QTLs and analysis of the candidate gene for amylose, protein, and moisture content in rice (Oryza sativa L.)

Bruno, Ester; Choi, Yun-Sik; Chung, Il Kyung; Kim, Kyung–Min

doi:10.1007/s13205-017-0687-8

Cited by 18 publications

(11 citation statements)

References 18 publications

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“…We still noted that qGPC5 was repeatedly identified as qRPC5 for rice protein content in the interval RG435-RG172a using a doubled haploid population [16]. Although qGPC7 was only detected in 2016, four QTLs were located in the same or adjacent regions as reported by previous studies [3,4,8,17]. On the chromosome 8, qGPC8 showed overlapping intervals with cp8.1, qPC-8a and TGP8, which have been identified using different populations in different environments [4,18,24].…”

Section: Discussionsupporting

confidence: 68%

“…Quantitative trait locus (QTL) analysis is the main strategy for dissecting the genetic mechanism underlying a target quantitative trait. During the past two decades, hundreds of QTLs for GPC in rice were detected throughout the entire 12 chromosomes, using different mapping populations, including the recombinant inbred line (RIL) [3,[8][9][10][11][12][13], double haploid population [14][15][16][17], chromosome segment substitution line [4,18,19] and the backcross-inbred population [20]. As GPC is sensible to environmental factors, QTLs controlling the GPC are difficult to be repeatedly identified in different populations, or in the same population under different environments [19].…”

Section: Introductionmentioning

confidence: 99%

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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

Guan

Yingguo

et al. 2020

IJMS

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To 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.

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Section: Discussionsupporting

confidence: 68%

Section: Introductionmentioning

confidence: 99%

Genome-Wide Identification of QTLs for Grain Protein Content Based on Genotyping-by-Resequencing and Verification of qGPC1-1 in Rice

Guan

Yingguo

et al. 2020

IJMS

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“…These results may be helpful to introgress the QTL for GPC into rice cultivars using marker-assisted selection. In one study, Bruno et al [46] observed compromised heritability percentage for protein while higher heritability percentage for the amylose content in a DH population derived from a cross between Cheongcheong and Nagdong. They mapped a QTL for GPC on chromosome 7 linked with the marker RM8261, explaining 14% of PVE.…”

Section: Protein Content In Ricementioning

confidence: 99%

Breeding for Biofortification Traits in Rice: Means to Eradicate Hidden Hunger

Sharma¹,

Saini²,

Kumar³

et al. 2020

Agronomy - Climate Change and Food Security

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Rice (Oryza sativa L.) supplies nourishment to about half of the population of the world's inhabitants. Of them, more than 2 billion people suffer from 'hidden hunger' in which they are unable to meet the recommended nutrients or micronutrients from their daily dietary intake. Biofortification refers to developing micronutrient-rich diet foods using traditional breeding methods and modern biotechnology, a promising approach to nutrition enrichment as part of an integrated strategy for food systems. To improve the profile of rice grain for the biofortification-related traits, understanding the genetics of important biofortification traits is required. Moreover, these attributes are quantitative in nature and are influenced by several genes and environmental variables. In the course of past decades, several endeavours such as finding the important quantitative trait loci (QTLs) for improving the nutrient profile of rice seeds were successfully undertaken. In this review, we have presented the information regarding the QTLs identified for the biofortification traits in the rice.

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“…QTLs controlling FC are governed by time-dependent gene expression; Wang et al [ 48 ] revealed different expression patterns of FC-related QTLs at the grain filling stage. The possible mechanisms and QTLs responsible for amino acid content have been characterized by many researchers [ 49 , 50 ]. In addition, several QTLs responsible for mineral accumulation in rice have been characterized [ 51 ].…”

Section: Genetics and Genomics Of Rice Grain Qualitymentioning

confidence: 99%

Applications of the CRISPR/Cas9 System for Rice Grain Quality Improvement: Perspectives and Opportunities

Fiaz

Ahmad

Noor

et al. 2019

IJMS

110

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Grain quality improvement is a key target for rice breeders, along with yield. It is a multigenic trait that is simultaneously influenced by many factors. Over the past few decades, breeding for semi-dwarf cultivars and hybrids has significantly contributed to the attainment of high yield demands but reduced grain quality, which thus needs the attention of researchers. The availability of rice genome sequences has facilitated gene discovery, targeted mutagenesis, and revealed functional aspects of rice grain quality attributes. Some success has been achieved through the application of molecular markers to understand the genetic mechanisms for better rice grain quality; however, researchers have opted for novel strategies. Genomic alteration employing genome editing technologies (GETs) like clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated protein 9 (Cas9) for reverse genetics has opened new avenues of research in the life sciences, including for rice grain quality improvement. Currently, CRISPR/Cas9 technology is widely used by researchers for genome editing to achieve the desired biological objectives, because of its simple targeting. Over the past few years many genes that are related to various aspects of rice grain quality have been successfully edited via CRISPR/Cas9 technology. Interestingly, studies on functional genomics at larger scales have become possible because of the availability of GETs. In this review, we discuss the progress made in rice by employing the CRISPR/Cas9 editing system and its eminent applications. We also elaborate possible future avenues of research with this system, and our understanding regarding the biological mechanism of rice grain quality improvement.

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QTLs and analysis of the candidate gene for amylose, protein, and moisture content in rice (Oryza sativa L.)

Cited by 18 publications

References 18 publications

Genome-Wide Identification of QTLs for Grain Protein Content Based on Genotyping-by-Resequencing and Verification of qGPC1-1 in Rice

Genome-Wide Identification of QTLs for Grain Protein Content Based on Genotyping-by-Resequencing and Verification of qGPC1-1 in Rice

Breeding for Biofortification Traits in Rice: Means to Eradicate Hidden Hunger

Applications of the CRISPR/Cas9 System for Rice Grain Quality Improvement: Perspectives and Opportunities

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