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| 1 | A Rare Allele of GS2 Enhances Grain Size anc Grain Yield in Rice显示文摘谷物尺寸决定谷物重量并且影响谷物质量。调整谷物尺寸的几主要量的特点 loci (QTL ) 被克隆;然而,我们调整米饭谷物的尺寸的内在的机制的理解仍然保持碎片。这里,我们报导克隆和主导的 QTL 的描述,染色体 2 上的谷物尺寸(GS2 ) 编码调整生长的因素 4,一个 transcriptional 管理者。GS2 本地化到原子核并且可以充当抄写使活跃之物。影响 microRNA 的有约束力的地点的 GS2 的一个稀罕变化, OsmiR396c,原因提高了 GS2/OsGRF4 的表示。GS2 表示的增加导致更大的房间和房间的增加的数字,它因此提高谷物重量和产量。进米饭栽培变种的 GS2/OsGRF4 的这稀罕等位基因的介绍能显著地提高谷物重量和增加谷物产量,用在引起产量很高的米饭变化的可能的应用。 | Jiang Hu Yuexing Wang Yunxia Fang Longjun Zeng Jie Xu Haiping Yu Zhenyuan Shi Jiangjie Pan Dong Zhang Shujing Kang Li Zhu Guojun Dong Longbiao Guo Dali Zeng Guangheng Zhang Lihong Xie Guosheng Xiong Jiayang Li Qian Qian | 2015 | Molecular Plant2015，8，10： | 57 |
| 2 | A Strigolactone Biosynthesis Gene Contributed to the Green Revolution in Rice显示文摘Plant architecture is a complex agronomic trait and a major factor of crop yield,which is affected by several important hormones.Strigolactones(SLs)are identified as a new class hormoneinhibiting branching in many plant species and have been shown to be involved in various developmental processes.Genetical and chemical modulation of the SL pathway is recognized as a promising approach to modify plant architecture.However,whether and how the genes involved in the SL pathway could be utilized in breeding still remain elusive.Here,we demonstrate that a partial loss-of-function allele of the SL biosynthesis gene,HIGH TILLERING AND DWARF 1/DWARF17(HTD1/D17),which encodes CAROTENOID CLEAVAGE DIOXYGENASE 7(CCD7),increases tiller number and improves grain yield in rice.We found that the HTD1 gene had been widely utilized and co-selected with Semidwarf 1(SD1),both contributing to the improvement of plant architecture in modern rice varieties since the Green Revolution in the 1960s.Understanding how phytohormone pathway genes regulate plant architecture and how they have been utilized and selected in breeding will lay the foundation for developing the rational approaches toward improving crop yield. | Yuexing Wang Lianguang Shang Hong Yu Longjun Zeng Jiang Hu Shen Ni Yuchun Rao Sanfeng Li Jinfang Chu Xiangbing Meng Lei Wang Ping Hu Jijun Yan Shujing Kang Minghao Qu Hai Lin Tao Wang Quan Wang Xingming Hu Hongqi Chen Bing Wang Zhenyu Gao Longbiao Guo Dali Zeng Xudong Zhu Guosheng Xiong Jiayang Li Qian Qian | 2020 | Molecular Plant2020，13，6： | 23 |
| 3 | ABNORMAL FLOWER AND GRAIN 1 encodes OsMADS6 and determines palea identity and affects rice grain yield and quality显示文摘The palea and lemma are floral organ structures unique to grasses;these structures form the hull and directly affect grain size and quality. However, the molecular mechanisms controlling the development of the hull are not well understood. In this study, we characterized the rice(Oryza sativa) abnormal flower and grain1(afg1) mutant, a new allele of OsMADS6. Similar to previously characterized osmads6 alleles, in the afg1 floret, the palea lost its marginal region and acquired the lemma identity. However, in contrast to other osmads6 alleles, the afg1 mutant showed altered grain size and grain quality, with decreased total starch and amylose contents, and increased protein and soluble sugar contents. The analysis of transcriptional activity suggested that AFG1 is a transcriptional activator and may affect grain size by regulating the expression levels of several genes related to cell expansion and proliferation in the afg1 mutant. These results revealed that AFG1 plays an important role in determining palea identity and affecting grain yield and quality in rice. | Xiaoqi Yu Saisai Xia Qiankun Xu Yuanjiang Cui Ming Gong Dali Zeng Qiang Zhang Lan Shen Guiai Jiao Zhenyu Gao Jiang Hu Guangheng Zhang Li Zhu Longbiao Guo Deyong Ren Qian Qian | 2020 | Science China(Life Sciences)2020，63，2： | 10 |
