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Acta Agronomica Sinica ›› 2018, Vol. 44 ›› Issue (02): 159-168.doi: 10.3724/SP.J.1006.2018.00159

• CROP GENETICS & BREEDING · GERMPLASM RESOURCES · MOLECULAR GENETICS •     Next Articles

Genetic Contribution of Lumai 14 to Qingnong 2 Revealed by SSR and SNP Markers

Yu-Gang LI1,**, Min REN2,**, Lv SUN1,3, Sheng-Jian WANG1, Mei HAN1,3, Zhen-Qing LI1, Xiao-Ling ZHAI1, Xiao-Yan DAI4, Yuan-Jiang HOU4,*(), Hong-Mei GE1,*()   

  1. 1 Qingdao Academy of Agricultural Sciences, Qingdao 266100, Shandong, China
    2 Key Laboratory of Tobacco Genetic Improvement and Biotechnology, Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao 266101, Shandong, China
    3 College of Agronomy and Plant Protection, Qingdao Agricultural University / Shandong Provincial Key Laboratory of Dryland Farming Techniques, Qingdao 266109, Shandong, China
    4 Shandong Qingfeng Seed Company limited, Qingdao 266700, Shandong, China
  • Received:2017-04-10 Accepted:2017-11-21 Online:2018-02-12 Published:2017-12-12
  • Contact: Yu-Gang LI,Min REN,Yuan-Jiang HOU,Hong-Mei GE E-mail:qf5198@163.com;gehm79@126 .com
  • Supported by:
    This study was supported by the National Key Research and Development Program of China (2016YFD0100300), the National Natural Science Foundation of China (31301320), the Breeding Improvement Project of Shandong Province (2014LZ01-01), and the Wheat Industry Innovative Team of Qingdao Agriculture Research System.

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Abstract:

Lumai 14, a widely planted wheat variety, is the parents of more than 40 bread wheat varieties, among which Qingnong 2 (Lumai 14/Yannong 15//Aiganmai) has been released in recent years. In this study, the inheritance from Lumai 14 to Qingnong 2 was evaluated using 350 SSR markers and 26 026 SNPs detected by iSelect 90k SNP array. Pedigrees show that Lumai 14 and Yannong 15 contain 1/4 and 1/2 blood of Youbaomai, respectively. Genomic marker screening confirmed that Lumai 14 and Yannong 15 shared 55.42% common SSR loci and 71.53% common SNP loci. Polymorphic markers between them were used to disclose that Qingnong 2 inherited more SSR and SNP loci from Lumai 14 (54.11% and 72.55%, respectively) than from Yannong 15 (36.30% and 26.98%, respectively). In Qingnong 2, chromosomes 2B, 3B, and 6A harbored more than 50% SNPs from Yannong 15, whereas, the remaining 18 chromosomes carried more than 50% SNPs from Lumai 14. The parental genetic compositions were present mainly in large chromosomal segments in Qingnong 2. Phenotyping investigation in multi-locations across years indicated that Qingnong 2 was similar to Lumai 14 in length and width of flag leaf, length of first internode, length from flag leaf pulvinus to spike base, earing degree, thousand-grain weight, and grain length, and similar to Yanong 15 in plant height and growth duration. This results provide valuable information for molecular marker-assisted selection in wheat breeding.

Key words: founder parents, genetic contribution, genetic composition, SSR, 90k array

Table 1

Years and locations for trait investigation"

年份
Year		 地点
Location		 环境数
Number of environments
2013-2014 山东青岛城阳, 山东泰安肥城, 河南新乡 3
2014-2015 山东青岛城阳1), 山东青岛平度, 山东泰安肥城, 河南新乡 4
2015-2016 山东青岛城阳1), 山东青岛平度, 山东泰安肥城 3

Fig. 1

Pedigree of Lumai 14 (A) and Yannong 15 (B) The pedigree was summarized from Fang et al. [33]"

Fig. 2

Percentage and genomic distribution of identical and different SSR (a) and SNP loci (b) between Lumai 14 and Yannong 15"

Fig. 3

Genetic contribution of Lumai 14 and Yannong 15 to Qingnong 2 revealed by SSR and SNP markers(a) Whole genome level; (b) Chromosomal distribution of SSRs; (c) Chromosomal distribution of SNPs."

Table 2

Genetic contribution of Lumai 14 and Yannong 15 on Qingnong 2 with SSR and SNP at 21 chromosomes"

染色体
Chr.		 SSR SNP
差异位点 Differential loci 鲁麦14
Lumai 14		 贡献率 Contribution (%) 烟农15
Yannong 15		 贡献率 Contribution (%) 差异位点 Differential loci 鲁麦14
Lumai 14		 贡献率 Contribution (%) 烟农15
Yannong 15		 贡献率 Contribution (%)
1A 11 5 45.45 4 36.36 660 433 65.61 227 34.39
1B 10 6 60.00 3 30.00 685 620 90.51 65 9.49
1D 10 8 80.00 1 10.00 145 140 96.55 5 3.45
2A 9 4 44.44 3 33.33 270 238 88.15 32 11.85
2B 6 3 50.00 3 50.00 302 80 26.49 220 72.85
2D 8 3 37.50 4 50.00 325 321 98.77 3 0.92
染色体
Chr.		 SSR SNP
差异位点 Differential loci 鲁麦14
Lumai 14		 贡献率 Contribution (%) 烟农15
Yannong 15		 贡献率 Contribution (%) 差异位点 Differential loci 鲁麦14
Lumai 14		 贡献率 Contribution (%) 烟农15
Yannong 15		 贡献率 Contribution (%)
3A 7 5 71.43 1 14.29 362 318 87.85 43 11.88
3B 4 1 25.00 3 75.00 202 51 25.25 150 74.26
3D 3 1 33.33 2 66.67 66 65 98.48 1 1.52
4A 3 2 66.67 1 33.33 173 155 89.60 18 10.40
4B 7 1 14.29 5 71.43 134 73 54.48 58 43.28
4D 3 2 66.67 1 33.33 15 14 93.33 1 6.67
5A 5 3 60.00 2 40.00 319 277 86.83 42 13.17
5B 5 2 40.00 3 60.00 233 151 64.81 81 34.76
5D 18 10 55.56 7 38.89 44 33 75.00 10 22.73
6A 9 4 44.44 5 55.56 390 121 31.03 263 67.44
6B 6 4 66.67 2 33.33 511 393 76.91 117 22.90
6D 3 2 66.67 1 33.33 77 68 88.31 6 7.79
7A 4 3 75.00 0 0.00 369 286 77.51 83 22.49
7B 6 5 83.33 0 0.00 607 433 71.33 166 27.35
7D 9 5 55.56 2 22.22 35 28 80.00 7 20.00
Total 146 79 54.11 53 36.30 5924 4298 72.55 1598 26.98

Fig. 4

Genetic composition map of Qingnong 2 The first three columns (from left to right) in each group indicate chromosomes of Lumai 14, Yannong 15, and Qingnong 2, and the fourth column shows the chromosomal locations of SNP in the integrated genetic map. Red, blue, light yellow, and gray indicate alleles that Lumai 14 unique, Yannong 15 unique, shared with them and not from the two parents."

Table3

Best linear unbiased prediction (BLUP) data of the agronomic traits of Qingnong 2 and its parents in several cultivated environments"

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