Journal ArticleDOI
Copy number variation at the GL7 locus contributes to grain size diversity in rice
Yuexing Wang,Yuexing Wang,Guosheng Xiong,Jiang Hu,Liang Jiang,Hong Yu,Jie Xu,Yunxia Fang,Longjun Zeng,Erbo Xu,Jing Xu,Weijun Ye,Xiangbing Meng,Ruifang Liu,Hongqi Chen,Yanhui Jing,Yonghong Wang,Xudong Zhu,Jiayang Li,Qian Qian +19 more
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TLDR
Li and Xudong Zhu as mentioned in this paper reported cloning of the Grain Length on Chromosome 7 (GL7) locus in rice and identified a copy number variant that increases grain length and improves grain quality.Abstract:
Jiayang Li, Xudong Zhu, Qian Qian and colleagues report cloning of the Grain Length on Chromosome 7 (GL7) locus in rice and identify a copy number variant that increases grain length and improves grain quality. They demonstrate how interactions with other grain length–related genes may be used to improve breeding.read more
Citations
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Genomic variation in 3,010 diverse accessions of Asian cultivated rice
Wensheng Wang,Ramil Mauleon,Zhiqiang Hu,Dmytro Chebotarov,Shuaishuai Tai,Zhichao Wu,Min Li,Tianqing Zheng,Roven Rommel Fuentes,Fan Zhang,Locedie Mansueto,Dario Copetti,Dario Copetti,Millicent D. Sanciangco,Kevin Palis,Jianlong Xu,Chen Sun,Binying Fu,Hongliang Zhang,Yongming Gao,Xiuqin Zhao,Fei Shen,Xiao Cui,Hong Yu,Zichao Li,Miaolin Chen,Jeffrey Detras,Yongli Zhou,Xinyuan Zhang,Yue Zhao,Dave Kudrna,Chunchao Wang,Rui Li,Jia Ben,Jinyuan Lu,Xianchang He,Zhaotong Dong,Jiabao Xu,Yanhong Li,Miao Wang,Jianxin Shi,Jing Li,Dabing Zhang,Seunghee Lee,Wushu Hu,Alexander Poliakov,Inna Dubchak,Inna Dubchak,Victor Jun Ulat,Frances Nikki Borja,John Robert Mendoza,Jauhar Ali,Qiang Gao,Yongchao Niu,Zhen Yue,Ma. Elizabeth B. Naredo,Jayson Talag,Xueqiang Wang,Jinjie Li,Xiaodong Fang,Ye Yin,Jean-Christophe Glaszmann,Jianwei Zhang,Jiayang Li,Ruaraidh Sackville Hamilton,Rod A. Wing,Rod A. Wing,Jue Ruan,Gengyun Zhang,Chaochun Wei,Nickolai Alexandrov,Kenneth L. McNally,Zhikang Li,Hei Leung +73 more
TL;DR: Analyses of genetic variation and population structure based on over 3,000 cultivated rice (Oryza sativa) genomes reveal subpopulations that correlate with geographic location and patterns of introgression consistent with multiple rice domestication events.
Journal ArticleDOI
Evolution of Gene Duplication in Plants.
TL;DR: This review surveys the current knowledge about gene duplication, including gene duplication mechanisms, the potential fates of duplicate genes, models explaining duplicate gene retention, the properties that distinguish duplicate from singleton genes, and the evolutionary impact of gene duplication.
Journal ArticleDOI
OsSPL13 controls grain size in cultivated rice
Lizhen Si,Jiaying Chen,Xuehui Huang,Hao Gong,Jianghong Luo,Qingqing Hou,Taoying Zhou,Tingting Lu,Jingjie Zhu,Yingying Shangguan,Erwang Chen,Chengxiang Gong,Qiang Zhao,Yufeng Jing,Yan Zhao,Yan Li,Lingling Cui,Danlin Fan,Yiqi Lu,Qijun Weng,Yongchun Wang,Qilin Zhan,Kunyan Liu,Xinghua Wei,Kyungsook An,Gynheung An,Bin Han +26 more
TL;DR: This study reports that a major quantitative trait locus, GLW7, encoding the plant-specific transcription factor OsSPL13, positively regulates cell size in the grain hull, resulting in enhanced rice grain length and yield and demonstrates that new genes can be effectively identified on the basis of genome-wide association data.