| 4 | The pleiotropic ABNORMAL FLOWER AND DWARF1 affects plant height, floral development and grain yield in rice显示文摘Moderate plant height and successful establishment of reproductive organs play pivotal roles in rice grain production. The molecular mechanism that controls the two aspects remains unclear in rice. In the present study,we characterized a rice gene, ABNORMAL FLOWER AND DWARF1(AFD1) that determined plant height, floral development and grain yield. The afd1 mutant showed variable defects including the dwarfism, long panicle, low seed setting and reduced grain yield. In addition, abnormal floral organs were also observed in the afd1 mutant including slender and thick hulls, and hull-like lodicules.AFD1 encoded a DUF640 domain protein and was expressed in all tested tissues and organs. Subcellular localization showed AFD1-green fluorescent fusion protein(GFP) was localized in the nucleus. Meantime, our results suggested that AFD1 regulated the expression of cell division and expansion related genes. | Deyong Ren Yuchun Rao Liwen Wu Qiankun Xu Zizhuang Li Haiping Yu Yu Zhang Yujia Leng Jiang Hu Li Zhu Zhenyu Gao Guojun Dong Guangheng Zhang Longbiao Guo Dali Zeng Qian Qian | 2016 | Journal of Integrative Plant Biology2016，58，6： | 4 |
| 5 | Conditional and unconditional mapping of quantitative trait loci underlying plant height and tiller number in rice (Oryza sativa L.) grown at two nitrogen levels显示文摘在这研究,我们使用了 127 两倍 haploid (DH ) 分析米饭的农业特点的线。DH 线,源于 ZYQ8 (indica )/JX17 (装饰用的梨树) 由花药文化的十字,包含了 160 RFLP 和 83 个 SSR 标记。印射的无条件、有条件的量的特点 loci (QTL ) 在在二个氮层次是成年的五个生长阶段每植物(TP ) 被进行到分析植物高度(PH ) 并且到 ers 为止。十四 PH 和 13 TP 无条件的 QTL 在不同生长阶段被识别,包括 19 QTL 从高氮(HN ) 并且 14 QTL 从低氮(行) 条件。为在 LN/HN 条件下面的 14 个 genomic 区域的有条件的 QTL 证明越过不同阶段 PH 和 TP 上有重要效果。仅仅一有条件的 QTL, ph2-3,是不能的在无条件的印射被检测。更多的 QTL 比在期末考试在开始的四个米饭生长阶段被检测舞台。而且,从印射人口的 DH 的一根线, DH78,在展出了侏儒症和到少些为止(dft ) 的 PH 和 TP 的极端显型被识别人物。基因 dft1 通过基于地图的克隆策略被印射到用 DH78/JX17 的一张 backcrossed 人口的染色体 2。dft1 的地点与 small-LOD 山峰, QTL ph2 和 tp2 的印射的区域与一致,它在处于低氮的条件种的植物被识别。进一步的 backcrossing 并且好印射成功地限定了 dft1 地点到 91 kb 区域。 | Hua Jiang Liang Jiang Longbiao Guo Zhenvu Gao Dali Zeng Lihuang Zhu Guohua Liang Qian Qian | 2008 | Progress in Natural Science:Materials International2008，18，12： | 3 |
| 6 | A super pan-genomic landscape of rice显示文摘Pan-genomes from large natural populations can capture genetic diversity and reveal genomic complexity.Using de novo longread assembly,we generated a graph-based super pan-genome of rice consisting of a 251-accession panel comprising both cultivated and wild species of Asian and African rice.Our pan-genome reveals extensive structural variations(SVs)and gene presence/absence variations.Additionally,our pan-genome enables the accurate identification of nucleotide-binding leucine-rich repeat genes and characterization of their inter-and intraspecific diversity.Moreover,we uncovered grain weight-associated SVs which specify traits by affecting the expression of their nearby genes.We characterized genetic variants associated with submergence tolerance,seed shattering and plant architecture and found independent selection for a common set of genes that drove adaptation and domestication in Asian and African rice.This super pan-genome facilitates pinpointing of lineage-specific haplotypes for trait-associated genes and provides insights into the evolutionary events that have shaped the genomic architecture of various rice species. | Lianguang Shang Xiaoxia Li Huiying He Qiaoling Yuan Yanni Song Zhaoran Wei Hai Lin Min Hu Fengli Zhao Chao Zhang Yuhua Li Hongsheng Gao Tianyi Wang Xiangpei Liu Hong Zhang Ya Zhang Shuaimin Cao Xiaoman Yu Bintao Zhang Yong Zhang Yiqing Tan Mao Qin Cheng Ai Yingxue Yang Bin Zhang Zhiqiang Hu Hongru Wang Yang Lv Yuexing Wang Jie Ma Quan Wang Hongwei Lu Zhe Wu Shanlin Liu Zongyi Sun Hongliang Zhang Longbiao Guo Zichao Li Yongfeng Zhou Jiayang Li Zuofeng Zhu Guosheng Xiong Jue Ruan Qian Qian | 2022 | Cell Research2022，32，10： | 3 |
