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Genome-Wide Identification of QTLs for Grain Protein Content Based on Genotyping-by-Resequencing and Verification of qGPC1-1 in Rice
Wu, Yi-Bo; Li, Guan; Zhu, Yu-Jun; Cheng, Yi-Chen; Yang, Jin-Yu; Chen, Hui-Zhe; Song, Xian-Jun; Ying, Jie-Zheng
2020
Source PublicationINTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
Volume21Issue:2
AbstractTo clarify the genetic mechanism underlying grain protein content (GPC) and to improve rice grain qualities, the mapping and cloning of quantitative trait loci (QTLs) controlling the natural variation of GPC are very important. Based on genotyping-by-resequencing, a total of 14 QTLs were detected with the Huanghuazhan/Jizi1560 (HHZ/JZ1560) recombinant inbred line (RIL) population in 2016 and 2017. Seven of the fourteen QTLs were repeatedly identified across two years. Using three residual heterozygote-derived populations, a stably inherited QTL named as qGPC1-1 was validated and delimited to a 862 kb marker interval JD1006-JD1075 on the short arm of chromosome 1. Comparing the GPC values of the RIL population determined by near infrared reflectance spectroscopy (NIRS) and Kjeldahl nitrogen determination (KND) methods, high correlation coefficients (0.966 and 0.983) were observed in 2016 and 2017. Furthermore, 12 of the 14 QTLs were identically identified with the GPC measured by the two methods. These results indicated that instead of the traditional KND method, the rapid and easy-to-operate NIRS was suitable for analyzing a massive number of samples in mapping and cloning QTLs for GPC. Using the gel-based low-density map consisted of 208 simple sequence repeat (SSR) and insert/deletion (InDel) markers, the same number of QTLs (fourteen) were identified in the same HHZ/JZ1560 RIL population, and three QTLs were repeatedly detected across two years. More stably expressed QTLs were identified based on the genome resequencing, which might be attributed to the high-density map, increasing the detection power of minor QTLs. Our results are helpful in dissecting the genetic basis of GPC and improving rice grain qualities through molecular assisted selection.
Keywordquantitative trait locus grain protein content single nucleotide polymorphism residual heterozygote rice (Oryza sativa) specific length amplified fragment sequencing Kjeldahl nitrogen determination near infrared reflectance spectroscopy
Subject AreaBiochemistry & Molecular Biology ; Chemistry, Multidisciplinary
DOI10.3390/ijms21020408
Indexed BySCI
Language英语
WOS KeywordQUANTITATIVE TRAIT LOCI ; QUALITY TRAITS ; LINE POPULATION ; AMYLOSE CONTENT ; CHALKINESS ; PLANT
WOS Research AreaBiochemistry & Molecular Biology ; Chemistry
WOS IDWOS:000515380000038
PublisherMDPI
SubtypeArticle
Publication PlaceBASEL
EISSN1422-0067
Funding OrganizationChinese High-yielding Transgenic Program [2016ZX08001-004]
Corresponding Author Email15978677129@163.com ; li@ricescience.org ; yjzhu2013@163.com ; 13872209530@163.com ; yang_15271211512@163.com ; chenhuizhe@163.com ; songxj@ibcas.ac.cn ; yingjiezheng@caas.cn
Citation statistics
Cited Times:4[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ibcas.ac.cn/handle/2S10CLM1/21893
Collection中科院植物分子生理学重点实验室
Affiliation1.[Wu, Yi-Bo
2.Li, Guan
3.Zhu, Yu-Jun
4.Cheng, Yi-Chen
5.Yang, Jin-Yu
6.Chen, Hui-Zhe
7.China Natl Rice Res Inst, State Key Lab Rice Biol, Hangzhou 310006, Peoples R China
8.China Natl Rice Res Inst, Chinese Natl Ctr Rice Improvement, Hangzhou 310006, Peoples R China
9.Chinese Acad Sci, Inst Bot, Key Lab Plant Mol Physiol, Beijing 100093, Peoples R China
Recommended Citation
GB/T 7714
Wu, Yi-Bo,Li, Guan,Zhu, Yu-Jun,et al. Genome-Wide Identification of QTLs for Grain Protein Content Based on Genotyping-by-Resequencing and Verification of qGPC1-1 in Rice[J]. INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES,2020,21(2).
APA Wu, Yi-Bo.,Li, Guan.,Zhu, Yu-Jun.,Cheng, Yi-Chen.,Yang, Jin-Yu.,...&Ying, Jie-Zheng.(2020).Genome-Wide Identification of QTLs for Grain Protein Content Based on Genotyping-by-Resequencing and Verification of qGPC1-1 in Rice.INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES,21(2).
MLA Wu, Yi-Bo,et al."Genome-Wide Identification of QTLs for Grain Protein Content Based on Genotyping-by-Resequencing and Verification of qGPC1-1 in Rice".INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES 21.2(2020).
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