops ›› 2019, Vol. 35 ›› Issue (3): 80-85.doi: 10.16035/j.issn.1001-7283.2019.03.013

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Genetic Analysis of Rape Hybrid Fengyou No.10 Using SNP Chips

Cai Dongfang1,Zhang Shufen1,Wang Jianping1,Cao Jinhua1,Wen Yancheng1,Zhang Shufa2,He Junping1,Zhao Lei1,Wang Dongguo1,Zhu Jiacheng1   

  1. 1 Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key Laboratory of Oil Crops in Huanghuaihai Plains, Ministry of Agriculture and Rural Affairs/Key Laboratory of Oil Crop Genetic Improvement in Henan Province, Zhengzhou 450002, Henan, China
    2 Tanghe Seed Technical Service Station of Henan Province, Tanghe 473400, Henan, China
  • Received:2018-12-25 Revised:2019-04-02 Online:2019-06-15 Published:2019-06-12
  • Contact: Jiacheng Zhu

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Abstract:

In order to analyze the molecular genetic basis of rape hybrid Fengyou No.10, Fengyou No.10 and 20 elite inbred lines including its parents were genotyped using the Illumina 60K SNP chip technology. The results showed that the genetic distance between pairs of 20 elite inbred lines ranged from 0.123 to 0.463, with an average of 0.348. The genetic distance between the female parent 22A and male parent P087-2 of Fengyou No.10 was 0.375, which was higher than the average value of 20 elite inbred lines. All these inbred lines were divided into four groups using cluster analysis, in which the female parent 22A and male parent P087-2 belong to the first group and the fourth group, respectively. Comparative genome analysis found that the hybrid Fengyou No.10 had the similarity of 64.77% and 62.89% with its female parent 22A and male parent P087-2, respectively. The 30.78% loci of Fengyou No.10 were heterozygous. At the same time, the great differences of the polymorphism rate in 19 chromosomes were observed between Fengyou No.10 and the parents. Our study would provide a theoretical guide for subsequent variety breeding in Brassica napus.

Key words: Brassica napus, SNP chips, Genetic distance, Genetic basis

Table 1

20 parental lines and their origins"

序号No. 田间编号Field No. 来源Origin 系Line
1 2001 22A 不育系
2 3001 P087-2 恢复系
3 p189 P189×220 恢复系
4 p003 59R 恢复系
5 p014 595R 恢复系
6 p023 20151R 恢复系
7 p044 4R 恢复系
8 p064 384R 恢复系
9 p080 1053R 恢复系
10 p095 220×西杂3号R 恢复系
11 p098 220 恢复系
12 p131 (320×220)×ZY0913 恢复系
13 p156 P189 恢复系
14 p208 R279 恢复系
15 p263 R300 恢复系
16 p378 S2B 保持系
17 p471 R51 恢复系
18 p476 91142B 保持系
19 p493 628B 保持系
20 p612 77B×848 保持系

Table 2

The analysis of genetic distance between 20 parental lines"

来源Origin 22A P087-2 P189×220 59R 595R 20151R 4R 384R 1053R 220×西杂3号R
220×Xiza No.3 R		 220 (320×220)×
ZY0913		 P189 R279 R300 S2B R51 91142B 628B
22A
P087-2 0.375
P189×220 0.363 0.268
59R 0.377 0.373 0.343
595R 0.348 0.375 0.332 0.320
20151R 0.371 0.379 0.316 0.368 0.274
4R 0.294 0.360 0.295 0.349 0.317 0.350
384R 0.345 0.356 0.351 0.358 0.313 0.377 0.336
1053R 0.322 0.373 0.354 0.307 0.298 0.314 0.313 0.335
220×西杂3号R
220×Xiza No.3 R		 0.347 0.296 0.252 0.381 0.336 0.360 0.341 0.346 0.377
220 0.340 0.348 0.372 0.288 0.340 0.360 0.325 0.343 0.285 0.354
(320×220)×
ZY0913		 0.386 0.387 0.334 0.316 0.357 0.385 0.368 0.180 0.358 0.377 0.369
P189 0.372 0.310 0.194 0.377 0.322 0.303 0.354 0.335 0.359 0.259 0.372 0.370
R279 0.360 0.316 0.241 0.389 0.339 0.316 0.311 0.361 0.346 0.302 0.372 0.393 0.123
R300 0.370 0.334 0.300 0.400 0.368 0.355 0.368 0.279 0.364 0.306 0.376 0.263 0.292 0.311
S2B 0.382 0.424 0.338 0.287 0.364 0.423 0.355 0.336 0.363 0.386 0.328 0.291 0.394 0.397 0.402
R51 0.358 0.327 0.298 0.347 0.307 0.303 0.345 0.336 0.318 0.300 0.363 0.360 0.302 0.312 0.317 0.369
91142B 0.422 0.403 0.283 0.392 0.402 0.430 0.431 0.425 0.445 0.347 0.455 0.394 0.358 0.389 0.376 0.402 0.390
628B 0.322 0.358 0.360 0.316 0.316 0.350 0.314 0.338 0.307 0.354 0.277 0.355 0.376 0.362 0.376 0.316 0.355 0.463
77B×848 0.316 0.372 0.320 0.307 0.303 0.330 0.230 0.337 0.286 0.349 0.300 0.352 0.339 0.325 0.377 0.333 0.343 0.427 0.327

Fig.1

The cluster tree for 20 parental lines"

Table 3

The genotype comparsion of Fengyou No.10 and its parents"

染色体Chromosome 同母本Identical with female 同父本Identical with male 完全杂合Completely heterozygous 完全纯合Completely homozygous 合计
Total		 完全杂合型的比例(%)The ratio of completely heterozygous genetypes 与母本的多态性比例(%)
The polymorphism ratio
with female		 与父本的多态性比例(%)
The polymorphism ratio with male
A01 127 92 504 667 1 390 36.26 42.88 45.40
A02 84 64 319 696 1 163 27.43 32.93 34.65
A03 125 104 681 1 186 2 096 32.49 37.45 38.45
A04 55 59 371 880 1 365 27.18 31.50 31.21
A05 124 126 400 776 1 426 28.05 36.89 36.75
A06 68 63 463 841 1 435 32.26 36.66 37.00
A07 178 82 441 1 064 1 765 24.99 29.63 35.07
A08 55 32 134 785 1 006 13.32 16.50 18.79
A09 104 63 448 940 1 555 28.81 32.86 35.50
A10 283 32 350 764 1 429 24.49 26.73 44.30
C01 60 55 361 1 691 2 167 16.66 19.20 19.43
C02 52 51 117 259 479 24.43 35.07 35.28
C03 103 109 907 1 291 2 410 37.63 42.16 41.91
C04 47 78 1 222 1 536 2 883 42.39 45.09 44.02
C05 46 68 332 474 920 36.09 43.48 41.09
C06 62 54 520 690 1 326 39.22 43.29 43.89
C07 124 63 433 1 041 1 661 26.07 29.86 33.53
C08 68 55 652 644 1 419 45.95 49.82 50.74
C09 58 32 215 617 922 23.32 26.79 29.61
合计Total 1 823 1 282 8 870 16 842 28 817 - - -
比值Ratio (%) 6.33 4.45 30.78 58.44 - - 35.23 37.11
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