| 7 | Rapid Creation of New Photoperiod-/Thermo-Sensitive Genic Male-Sterile Rice Materials by CRISPR/Cas9 System显示文摘Rice is an important food crop in China, and the development of hybrid rice is a crucial way to increase grain yield. The creation of dual-purpose nuclear-sterile lines for two-line hybrid breeding has become vital for commercial rice breeding. We constructed the pC1300-2 x35 S::Cas9-sgRNA^(PTGMS2-1) expression vector for editing the male fertility gene PTGMS2-1 in two widely compatible rice varieties, 93-11 and Huazhan, by using the CRISPR/Cas9 system. We obtained the marker-free photoperiod-/thermo-sensitive genic male-sterile(P/TGMS) lines in T_1 generation. According to the experiments in phytotron with four temperature and photoperiod treatments, we found the temperature is the main factor for restoring the pollen fertility of ptgms2-1 mutants in 93-11 and Huazhan, and the photoperiod also has some effects on pollen fertility in two different rice backgrounds. The application of cultivating new male-sterile lines by genome editing system will significantly accelerate the rice breeding process. | SHEN Lan DONG Guojun ZHANG Yu HU Guocheng ZHANG Qiang HU Guanglian XU Bo REN Deyong HU Jiang ZHU Li GAO Zhenyu ZHANG Guangheng GUO Longbiao ZENG Dali QIAN Qian | 2019 | Rice science2019，26，2： | 3 |
| 8 | Identification and characterization of Mini1, a gene regulating rice shoot development显示文摘The aerial parts of higher plants are generated from the shoot apical meristem(SAM). In this study, we isolated a small rice(Oryza sativa L.) mutant that showed premature termination of shoot development and was named mini rice 1(mini1). The mutant was first isolated from a japonica cultivar Zhonghua11(ZH11) subjected to ethyl methanesulfonate(EMS)treatment. With bulked segregant analysis(BSA) and map-based cloning method, Mini1 gene was finally fine-mapped to an interval of 48.6 kb on chromosome 9. Sequence analyses revealed a single base substitution from G to A was found in the region, which resulted in an amino acid change from Gly to Asp.The candidate gene Os09g0363900 was predicted to encode a putative adhesion of calyx edges protein ACE(putative HOTHEAD precursor) and genetic complementation experiment confirmed the identity of Mini1. Os09g0363900 contains glucose-methanol-choline(GMC) oxidoreductase and NAD(P)-binding Rossmann-like domain, and exhibits high similarity to Arabidopsis HOTHEAD(HTH). Expression analysis indicated Mini1 was highly expressed in young shoots but lowly in roots and the expression level of most genes involved in auxin biosynthesis and signal transduction were reduced in mutant.We conclude that Mini1 plays an important role in maintaining SAM activity and promoting shoot development in rice. | Yunxia Fang Jiang Hu Jie Xu Haiping Yu Zhenyuan Shi Guosheng Xiong Li Zhu Dali Zeng Guangheng Zhang Zhenyu Gao Guojun Dong Meixian Yan Longbiao Guo Yonghong Wang Qian Qian | 2015 | Journal of Integrative Plant Biology2015，57，2： | 3 |
| 9 | Genome-wide association study and transcriptome analysis reveal new QTL and candidate genes for nitrogen-deficiency tolerance in rice显示文摘The development of rice cultivars with improved nitrogen use efficiency(NUE)is desirable for sustainable agriculture.Achieving this goal depends in part on understanding how rice responds to low soil nitrogen(N)and identifying causative genes underlying this trait.To identify quantitative trait loci(QTL)or genes associated with low N response,we conducted a genome-wide association study(GWAS)using a diverse panel of 230 rice accessions and performed a transcriptomic investigation of rice accessions with differential responses