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ORIGINAL RESEARCH article
Front. Plant Sci.
Sec. Plant Breeding
Volume 15 - 2024 |
doi: 10.3389/fpls.2024.1418328
This article is part of the Research Topic Manipulation of Plant Architecture for Crop Production View all 8 articles
Mapping of Dynamic Quantitative Trait Loci for Plant Height in a RIL Population of Foxtail Millet (Setaria italica L.)
Provisionally accepted
Kangni Han
1
Zhilan Wang
1*
Lin Shen
2*
Xiaofen Du
1
Shichao Lian
1*
Yuxin Li
1*
Yanfang Li
1*
Chuchu Tang
2*
Linyi Zhang
1*
Jun Wang
1*- 1 Millet Research Institute, Shanxi Agricultural University, Changzhi, China
- 2 College of Agriculture, Shanxi Agricultural University, Taigu, Shanxi, China
Plant height (PH) is a crucial trait for strengthening lodging resistance and boosting yield in foxtail millet. To identify quantitative trait loci (QTL) and candidate genes associated with PH, we first developed a genetic map using a recombinant inbred line (RIL) population derived from a cross between Aininghuang and Jingu 21. Then, PH phenotyping data and four variations of Best Linear Unbiased Prediction (BLUP) were collected from nine environments and three development stages. Next, QTL mapping was conducted using both unconditional and conditional QTL methods. Subsequently, candidate genes were predicted via transcriptome analysis of parental samples at three developmental stages. The results revealed that the genetic map, based on Re-sequencing, consisted of 4,360 bin markers spanning 1,016.06 cM with an average genetic distance of 0.23 cM. A total of 19 unconditional QTL, accounting for 5.23－35.36% of the phenotypic variation explained (PVE), which included 7 major and 4 stable QTL, were identified. Meanwhile, 13 conditional QTL, explaining 5.88－40.35% of PVE, including 5 major and 3 stable QTL, were discovered. Furthermore, four consistent and stable QTL were identified. Finally, eight candidate genes were predicted through RNA-seq and Weighted Gene Co-expression Network Analysis (WGCNA). Those findings provide a crucial foundation for understanding the genetic mechanisms underlying PH development and facilitate molecular marker-assisted breeding of ideal plant types in foxtail millet.
Keywords: foxtail millet, Plant height, BLUP, Dynamic QTL mapping, RNA-Seq, candidate gene
Received: 16 Apr 2024; Accepted: 01 Jul 2024.
Copyright: © 2024 Han, Wang, Shen, Du, Lian, Li, Li, Tang, Zhang and Wang. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
* Correspondence:
Zhilan Wang, Millet Research Institute, Shanxi Agricultural University, Changzhi, China
Lin Shen, College of Agriculture, Shanxi Agricultural University, Taigu, Shanxi, China
Shichao Lian, Millet Research Institute, Shanxi Agricultural University, Changzhi, China
Yuxin Li, Millet Research Institute, Shanxi Agricultural University, Changzhi, China
Yanfang Li, Millet Research Institute, Shanxi Agricultural University, Changzhi, China
Chuchu Tang, College of Agriculture, Shanxi Agricultural University, Taigu, Shanxi, China
Linyi Zhang, Millet Research Institute, Shanxi Agricultural University, Changzhi, China
Jun Wang, Millet Research Institute, Shanxi Agricultural University, Changzhi, China
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