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作物学报 ›› 2023, Vol. 49 ›› Issue (11): 2876-2885.doi: 10.3724/SP.J.1006.2023.23066

• 作物遗传育种·种质资源·分子遗传学 • 上一篇    下一篇

Maize 6H-60K芯片在玉米实质性派生品种鉴定中的应用分析

田红丽(), 张如养(), 范亚明(), 杨扬, 张云龙, 易红梅, 邢锦丰, 王凤格(), 赵久然()   

  1. 北京市农林科学院玉米研究所 / 农业农村部农作物DNA指纹创新利用重点实验室(部省共建) / 玉米DNA指纹及分子育种北京市重点实验室, 北京100097
  • 收稿日期:2022-09-30 接受日期:2023-05-24 出版日期:2023-11-12 网络出版日期:2023-06-06
  • 通讯作者: 赵久然, E-mail: maizezhao@126.com; 王凤格, E-mail: gege0106@163.com
  • 作者简介:田红丽, E-mail: tianhongli9963@163.com;
    张如养, E-mail: ruyangzhang2009@126.com;
    范亚明, E-mail: 13718078547@163.com第一联系人：

    **同等贡献

  • 基金资助:
    国家科技创新重大项目(2022ZD04019);北京市农林科学院创新能力建设专项(KJCX202303)资助(KJCX202303)

Application of maize 6H-60K chip in identification of maize essentially derived varieties

TIAN Hong-Li(), ZHANG Ru-Yang(), FAN Ya-Ming(), YANG Yang, ZHANG Yun-Long, YI Hong-Mei, XING Jin-Feng, WANG Feng-Ge(), ZHAO Jiu-Ran()   

  1. Maize Research Institute, Beijing Academy of Agriculture and Forestry Sciences / Key Laboratory of Crop DNA Fingerprinting Innovation and Utilization (Co-construction by Ministry and Province) / Beijing Key Laboratory of Maize DNA Fingerprinting and Molecular Breeding, Beijing 100097, China
  • Received:2022-09-30 Accepted:2023-05-24 Published:2023-11-12 Published online:2023-06-06
  • About author:First author contact:

    **Contributed equally to this study

  • Supported by:
    National Scientific and Technological Innovation—Major Projects(2022ZD04019);Science and Technology Innovation Capacity Building Project of BAAFS (KJCX20230301)(KJCX202303)

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摘要：

玉米实质性派生品种鉴定已成为当前种业知识产权保护的热点之一。为加快其精准高效分子鉴定技术的建立, 本文利用多种类型派生品种为研究材料: 京2416与京2416C (两者为遗传背景高度相近的两个自交系), 京724与京72464 (两者为遗传背景相近的两个自交系), 以及由京724与京72464两者构建的893个DH系遗传群体等。研究分析了Maize 6H-60K芯片(包含61,214个SNP位点集合)应用于玉米派生品种鉴定的潜力。结果显示: (1) 京2416与京2416C间存在829个SNP位点差异, GS值(遗传相似度)为98.7%, 56.7%的差异位点集中分布在5号染色体长度约39 Mb区域内。(2) 京724与京72464之间差异位点数目为4912个, GS值为90.1%, 44.8%的差异位点集中分布在3号染色体上。(3) 893个DH系与2个亲本京724及京72464之间的GS值分布均呈现连续性, 其中与京724之间的GS值范围88.0%~97.0%, 平均值为92.6%; 与京72464之间的GS值范围88.3%~98.6%, 平均值为94.5%。(4) 893个DH系进行两两成对比较, 共比较398,278对, 所有DH系之间均有明确的SNP位点差异; GS值最小为87.5%, 最大为99.9%, 平均值为94.3%。结果表明Maize 6H-60K包含的SNP位点集能够精准评估派生、近似或极近似自交系及DH系的遗传背景, 将所有材料一一鉴别明确区分开来, 并具有进一步锁定与派生性状连锁标记的潜力。建议亟需基于Maize 6H-60K SNP位点集合, 利用高效芯片、靶向测序等平台建立玉米实质性派生品种分子鉴定技术规程, 为玉米品种知识产权保护、品种创新等提供技术支撑。

关键词: 玉米, 实质性派生品种, 分子鉴定, Maize 6H-60K芯片, 高密度SNP位点集合

Abstract:

The identification of maize essentially derived variety has become the hot spot in the intellectual property protection of seed industry. In order to speed up the establishment of its accurate and efficient molecular identification technology, this article used multiple types of derived varieties as research materials: Jing 2416 and Jing 2416C (two inbred lines with highly similar genetic backgrounds), Jing 724 and Jing 72464 (two inbred lines with similar genetic backgrounds), as well as 893 DH lines of genetic population constructed by Jing 724 and Jing 72464. The study researched and analyzed the potential of maize 6H-60K chip including 61,214 SNPs in identification of maize essentially derived varieties. The results were as follows: (1) There were 829 SNPs differences between Jing 2416 and Jing 2416C, the GS value (genetic similarity) was 98.7%, and 56.7% of the difference loci were concentrated in the 39 Mb region of chromosome 5. (2) There were 4912 SNPs differences between Jing 724 and Jing 72464, the GS value was 90.1%, and 44.8% of the difference loci were concentrated on chromosome 3. (3) The distribution of genetic similarity values between 893 DH lines and two parents (Jing 724 and Jing 72464) was continuous. The GS value range between 893 DH lines and Jing 724 was 88.0%-97.0%, with an average of 92.6%. The GS value range between 893 DH lines and Jing 72464 was 88.3%-98.6%, with an average of 94.5%. (4) 893 DH lines were paired comparison, a total of 398,278 pairs were compared. There were specific SNP differences between all DH lines. The GS values of 893 DH lines in pairs ranged from 87.5% to 99.9%, with an average of 94.3%. Among them, the proportion of GS value ≥ 97.0% was 8.6%, and the proportion of GS value ≥ 99.0% was 1.3%. This study showed that maize 6H-60K SNP sets could accurately evaluate the genetic background of maize derived, similar or extremely similar inbred and DH lines, identify and distinguish all materials one by one, and had the potential to further lock the linkage markers of derived traits. It is suggested that the technical system for maize essentially derived variety molecular identification based on Maize6H-60K SNP sets using chip, genotyping by target sequencing (GBTS) and other platforms should be urgently established, so as to provide technical support for intellectual property protection and variety innovation of maize varieties.

Key words: maize, the essentially derived variety, molecular identification, maize 6H-60K chip, the high-density SNP loci set

图1

京2416和京2416C之间差异位点在全基因组中的分布"

图2

京724和京72464差异位点分布(A和B)及基于DH系群体分析的染色体重组交换次数(C)"

图3

893份DH系分别与京724、京72464之间遗传相似度分析 横坐标为893个DH系, 按照与京72464之间的LS值从小到大排序; 纵坐标为遗传相似度值。"

图4

893份DH系两两之间遗传相似度分布 横坐标为遗传相似度值, 纵坐标为成对分析的DH对数。"

图5

京724和京72464构建的DH系群体的遗传分离图 图A为多态标记的遗传分离图, 红色为偏母型分离位点, 橙色为无偏分离位点。图B、C、D分别为DH388、DH677、DH543遗传背景图示, 其中白色区域为与京724和京72464均相同的纯合基因型, 深绿色区域为与京724相同的纯合基因型, 红色区域为与京72464相同的纯合基因型。"

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