to low N stress at two N levels.We detected 411 GWAS-associated genes in 5 QTL and 2722 differentially expressed genes in response to low N,of which 24 were identified by both methods and ranked according to gene annotations,literature queries,gene expression,and genetic diversity analysis.The large-scale datasets obtained from this study reveal low N-responsive characteristics and provide insights towards understanding the regulatory mechanisms of N-deficiency tolerance in rice,and the candidate genes or QTL would be valuable resources for increasing rice NUE via molecular biotechnology. | Qing Li Xueli Lu Changjian Wang Lan Shen Liping Dai Jinli He Long Yang Peiyuan Li Yifeng Hong Qiang Zhang Guojun Dong Jiang Hu Guangheng Zhang Deyong Ren Zhenyu Gao Longbiao Guo Qian Qian Li Zhu Dali Zeng | 2022 | The Crop Journal2022，10，4： | 3 |
| 10 | Association of microRNA polymorphisms with the risk of head and neck squamous cell carcinoma in a Chinese population:a case-control study显示文摘Background:MicroRNA(miRNA) polymorphisms may alter miRNA-related processes,and they likely contribute to cancer susceptibility.Various studies have investigated the associations between genetic variants in several key miRNAs and the risk of human cancers;however,few studies have focused on head and neck squamous cell carcinoma(HNSCC) risk.This study aimed to evaluate the associations between several key miRNA polymorphisms and HNSCC risk in a Chinese population.Methods:In this study,we genotyped five common single-nucleotide polymorphisms(SNPs) in several key miRNAs(miR-149 rs2292832,miR-146 a rs2910164,miR-605 rs2043556,miR-608 rs4919510,and miR-196a2 rs11614913) and evaluated the associations between these SNPs and HNSCC risk according to cancer site with a case-control study including 576 cases and 1552 controls,which were matched by age and sex in a Chinese population.Results:The results revealed that miR-605 rs2043556[dominant model:adjusted odds ratio(OR) 0.71,95%confidence interval(CI) 0.58-0.88;additive model:adjusted OR 0.74,95%CI 0.62-0.89]and miR-196a2 rs11614913(dominant model:adjusted OR 1.36,95%C11.08-1.72;additive model:adjusted OR 1.28,95%C11.10-1.48) were significantly associated with the risk of oral squamous cell carcinoma(OSCC).Furthermore,when these two loci were evaluated together based on the number of putative risk alleles(rs2043556 A and rs11614913 G),a significant locus-dosage effect was noted on the risk of OSCC(P_(trend) < 0.001).However,no significant association was detected between the other three SNPs(miR-149 rs2292832,miR- 146 a rs2910164,and miR-608 rs4919510) and HNSCC risk.Conclusion:Our study provided the evidence that miR-605 rs2043556 and miR-196a2 rs11614913 may have an impact on genetic susceptibility to OSCC in Chinese population. | Limin Miao Lihua Wang Longbiao Zhu Jiangbo Du Xun Zhu Yuming Niu Ruixia Wang Zhibin Hu Ning Chen Hongbing Shen Hongxia Ma | 2016 | Chinese Journal of Cancer2016，35，11： | 2 |
| 11 | Identifying candidate genes and patterns of heat-stress response in rice using a genome-wide association study and transcriptome analyses显示文摘Because high temperatures impair rice production,it is desirable to elucidate the regulatory mechanisms involved in rice response to heat stress.The objectives of this study were to identify candidate genes and characterize their response patterns during rice adaptation to high temperatures at the seedling stage.Ten heat-associated quantitative-trait loci were identified in a genome-wide association study.Comparison of transcript abundances in heat-sensitive and heat-tolerant rice pools under heat stress revealed approximately 400 differentially expressed genes.The expression of genes from heatsensitive accessions changed more than those from heat-tolerant accessions under heat stress.Alternative