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Fine Mapping and Candidate Gene Prediction of the Quantitative Trait Locus qPL8 for Panicle Length in Rice

Lin Zhang1,2,*, Yiting Zou1, Zhong Bian1, Dong Xie1, Hadi Yeilaghi1, Xiaolei Fan1,2, Dongsheng Zhao1,2, Qiaoquan Liu1,2,*
1 Joint International Research Laboratory of Agriculture and Agri-Product Safety of the Ministry of Education, Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding, Yangzhou University, Yangzhou, 225009, China
2 Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Jiangsu Key Laboratory of Crop Genetics and Physiology, Yangzhou University, Yangzhou, 225009, China
* Corresponding Authors: Qiaoquan Liu. Email: ; Lin Zhang. Email:
(This article belongs to this Special Issue: High-Yield Rice Physiology & Genetics)

Phyton-International Journal of Experimental Botany 2021, 90(3), 789-802. https://doi.org/10.32604/phyton.2021.014880

Received 04 November 2020; Accepted 24 November 2020; Issue published 30 March 2021

Abstract

Rice panicle is the sink organ where assimilation product accumulates, and its morphology determines the rice yield. Panicle length has been suggested as a yield-related trait, but the genetic factor for its control is still limited. In this study, we carried out fine-mapping of qPL8, a QTL identified for panicle length in our previous work. Near isogenic line (NIL) with qPL8 exhibited elongated panicle without obvious effect on other panicle elements. With five key recombinants from NIL population, the locus was finally narrowed down to a 278-kb region, where 44 genes are annotated. By comparing the genomic sequence of two parents, 17 genes were identified with SNPs or InDels variations in the coding region. Expression analysis showed that eight genes were up-regulated in the NIL with qPL8. Considering both the coding variation and expression status, several candidate genes for the locus were identified, and OsMADS37 was raised as the most possible candidate. Interestingly, an expression QTL (eQTL) also resides in the locus, leading to a cluster of gene expression variation in the region. This study will facilitate the application of qPL8 locus in rice breeding for yield potential.

Keywords

Rice; QTL; panicle length; fine mapping; qPL8

Cite This Article

Zhang, L., Zou, Y., Bian, Z., Xie, D., Yeilaghi, H. et al. (2021). Fine Mapping and Candidate Gene Prediction of the Quantitative Trait Locus qPL8 for Panicle Length in Rice. Phyton-International Journal of Experimental Botany, 90(3), 789–802.

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This work is licensed under a Creative Commons Attribution 4.0 International License , which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
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