Gene Mining and Genetic Effect Analysis Reveal Novel Loci, <i>TaZn-2DS</i> Associated with Zinc Content in Wheat Grain
Zinc is an essential microelement of enzymes and proteins in wheat grains and humans. A deficiency in zinc content can lead to decreased wheat yield and low zinc content in grains, which in turn leads to insufficient dietary zinc intake. One recombinant inbred line (RIL) population derived from cros...
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2025-01-01
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| author | Zhuangzhuang Hong Zhankui Zeng Jiaojiao Li Xuefang Yan Junqiao Song Qunxiang Yan Qiong Li Yue Zhao Chang Liu Xueyan Jing Chunping Wang |
| author_facet | Zhuangzhuang Hong Zhankui Zeng Jiaojiao Li Xuefang Yan Junqiao Song Qunxiang Yan Qiong Li Yue Zhao Chang Liu Xueyan Jing Chunping Wang |
| author_sort | Zhuangzhuang Hong |
| collection | DOAJ |
| description | Zinc is an essential microelement of enzymes and proteins in wheat grains and humans. A deficiency in zinc content can lead to decreased wheat yield and low zinc content in grains, which in turn leads to insufficient dietary zinc intake. One recombinant inbred line (RIL) population derived from crosses Avocet/Huites (AH population) was used to map QTL for grain zinc content (GZnC) using diversity array technology (DArT). Nine QTLs were identified on chromosomes 2D, 3B, 4A, 4D, 5A, 5B, 6A, 7A, and 7D. Among them, <i>QGZn.haust-AH-2D</i> was detected in multiple environments, accounting for 5.61% to 11.27% of the phenotypic variation with a physical interval of 13.62 Mb to 17.82 Mb. Meanwhile, a genome-wide association study (GWAS) (CH population) comprising 243 cultivars or advanced lines revealed some genetic loci associated with zinc content in the wheat 660K single-nucleotide polymorphism (SNP) array. This was also identified within the physical interval of 13.61 Mb to 15.12 Mb of chromosome 2D, which accounted for 8.99% to 11.58% of the phenotypic variation in five models. A high-throughput competitive allele specific PCR (KASP) marker was developed, which verified the wheat natural population (NA population). <i>QGZn.haust-AH-2D</i> was fine mapped into a narrow region named <i>TaZn-2DS</i> between <i>KAZn-2D-3</i> and <i>1111273</i> at a physical distance of 2.70 Mb, and the genetic effect of <i>TaZn-2DS</i> was 11.43%. This study shows that <i>TaZn-2DS</i> is associated with zinc content, and develops <i>KAZn-2D-3</i> markers for the genetic improvement of nutritional quality in wheat. |
| format | Article |
| id | doaj-art-6663cedb008d44ba971075bbbac44f2c |
| institution | Kabale University |
| issn | 2077-0472 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Agriculture |
| spelling | doaj-art-6663cedb008d44ba971075bbbac44f2c2025-01-24T13:15:47ZengMDPI AGAgriculture2077-04722025-01-0115212410.3390/agriculture15020124Gene Mining and Genetic Effect Analysis Reveal Novel Loci, <i>TaZn-2DS</i> Associated with Zinc Content in Wheat GrainZhuangzhuang Hong0Zhankui Zeng1Jiaojiao Li2Xuefang Yan3Junqiao Song4Qunxiang Yan5Qiong Li6Yue Zhao7Chang Liu8Xueyan Jing9Chunping Wang10The Shennong Laboratory, Zhengzhou 450099, ChinaThe Shennong Laboratory, Zhengzhou 450099, ChinaThe Shennong Laboratory, Zhengzhou 450099, ChinaThe Shennong Laboratory, Zhengzhou 450099, ChinaThe Shennong Laboratory, Zhengzhou 450099, ChinaThe Shennong Laboratory, Zhengzhou 450099, ChinaThe