splicing(AS)events responded to heat stress in rice.The types of AS variants significant different between the heat-sensitive and heat-tolerant accessions.Expression patterns differing between the heat-sensitive and heat-tolerant accessions were identified for genes known to be involved in heat stress.We identified eleven genes associated with rice heat stress response.These genes could be pyramided to breed heat-tolerant rice accessions. | Yingxue Yang Chao Zhang De Zhu Huiying He Zhaoran Wei Qiaoling Yuan Xiaoxia Li Xu Gao Bin Zhang Hongsheng Gao Bo Wang Shuaimin Cao Tianyi Wang Yuhua Li Xiaoman Yu Longbiao Guo Guanjing Hu Qian Qian Lianguang Shang | 2022 | The Crop Journal2022，10，6： | 1 |
| 12 | When domestication bottleneck meets weed显示文摘DOMESTICATION OF CROPS BY TWO DIFFERENT SCENARIOS Crop domestication is a unique pattern of plant evolution,commonly referred to as the process of generation of cultivated crops from wild specles due to morphological and gen-etic transformation as a result of human intervention and selec-tion.Studies on the relationship between weeds and crops in archaeology,evolutionary biology,and genetics have revolution-ized our understanding of the role of weeds in the agroecosystem and of the intricacy of crop domestication.Weeds,generally be-ing effective competitors of crops,are not the targets of human cultivation;however,like crops,they can adapt to human-made habitats and thereby are under unintentional human selection.The peculiar environment of the agricultural system alows some arable weeds to develop domestication syndrome,Le.,to mimic crop characteristics,such as plant architecture and seed size,to escape being detected and eradicated. | Yanqing Sun Longbiao Guo Qian-Hao Zhu Longjiang Fan | 2022 | Molecular Plant2022，15，9： | 1 |
| 13 | Chlorophyllide-a Oxygenase 1(OsCAO1) Over-Expression Affects Rice Photosynthetic Rate and Grain Yield显示文摘Leaf color and photosynthesis are important factors for rice growth and development.Hence,improving the photosynthetic rate is an effective approach for increasing rice yield.We isolated a gene,chlorophyllide-a oxygenase 1(OsCAO1),which characterized a rice near-isogenic line named fgl(faded green leaf). | HU Ping MA Jie KANG Shujing LI Sanfeng WU Xianmei ZENG Longjun LU Caolin HE Rui HE Huiying SHANG Lianguang RAO Yuchun ZHU Xudong XIONG Guosheng QIAN Qian GUO Longbiao WANG Yuexing | 2023 | Rice science2023，30，2： | 1 |
| 14 | Identification and characterization of NARROW AND ROLLED LEAF 1, a novel gene regulating leaf morphology and plant architecture in rice显示文摘 | Jiang Hu Li Zhu Dali Zeng Zhenyu Gao Longbiao Guo Yunxia Fang Guangheng Zhang Guojun Dong Meixian Yan Jian Liu Qian Qian | 2010 | Plant Molecular Biology2010，，3： | 1 |
| 15 | Meta-analysis of phospholipase Cepsilon1 polymorphism and cancer risk显示文摘 | Yu Zhang Ruixia Wang Longbiao Zhu | 2013 | Cancer Biomark2013，13，： | 1 |
| 16 | PlantscRNAdb: A database for plant single-cell RNA analysis显示文摘Dear Editor,Many functional characteristics of plant tissue attribute to highly specialized cells in the tissue.Dissecting cell types and profiling the transcriptome and proteome of individual cell types of plant tissues are important for understanding cellular activities underlying plant development and stress adaptation(Shaw et al.,2021).Single-cell RNA sequencing(scRNA-seq)provides such a tool for studying the transcriptional activities of individual cell types at single-cell resolution in any given organism(Rich-Griffin et al.,2020). | Hongyu Chen Xinxin Yin Longbiao Guo Jie Yao Yiwen Ding Xiaoxu Xu Lu Liu Qian-Hao Zhu Qinjie Chu Longjiang Fan | 2021 | Molecular Plant2021，14，6： | 1 |
