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Chen, Jun; Tang, Weihua; Hong, Meng-Min; Wang, Zongyang

doi:10.1023/a:1024854101965

Cited by 11 publications

(4 citation statements)

References 31 publications

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“…Closer examination of the region showed that it sits between the dwarf gene OsBP-73 (Os03g0183100) and a plant height gene TIFY11b (Os03g0181100), which are located ~21 kb upstream and ~84 kb downstream, respectively. The dwarf gene OsBP-73 inhibits plant growth by reducing tiller number and panicle number and shortening culms (Chen et al, 2003), whereas TIFY11b increases plant height and increases seed size by pronounced accumulation of stem carbohydrates (Nakamura et al, 2007;Hakata et al, 2012). Previous studies have reported similar pleiotropic observations between HD and grain length in a chromosomal region; an example of this is the Ghd8 gene, which affects grain yield, HD, and PHt (Yan et al, 2011).…”

Section: Genome-wide Association Analysis Of the Rcs Diversity Panelmentioning

confidence: 72%

Association Analysis of Three Diverse Rice (Oryza sativa L.) Germplasm Collections for Loci Regulating Grain Quality Traits

et al. 2019

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Core Ideas We characterized core and minicore subsets of the USDA National Small Grains Collection of global rice accessions for grain quality. We identified loci and candidate genes for grain quality and grain chalk traits in rice diversity panels. We detected loci with pleiotropic effects across multiple grain quality and agronomic traits. We demonstrated the utility for genome‐wide association (GWA) discovery in a minicore selected to maximize diversity with a minimal panel size. Rice (Oryza sativa L.) end‐use cooking quality is vital for producers and billions of consumers worldwide. Grain quality is a complex trait with interacting genetic and environmental factors. Deciphering the complex genetic architecture associated with grain quality provides essential information for improved breeding strategies to enhance desirable traits that are stable across variable climatic and environmental conditions. In this study, genome‐wide association (GWA) analysis of three rice diversity panels, the USDA rice core subset (1364 accessions), the minicore (MC) (173 accessions after removing non‐sativa), and the high density rice array–MC (HDMC) (383 accessions), with simple sequence repeats, single nucleotide polymorphic markers, or both, revealed large‐ and small‐effect loci associated with known genes and previously uncharacterized genomic regions. Clustering of the significant regions in the GWA results suggests that multiple grain quality traits are inherited together. The 11 novel candidate loci for grain quality traits and the seven candidates for grain chalk identified are involved in the starch biosynthesis pathway. This study highlights the intricate pleiotropic relationships that exist in complex genotype–phenotypic associations and gives a greater insight into effective breeding strategies for grain quality improvement.

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Section: Genome-wide Association Analysis Of the Rcs Diversity Panelmentioning

confidence: 72%

Association Analysis of Three Diverse Rice (Oryza sativa L.) Germplasm Collections for Loci Regulating Grain Quality Traits

et al. 2019

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“…The previously described rice protein OsBP-73 (Os03g0183100) was assumed to bind DNA (44) and exhibits 35% sequence similarity to the N-terminal part of RHON1. An in vitro interaction with the promoter of the nuclear waxy gene in rice suggested localization of OsBP-73 in the nucleus where it functions as transcription factor.…”

Section: Resultsmentioning

confidence: 99%

RHON1 is a novel ribonucleic acid-binding protein that supports RNase E function in the Arabidopsis chloroplast

Stoppel

Manavski

Schein

et al. 2012

Nucleic Acids Research

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The Arabidopsis endonuclease RNase E (RNE) is localized in the chloroplast and is involved in processing of plastid ribonucleic acids (RNAs). By expression of a tandem affinity purification-tagged version of the plastid RNE in the Arabidopsis rne mutant background in combination with mass spectrometry, we identified the novel vascular plant-specific and co-regulated interaction partner of RNE, designated RHON1. RHON1 is essential for photoautotrophic growth and together with RNE forms a distinct ∼800 kDa complex. Additionally, RHON1 is part of various smaller RNA-containing complexes. RIP-chip and other association studies revealed that a helix-extended-helix-structured Rho-N motif at the C-terminus of RHON1 binds to and supports processing of specific plastid RNAs. In all respects, such as plastid RNA precursor accumulation, protein pattern, increased number and decreased size of chloroplasts and defective chloroplast development, the phenotype of rhon1 knockout mutants resembles that of rne lines. This strongly suggests that RHON1 supports RNE functions presumably by conferring sequence specificity to the endonuclease.

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“…Furthermore, experiments performed on transgenic rice plants containing a 3-glucuronidase (GUS) reporter gene controlled by the Wx promoter with the 31 bp sequence present synthesized 2-3 times the amount of GUS as plants carrying the reporter gene and a Wx promoter with the 31 bp sequence deleted. These results indicated that the 31 bp sequence plays an important role in the transcriptional regulation of the rice Wx gene (Chen et al 2003a;Yang et al 2002;Zhu et al 2003).…”

Section: Cloning and Functional Identification Of Genes Of Agronomic mentioning

confidence: 78%

Rice functional genomics research in China

Han

Xue

et al. 2007

Phil. Trans. R. Soc. B

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Rice functional genomics is a scientific approach that seeks to identify and define the function of rice genes, and uncover when and how genes work together to produce phenotypic traits. Rapid progress in rice genome sequencing has facilitated research in rice functional genomics in China. The Ministry of Science and Technology of China has funded two major rice functional genomics research programmes for building up the infrastructures of the functional genomics study such as developing rice functional genomics tools and resources. The programmes were also aimed at cloning and functional analyses of a number of genes controlling important agronomic traits from rice. National and international collaborations on rice functional genomics study are accelerating rice gene discovery and application.

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Untitled

Cited by 11 publications

References 31 publications

Association Analysis of Three Diverse Rice (Oryza sativa L.) Germplasm Collections for Loci Regulating Grain Quality Traits

Association Analysis of Three Diverse Rice (Oryza sativa L.) Germplasm Collections for Loci Regulating Grain Quality Traits

RHON1 is a novel ribonucleic acid-binding protein that supports RNase E function in the Arabidopsis chloroplast

Rice functional genomics research in China

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