Shennong Laboratory, Zhengzhou 450099, ChinaThe Shennong Laboratory, Zhengzhou 450099, ChinaThe Shennong Laboratory, Zhengzhou 450099, ChinaThe Shennong Laboratory, Zhengzhou 450099, ChinaThe Shennong Laboratory, Zhengzhou 450099, ChinaZinc is an essential microelement of enzymes and proteins in wheat grains and humans. A deficiency in zinc content can lead to decreased wheat yield and low zinc content in grains, which in turn leads to insufficient dietary zinc intake. One recombinant inbred line (RIL) population derived from crosses Avocet/Huites (AH population) was used to map QTL for grain zinc content (GZnC) using diversity array technology (DArT). Nine QTLs were identified on chromosomes 2D, 3B, 4A, 4D, 5A, 5B, 6A, 7A, and 7D. Among them, <i>QGZn.haust-AH-2D</i> was detected in multiple environments, accounting for 5.61% to 11.27% of the phenotypic variation with a physical interval of 13.62 Mb to 17.82 Mb. Meanwhile, a genome-wide association study (GWAS) (CH population) comprising 243 cultivars or advanced lines revealed some genetic loci associated with zinc content in the wheat 660K single-nucleotide polymorphism (SNP) array. This was also identified within the physical interval of 13.61 Mb to 15.12 Mb of chromosome 2D, which accounted for 8.99% to 11.58% of the phenotypic variation in five models. A high-throughput competitive allele specific PCR (KASP) marker was developed, which verified the wheat natural population (NA population). <i>QGZn.haust-AH-2D</i> was fine mapped into a narrow region named <i>TaZn-2DS</i> between <i>KAZn-2D-3</i> and <i>1111273</i> at a physical distance of 2.70 Mb, and the genetic effect of <i>TaZn-2DS</i> was 11.43%. This study shows that <i>TaZn-2DS</i> is associated with zinc content, and develops <i>KAZn-2D-3</i> markers for the genetic improvement of nutritional quality in wheat.https://www.mdpi.com/2077-0472/15/2/124wheat (<i>Triticum aestivum</i> L.)zinc contentgenome-wide association studyQTL mappingKASP maker |
| spellingShingle | Zhuangzhuang Hong Zhankui Zeng Jiaojiao Li Xuefang Yan Junqiao Song Qunxiang Yan Qiong Li Yue Zhao Chang Liu Xueyan Jing Chunping Wang Gene Mining and Genetic Effect Analysis Reveal Novel Loci, <i>TaZn-2DS</i> Associated with Zinc Content in Wheat Grain Agriculture wheat (<i>Triticum aestivum</i> L.) zinc content genome-wide association study QTL mapping KASP maker |
| title | Gene Mining and Genetic Effect Analysis Reveal Novel Loci, <i>TaZn-2DS</i> Associated with Zinc Content in Wheat Grain |
| title_full | Gene Mining and Genetic Effect Analysis Reveal Novel Loci, <i>TaZn-2DS</i> Associated with Zinc Content in Wheat Grain |
| title_fullStr | Gene Mining and Genetic Effect Analysis Reveal Novel Loci, <i>TaZn-2DS</i> Associated with Zinc Content in Wheat Grain |
| title_full_unstemmed | Gene Mining and Genetic Effect Analysis Reveal Novel Loci, <i>TaZn-2DS</i> Associated with Zinc Content in Wheat Grain |
| title_short | Gene Mining and Genetic Effect Analysis Reveal Novel Loci, <i>TaZn-2DS</i> Associated with Zinc Content in Wheat Grain |
| title_sort | gene mining and genetic effect analysis reveal novel loci i tazn 2ds i associated with zinc content in wheat grain |
| topic | wheat (<i>Triticum aestivum</i> L.) zinc content genome-wide association study QTL mapping KASP maker |
| url | https://www.mdpi.com/2077-0472/15/2/124 |
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