Journal ArticleDOI
Genome-wide association study using whole-genome sequencing rapidly identifies new genes influencing agronomic traits in rice
Kenji Yano,Eiji Yamamoto,Koichiro Aya,Hideyuki Takeuchi,Pei Ching Lo,Li Hu,Masanori Yamasaki,Shinya Yoshida,Hidemi Kitano,Ko Hirano,Makoto Matsuoka +10 more
TL;DR: In this paper, the authors identified agronomically important genes in rice using GWAS based on whole-genome sequencing, followed by the screening of candidate genes based on the estimated effect of nucleotide polymorphisms.
References
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Journal ArticleDOI
Efficient transformation of rice (Oryza sativa L.) mediated by Agrobacterium and sequence analysis of the boundaries of the T-DNA.
TL;DR: A large number of morphologically normal, fertile, transgenic rice plants were obtained by co-cultivation of rice tissues with Agrobacterium tumefaciens, and sequence analysis revealed that the boundaries of the T-DNA in transgenic Rice plants were essentially identical to those intransgenic dicotyledons.
Journal ArticleDOI
Relative Impact of Nucleotide and Copy Number Variation on Gene Expression Phenotypes
Barbara E. Stranger,Matthew S. Forrest,Mark J Dunning,Catherine E. Ingle,Claude Beazley,Natalie P. Thorne,Richard Redon,Christine P. Bird,Anna De Grassi,Charles Lee,Charles Lee,Chris Tyler-Smith,Nigel P. Carter,Stephen W. Scherer,Stephen W. Scherer,Simon Tavaré,Simon Tavaré,Panagiotis Deloukas,Matthew E. Hurles,Emmanouil T. Dermitzakis +19 more
TL;DR: To determine the overall contribution of CNVs to complex phenotypes, association analyses of expression levels with SNPs and CNVs in individuals who are part of the International HapMap project show little overlap between the two types of variation.
Journal ArticleDOI
Visualization of protein interactions in living plant cells using bimolecular fluorescence complementation.
Michael Walter,Christina Chaban,Katia Schütze,Oliver Batistič,Katrin Weckermann,Christian Näke,Dragica Blazevic,Christopher Grefen,Karin Schumacher,Claudia Oecking,Klaus Harter,Jörg Kudla +11 more
TL;DR: The implementation of a bimolecular fluorescence complementation technique for visualization of protein-protein interactions in plant cells revealed a remarkable signal fluorescence intensity of interacting protein complexes as well as a high reproducibility and technical simplicity of the method in different plant systems.
Journal ArticleDOI
A QTL for rice grain width and weight encodes a previously unknown RING-type E3 ubiquitin ligase
TL;DR: The cloning and characterization of GW2 is reported, a new QTL that controls rice grain width and weight and suggests that GW2 negatively regulates cell division by targeting its substrate(s) to proteasomes for regulated proteolysis.
Journal ArticleDOI
GS3, a major QTL for grain length and weight and minor QTL for grain width and thickness in rice, encodes a putative transmembrane protein
Chuchuan Fan,Yongzhong Xing,Hailiang Mao,Tingting Lu,Bin Han,Caiguo Xu,Xianghua Li,Qifa Zhang +7 more
TL;DR: Analysis of a random subpopulation of 201 individuals from the BC3F2 progeny confirmed that the GS3 locus explained 80–90% of the variation for grain weight and length in this population, and this locus was resolved as a minor QTL for grain width and thickness.