A genome-wide association study using a Vietnamese landrace panel of rice (Oryza sativa) reveals new QTLs controlling panicle morphological traits

[1]  Y. Ge,et al.  PI-Plat: a high-resolution image-based 3D reconstruction method to estimate growth dynamics of rice inflorescence traits , 2019, Plant Methods.

[2]  P. Gantet,et al.  Unraveling the Genetic Elements Involved in Shoot and Root Growth Regulation by Jasmonate in Rice Using a Genome-Wide Association Study , 2019, Rice.

[3]  Allison J. Miller,et al.  Characterizing 3D inflorescence architecture in grapevine using X-ray imaging and advanced morphometrics: implications for understanding cluster density , 2019, Journal of experimental botany.

[4]  Tuan Thanh Nguyen,et al.  Genome-wide association mapping of leaf mass traits in a Vietnamese rice landrace panel , 2019, PloS one.

[5]  H. Koh,et al.  Association between sequence variants in panicle development genes and the number of spikelets per panicle in rice , 2018, BMC Genetics.

[6]  J. Doe,et al.  Fast‐Track Introgression of “QTL‐hotspot” for Root Traits and Other Drought Tolerance Traits in JG 11, an Elite and Leading Variety of Chickpea , 2016, The plant genome.

[7]  M. Dingkuhn,et al.  Combining Image Analysis, Genome Wide Association Studies and Different Field Trials to Reveal Stable Genetic Regions Related to Panicle Architecture and the Number of Spikelets per Panicle in Rice , 2016, Front. Plant Sci..

[8]  Jian Huang,et al.  Deregulation of the OsmiR160 Target Gene OsARF18 Causes Growth and Developmental Defects with an Alteration of Auxin Signaling in Rice , 2016, Scientific Reports.

[9]  Zilong Guo,et al.  Genome‐Wide Association Analysis Reveals Different Genetic Control in Panicle Architecture Between Indica and Japonica Rice , 2016, The plant genome.

[10]  D. Luquet,et al.  Rice panicle plasticity in Near Isogenic Lines carrying a QTL for larger panicle is genotype and environment dependent , 2016, Rice.

[11]  Shuangcheng Li,et al.  The OsmiR396c‐OsGRF4‐OsGIF1 regulatory module determines grain size and yield in rice , 2016, Plant biotechnology journal.

[12]  Meiru Li,et al.  Reassessment of the Four Yield-related Genes Gn1a, DEP1, GS3, and IPA1 in Rice Using a CRISPR/Cas9 System , 2016, Front. Plant Sci..

[13]  B. Courtois,et al.  Genome-wide association mapping for root traits in a panel of rice accessions from Vietnam , 2016, BMC Plant Biology.

[14]  Xingang Li,et al.  Transcriptomic Analysis Reveals the Metabolic Mechanism of L-Ascorbic Acid in Ziziphus jujuba Mill. , 2016, Front. Plant Sci..

[15]  Susan McCouch,et al.  Genome-wide association and high-resolution phenotyping link Oryza sativa panicle traits to numerous trait-specific QTL clusters , 2016, Nature Communications.

[16]  A. Tagiri,et al.  MicroRNA-targeted transcription factor gene RDD1 promotes nutrient ion uptake and accumulation in rice. , 2016, The Plant journal : for cell and molecular biology.

[17]  Hu Zhao,et al.  Genome-wide association mapping revealed a diverse genetic basis of seed dormancy across subpopulations in rice (Oryza sativa L.) , 2016, BMC Genetics.

[18]  Cai-guo Xu,et al.  Coordinated regulation of vegetative and reproductive branching in rice , 2015, Proceedings of the National Academy of Sciences.

[19]  G. An,et al.  Rice FLAVIN-BINDING, KELCH REPEAT, F-BOX 1 (OsFKF1) promotes flowering independent of photoperiod. , 2015, Plant, cell & environment.

