Mapping of QTL for Chlorophyll Content in Rice on High-Density Bin Map

Junfeng PAN; Kehui CUI; Yanzhuo LIU; Xinyu WANG; Boyu YAN; Kaiming LIANG

doi:10.16768/j.issn.1004-874X.2022.09.014

Guangdong nongye kexue (Sep 2022)

Mapping of QTL for Chlorophyll Content in Rice on High-Density Bin Map

Junfeng PAN,
Kehui CUI,
Yanzhuo LIU,
Xinyu WANG,
Boyu YAN,
Kaiming LIANG

Affiliations

Junfeng PAN: Rice Research Institute, Guangdong Academy of Agricultural Sciences/Guangdong Key Laboratory of New Technology for Rice Breeding/Guangdong Rice Engineering Laboratory/Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
Kehui CUI: College of Plant Science and Technology, Huazhong Agricultural University/National Key Laboratory of Crop Genetic Improvement/Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, Ministry of Agriculture and Rural Affairs, Wuhan 430070, China
Yanzhuo LIU: Rice Research Institute, Guangdong Academy of Agricultural Sciences/Guangdong Key Laboratory of New Technology for Rice Breeding/Guangdong Rice Engineering Laboratory/Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
Xinyu WANG: Rice Research Institute, Guangdong Academy of Agricultural Sciences/Guangdong Key Laboratory of New Technology for Rice Breeding/Guangdong Rice Engineering Laboratory/Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
Boyu YAN: Rice Research Institute, Guangdong Academy of Agricultural Sciences/Guangdong Key Laboratory of New Technology for Rice Breeding/Guangdong Rice Engineering Laboratory/Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
Kaiming LIANG: Rice Research Institute, Guangdong Academy of Agricultural Sciences/Guangdong Key Laboratory of New Technology for Rice Breeding/Guangdong Rice Engineering Laboratory/Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China

DOI: https://doi.org/10.16768/j.issn.1004-874X.2022.09.014
Journal volume & issue: Vol. 49, no. 9
pp. 132 – 140

Abstract

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【Objective】The research explored the genetic mechanism for regulating chlorophyll content and its response to nitrogen (N) fertilizer in rice, and provide new molecular marker segments for breeding of high-yield and nitrogen- efficient rice varieties.【Method】The 113 family lines of ZS 97 × MH 63 recombinant inbred lines (RIL, F11) were adopted as tested materials for QTL analysis. Field experiments were performed with split-plot design, N fertilizer rate being the main plots and RIL being subplots. The low N (no N) and normal N (130, 135 N kg/hm2) fertilizer treatments were established in the fields. The chlorophyll meter was used to determine SPAD values of leaves at 30 days after transplanting (30 DAT) and at heading (HD) stage. By using a high-density genetic map containing 1 619 Bin markers, IciMappingv3.4 software and complete interval mapping, QTL for controlling leaf chlorophyll content at two growth stages was mapped.【Result】In two N treatments at two growth stages within two years, a total of 15 QTLs for controlling leaf chlorophyll content were detected and they were located on chromosomes 1, 2, 3, 6, 7, 10 and 11. Each single QTL could explain 1.21%-40.74% of genetic contributions to traits. Through comparison of their physical loci, 6 QTLs were found to have been cloned or have the same loci being known previously for chlorophyll content. Among them, a locus, named qHDCHL6-1, regulating the chlorophyll content of flag leaf at heading stage was detected at 8.45-9.12Mb of chromosome 6. It was stably detected under two N treatments in two years, which explained 1.55%-28.01% of contributions to traits. Through functional annotation, 4 candidate genes related to chlorophyll content of flag leaf were found in the qHDCHL6-1 chromosome interval. These genes were LOC_Os06g15370 (OsNPF3.1), LOC_Os06g15420 (OsAS2), LOC_Os06g15620 (GAS) and LOC_Os06g15590, and the first three of these genes have been cloned【Conclusion】15 QTLs controlling leaf chlorophyll content of rice at 30 DAT and HD stage are detected, and a QTL locus qHDCHL6-1 with stable expression was identified, which contains 4 candidate genes.

Published in Guangdong nongye kexue

ISSN: 1004-874X (Print)
Publisher: Guangdong Academy of Agricultural Sciences
Country of publisher: China
LCC subjects: Agriculture
Website: http://gdnykx.cnjournals.org/gdnykx/ch/index.aspx

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