Identification of KASP markers and putative genes for pre-harvest sprouting resistance in common wheat (Triticum aestivum L.)
Identification of KASP markers and putative genes for pre-harvest sprouting resistance in common wheat (Triticum aestivum L.)
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DOI：
10.1016/j.cj.2022.09.002
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发表时间：
2023-04-01
期刊：
影响因子：
6.6
通讯作者：
Yan, Guijun
中科院分区：
文献类型：
--
作者：
Liu, Guannan;Mullan, Daniel;Yan, Guijun
普通小麦（Triticum aestivum L.）是世界上最重要的农作物，是一种典型的异源多倍体，基因组庞大而复杂。收获前发芽（PHS）导致世界范围内谷物品质的显著降低。PHS是一个复杂的性状，相关的QTL位于不同的染色体上。然而，与小穗病抗性相关的分子标记和基因的研究还很有限，特别是对于白粒小麦。利用90 K SNP Illumina iSelect基因芯片对来自白粒小麦杂交组合Chara × DM 5637 B *8的4对近等基因系（Near Isogenic Lines，NILs）进行基因分型，这些近等基因系靶向小麦3AL染色体上的PHS抗性主效QTL（Qphs.ccsu-3A.1）。共鉴定出10个SNPs，在抗性和感病株系中基因型与表型的一致性为75%~ 100%。将这10个SNP转化为具有成本效益的竞争性等位基因特异性PCR（KASP）标记。通过对48个不同PHS表型的小麦品种的筛选，筛选出4个KASP标记，其基因型与表型的符合率为81.3%~ 85.4%。进一步的研究表明，这四个SNP对应于四个经验证的KASP标志物（BS 00022245_51、Kukri_c49927_151、BS 00022884_51和BS 00110550_51）存在于三个独立的基因中（TraesCS 3A 03 G1072800、TraesCS 3A 03 G1072400、TraesCS 3A 03 G1071800）的QTL之间的距离为4.28-4.48 Mb。这三个基因具有与PHS抗性相关的潜在功能。本研究表明，近等基因系与90 K SNP芯片的联合应用是开发小麦KASP标记和挖掘小麦功能基因的有效途径。3AL染色体上的KASP标记可用于高通量评价和标记辅助选择，这3个基因的发现有助于更好地了解控制小穗病的遗传途径。(c)2022中国农业科学院作物科学研究所中国作物学会Elsevier B. V.代表KeAi Communications Co.制作和主办，这是一篇在CC BY-NC-ND许可证下的开放获取文章（http：//creativecommons.org/licenses/by-nc-nd/4.0/）。
Common wheat (Triticum aestivum L.) is the most important crop in the world and a typical allopolyploid with a large and complex genome. Pre-harvest sprouting (PHS) leads to a significant reduction in grain quality worldwide. PHS is a complex trait with related QTL located on different chromosomes. However, the study of markers and genes related to PHS resistance is limited especially for white-grained wheat. Four pairs of near isogenic lines (NILs) from a white-grained wheat cross of Chara x DM5637B*8 targeting a major QTL for PHS resistance (Qphs.ccsu-3A.1) on wheat chromosme 3AL were genotyped using the 90K SNP Illumina iSelect array. Ten SNPs were identified, with a 75%- 100% consistency between genotype and phenotype in the resistant or susceptible isolines. The 10 SNPs were converted to cost-effective kompetitive allele-specific PCR (KASP) markers. Screening of 48 wheat cultivars with different phenotypes of PHS identified four KASP markers with 81.3%-85.4% confor-mity between genotype and phenotype. Further investigation revealed that the four SNPs (BS00022245_51, Kukri_c49927_151, BS00022884_51 and BS00110550_51) corresponding to the four validated KASP markers are residing in three independent genes (TraesCS3A03G1072800, TraesCS3A03G1072400, TraesCS3A03G1071800) close to each other with a distance of 4.28-4.48 Mb to the targeted QTL. These three annotated genes have potential functions related to PHS resistance. Our study revealed that combined use of NILs and the 90K SNP chip is a powerful approach for developing KASP markers and mining functional genes in wheat. The KASP markers for PHS resistance on chromo-some 3AL are useful for high-throughput evaluation and marker-assisted selection, and the three identi-fied genes could lead to a better understanding of the genetic pathways controlling PHS. (c) 2022 Crop Science Society of China and Institute of Crop Science, CAAS. Production and hosting by Elsevier B.V. on behalf of KeAi Communications Co., Ltd. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).