[20]  Hanhong Bae,et al.  Identification and Expression Analysis of PIN-Like (PILS) Gene Family of Rice Treated with Auxin and Cytokinin , 2015, Genes.

[21]  J. Ouyang,et al.  Rice osa-miR171c Mediates Phase Change from Vegetative to Reproductive Development and Shoot Apical Meristem Maintenance by Repressing Four OsHAM Transcription Factors , 2015, PloS one.

[22]  G. Gregorio,et al.  Genome-Wide Association Mapping for Yield and Other Agronomic Traits in an Elite Breeding Population of Tropical Rice (Oryza sativa) , 2015, PloS one.

[23]  Xueyong Li,et al.  Characterization of a Null Allelic Mutant of the Rice NAL1 Gene Reveals Its Role in Regulating Cell Division , 2015, PloS one.

[24]  Atmakuri R. Rao,et al.  Genome-wide association mapping of salinity tolerance in rice (Oryza sativa) , 2015, DNA research : an international journal for rapid publication of reports on genes and genomes.

[25]  B. Courtois,et al.  Characterization of a panel of Vietnamese rice varieties using DArT and SNP markers for association mapping purposes , 2014, BMC Plant Biology.

[26]  Kazuki Saito,et al.  Metabolome-genome-wide association study dissects genetic architecture for generating natural variation in rice secondary metabolism , 2014, The Plant journal : for cell and molecular biology.

[27]  Wei Chen,et al.  Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism , 2014, Nature Genetics.

[28]  M. Yano,et al.  Genomic regions involved in yield potential detected by genome-wide association analysis in Japanese high-yielding rice cultivars , 2014, BMC Genomics.

[29]  Li Wang,et al.  LSCHL4 from Japonica Cultivar, Which Is Allelic to NAL1, Increases Yield of Indica Super Rice 93-11 , 2014, Molecular plant.

[30]  Hao Yu,et al.  New insights into the regulation of inflorescence architecture. , 2014, Trends in plant science.

[31]  J. Kyozuka,et al.  Control of grass inflorescence form by the fine-tuning of meristem phase change. , 2014, Current opinion in plant biology.

[32]  D. Fujita,et al.  NAL1 allele from a rice landrace greatly increases yield in modern indica cultivars , 2013, Proceedings of the National Academy of Sciences.

[33]  F. Taguchi-Shiobara,et al.  A natural variant of NAL1, selected in high-yield rice breeding programs, pleiotropically increases photosynthesis rate , 2013, Scientific Reports.

[34]  A. Anjos,et al.  P-TRAP: a Panicle Trait Phenotyping tool , 2013, BMC Plant Biology.

[35]  Liang-Hu Qu,et al.  Overexpression of microRNA OsmiR397 improves rice yield by increasing grain size and promoting panicle branching , 2013, Nature Biotechnology.

[36]  Makoto Matsuoka,et al.  Genes offering the potential for designing yield-related traits in rice. , 2013, Current opinion in plant biology.

[37]  M. Scanlon,et al.  Growth and development: from genes to networks and a mechanistic understanding of plant development. , 2013, Current opinion in plant biology.

[38]  Yoshiaki Nagamura,et al.  TAWAWA1, a regulator of rice inflorescence architecture, functions through the suppression of meristem phase transition , 2012, Proceedings of the National Academy of Sciences.

[39]  L. Fan,et al.  Genomic dissection of small RNAs in wild rice (Oryza rufipogon): lessons for rice domestication. , 2012, The New phytologist.

[40]  Y. Xing,et al.  Yield-related QTLs and their applications in rice genetic improvement. , 2012, Journal of integrative plant biology.

[41]  Qian Qian,et al.  Genome-wide association study of flowering time and grain yield traits in a worldwide collection of rice germplasm , 2011, Nature Genetics.

[42]  Mark H. Wright,et al.  Genome-wide association mapping reveals a rich genetic architecture of complex traits in Oryza sativa , 2011, Nature communications.