| 17 | Functional Analysis of Three Rice Chloroplast Transit Peptides显示文摘Chloroplast transit peptides(CTPs) can be used to transport non-chloroplastic proteins into the chloroplasts. Here, we studied the CTPs of three rice(Oryza sativa L.) chloroplast-localized proteins and found that their CTPs could be used to transport non-chloroplast-localized proteins into the chloroplasts. Fusion proteins lacking the CTP remained located in the cytoplasm. Furthermore, we constructed green fluorescent protein fusion vectors with the three CTPs and three non-chloroplast-localized proteins, Ghd10, MULTI-FLORET SPIKELET1(MFS1), and SHORTENED UPPERMOST INTERNODE 1(SUI1). After transforming these constructs into rice protoplasts, the fusion proteins all localized in the chloroplasts. Collectively, our results showed that these CTPs can transport non-chloroplast-localized proteins into the chloroplasts, and more importantly, these CTPs can be applied to engineer chloroplast metabolism. | HE Lei CHEN Guang ZHANG Sen QIU Zhennan HU Jiang ZENG Dali ZHANG Guangheng DONG Guojun GAO Zhenyu REN Deyong SHEN Lan GUO Longbiao QIAN Qian ZHU Li | 2019 | Rice science2019，26，1： | 0 |
| 18 | Coleoptile Purple Line Regulated by A-P Gene System Is a Valuable Marker Trait for Seed Purity Identification in Hybrid Rice显示文摘In plants,a large number of anthocyanin biosynthetic genes encoding enzymes and regulatory genes encoding transcription factors are required for anthocyanin synthesis.Coleoptile purple lines are two purple lines on both sides of coleoptiles after seed germination.However,the molecular mechanism of coleoptile purple line is not clear in rice so far.In this study,two major dominant genes,coleoptile purple line 1(OsCPL1,also known as OsC1)and coleoptile purple line 2(OsCPL2),were isolated via map-based cloning,and both of them were required for anthocyanin biosynthesis of coleoptile purple line in rice.The knockout and complementation experiments confirmed that OsC1 was required for purple color in most organs,such as coleoptile line,sheath,auricle,stigma and apiculus,whereas OsCPL2 was just required for coleoptile purple line.OsC1 was predominantly expressed in coleoptiles,flag leaves,and green panicles,and highly expressed in young leaves,whereas OsCPL2 was predominantly expressed in coleoptiles,and extremely lowly expressed in the other tested organs.Loss-of-function of either OsC1 or OsCPL2 resulted in significant reduction of transcript levels of multiple anthocyanin biosynthesis genes in coleoptiles.Coleoptile purple line was further used as a marker trait in hybrid rice.Purity identification in hybrid rice seeds via coleoptile purple line just needed a little water,soil and a small plate and could be completed within 5 d.Molecular marker and field identification analyses indicated that coleoptile purple line was reliable for the hybrid seed purity identification.Our findings disclosed that coleoptile purple line in rice was regulated by two major dominant genes,OsC1 and OsCPL2,and can be used as a simple,rapid,accurate and economic marker trait for seed purity identification in hybrid rice. | DU Shuanglin WANG Zhongwei CHEN Yun TAN Yao LI Xiang ZHU Wenping HE Guanghua LEI Kairong GUO Longbiao ZHANG Yi | 2022 | Rice science2022，29，5： | 0 |
| 19 | A New-Nipponbare Rice Germplasm with High Seed-Setting Rate显示文摘Rice(Oryza sativa L.)is an important crop providing staple food for more than half the world’s population and also considered as a model plant for molecular biological study of the cereals.In 1998,the large-scale sequencing of japonica rice cultivar Nipponbare(bred at Aichi Agricultural Center in Japan and released in 1963)was initiated by | Jiang Hu Guojun Dong Yunxia Fang Yuchun Rao Jie Xu Dawei Xue Haiping Yu Changwei Ge Zhenyuan Shi Jiangjie Pan Li Zhu Dali Zeng Guangheng Zhang Longbiao Guo Qian Qian | 2014 | Journal of Genetics and Genomics2014，41，10： | 0 |
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