[43]  Keyan Zhao,et al.  Genetic Architecture of Aluminum Tolerance in Rice (Oryza sativa) Determined through Genome-Wide Association Analysis and QTL Mapping , 2011, PLoS genetics.

[44]  Hong Wang,et al.  Analyses of two rice (Oryza sativa) cyclin-dependent kinase inhibitors and effects of transgenic expression of OsiICK6 on plant growth and development. , 2011, Annals of botany.

[45]  Yonghong Wang,et al.  Branching in rice. , 2011, Current opinion in plant biology.

[46]  Meng Li,et al.  Genome-wide association studies of 14 agronomic traits in rice landraces , 2010, Nature Genetics.

[47]  Qian Qian,et al.  Regulation of OsSPL14 by OsmiR156 defines ideal plant architecture in rice , 2010, Nature Genetics.

[48]  Qifa Zhang,et al.  Genetic and molecular bases of rice yield. , 2010, Annual review of plant biology.

[49]  C. Helliwell,et al.  RESEARCH ARTICLE Open Access Research article Sequence variation and selection of small RNAs in domesticated rice , 2022 .

[50]  G. An,et al.  OsCOL4 is a constitutive flowering repressor upstream of Ehd1 and downstream of OsphyB. , 2010, The Plant journal : for cell and molecular biology.

[51]  Qian-Hao Zhu,et al.  Over-expression of miR172 causes loss of spikelet determinacy and floral organ abnormalities in rice (Oryza sativa) , 2009, BMC Plant Biology.

[52]  Hao Wang,et al.  Antagonistic HLH/bHLH Transcription Factors Mediate Brassinosteroid Regulation of Cell Elongation and Plant Development in Rice and Arabidopsis[C][W][OA] , 2009, The Plant Cell Online.

[53]  M. Gore,et al.  Status and Prospects of Association Mapping in Plants , 2008 .

[54]  Edward S. Buckler,et al.  TASSEL: software for association mapping of complex traits in diverse samples , 2007, Bioinform..

[55]  B. Han,et al.  Genome-wide analysis of the auxin response factors (ARF) gene family in rice (Oryza sativa). , 2007, Gene.

[56]  J. Kyozuka,et al.  Direct control of shoot meristem activity by a cytokinin-activating enzyme , 2007, Nature.

[57]  Z. Li,et al.  QTLs influencing panicle size detected in two reciprocal introgressive line (IL) populations in rice (Oryza sativa L.) , 2006, Theoretical and Applied Genetics.

[58]  M. McMullen,et al.  A unified mixed-model method for association mapping that accounts for multiple levels of relatedness , 2006, Nature Genetics.

[59]  H. Kitano,et al.  Rice plant development: from zygote to spikelet. , 2005, Plant & cell physiology.

[60]  Zhongchi Liu,et al.  Transcriptional repression of target genes by LEUNIG and SEUSS, two interacting regulatory proteins for Arabidopsis flower development. , 2004, Proceedings of the National Academy of Sciences of the United States of America.

[61]  K. Ebana,et al.  Analysis of Vietnamese rice germplasm provides an insight into Japonica rice differentiation , 2003 .

[62]  A. Miyao,et al.  Three Distinct Rice Cellulose Synthase Catalytic Subunit Genes Required for Cellulose Synthesis in the Secondary Wall1 , 2003, Plant Physiology.

[63]  Z. Xie,et al.  Negative Feedback Regulation of Dicer-Like1 in Arabidopsis by microRNA-Guided mRNA Degradation , 2003, Current Biology.

[64]  M. Ellis,et al.  Semidwarf (sd-1), “green revolution” rice, contains a defective gibberellin 20-oxidase gene , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[65]  P. Donnelly,et al.  Inference of population structure using multilocus genotype data. , 2000, Genetics.

[66]  H. D. Patterson,et al.  A new class of resolvable incomplete block designs , 1976 .