Genome-wide transcriptome profile of rice hybrids with and without Oryza rufipogon introgression reveals candidate genes for yield

[1]  Haiyang Wang,et al.  An R2R3 MYB transcription factor confers brown planthopper resistance by regulating the phenylalanine ammonia-lyase pathway in rice , 2019, Proceedings of the National Academy of Sciences.

[2]  R. Dixon,et al.  Lignin biosynthesis: old roads revisited and new roads explored , 2019, Open Biology.

[3]  K. Jung,et al.  Phenylalanine ammonia-lyase family is closely associated with response to phosphate deficiency in rice , 2019, Genes & Genomics.

[4]  X. Zhang,et al.  Architecture of Wheat Inflorescence: Insights from Rice. , 2019, Trends in plant science.

[5]  A. Rehman,et al.  Response of Phenylpropanoid Pathway and the Role of Polyphenols in Plants under Abiotic Stress , 2019, Molecules.

[6]  Jianwu Tang,et al.  Contributions of photosynthetic organs to the seed yield of hybrid rice: the effects of gibberellin application examined by carbon isotope technology , 2018, Seed Science and Technology.

[7]  Kannan Pachamuthu,et al.  Major Domestication-Related Phenotypes in Indica Rice Are Due to Loss of miRNA-Mediated Laccase Silencing[OPEN] , 2018, Plant Cell.

[8]  Jian Wang,et al.  WEGO 2.0: a web tool for analyzing and plotting GO annotations, 2018 update , 2018, Nucleic Acids Res..

[9]  Guo‐Liang Wang,et al.  Breeding plant broad-spectrum resistance without yield penalties , 2018, Proceedings of the National Academy of Sciences.

[10]  Yong Chan Park,et al.  Functional diversity of RING E3 ligases of major cereal crops in response to abiotic stresses , 2017, Journal of Crop Science and Biotechnology.

[11]  Yun-lu Tian,et al.  Genetic dissection of top three leaf traits in rice using progenies from a japonica × indica cross. , 2017, Journal of integrative plant biology.

[12]  Hang He,et al.  Genome-wide dissection of heterosis for yield traits in two-line hybrid rice populations , 2017, Scientific Reports.

[13]  J. Kieber,et al.  Dynamic patterns of expression for genes regulating cytokinin metabolism and signaling during rice inflorescence development , 2017, PloS one.

[14]  R. Shin,et al.  Discovery of E3 Ubiquitin Ligases That Alter Responses to Nitrogen Deficiency Using Rice Full-Length cDNA OvereXpressor (FOX)-Hunting System , 2017, Plant Molecular Biology Reporter.

[15]  W. Kim,et al.  Homologous U-box E3 Ubiquitin Ligases OsPUB2 and OsPUB3 Are Involved in the Positive Regulation of Low Temperature Stress Response in Rice (Oryza sativa L.) , 2017, Front. Plant Sci..

[16]  N. Sarla,et al.  Marker Aided Selection of Yield-enhancing QTL yld2.1 into Restorer KMR3 and Fine Mapping a Genomic Region on Chromosome 2 , 2017 .

[17]  H. Liu,et al.  4-Coumarate-CoA Ligase-Like Gene OsAAE3 Negatively Mediates the Rice Blast Resistance, Floret Development and Lignin Biosynthesis , 2017, Front. Plant Sci..

[18]  N. Sarla,et al.  Haplotyping of Rice Genotypes Using Simple Sequence Repeat Markers Associated with Salt Tolerance , 2016 .

[19]  M. Talukder,et al.  Combining ability and heterosis on yield and its component traits in maize (Zea mays L.) , 2016 .

[20]  Ming Zhou,et al.  Integrated analysis of phenome, genome, and transcriptome of hybrid rice uncovered multiple heterosis-related loci for yield increase , 2016, Proceedings of the National Academy of Sciences.

[21]  Sun Kim,et al.  Novel drought-responsive regulatory coding and non-coding transcripts from Oryza Sativa L. , 2016, Genes & Genomics.

[22]  J. Araus,et al.  Photosynthetic contribution of the ear to grain filling in wheat: a comparison of different methodologies for evaluation , 2016, Journal of experimental botany.

[23]  Ajay Jain,et al.  Identification of salt tolerant rice lines among interspecific BILs developed by crossing Oryza sativa × , 2016 .

[24]  Zuofeng Zhu,et al.  CLUSTERED PRIMARY BRANCH 1, a new allele of DWARF11, controls panicle architecture and seed size in rice. , 2016, Plant biotechnology journal.

[25]  F. Gillet,et al.  Cell Wall Metabolism in Response to Abiotic Stress , 2015, Plants.

[26]  S. Neelamraju,et al.  Heterosis and combining ability in rice as influenced by introgressions from wild species Oryza rufipogon including qyld2.1 sub-QTL into the restorer line KMR3 , 2015, Euphytica.

[27]  H. Leung,et al.  Rice phenylalanine ammonia-lyase gene OsPAL4 is associated with broad spectrum disease resistance , 2015, Plant Molecular Biology.

[28]  Xiaohui Yuan,et al.  Relationship Between Lignin Metabolism and Lodging Resistance of Culm in Buckwheat , 2014 .

[29]  Kuldeep Singh,et al.  Yield-Enhancing Heterotic QTL Transferred from Wild Species to Cultivated Rice Oryza sativa L , 2014, PloS one.

[30]  S. Stone,et al.  The role of ubiquitin and the 26S proteasome in plant abiotic stress signaling , 2014, Front. Plant Sci..

[31]  Xiaoli Wei,et al.  Comparative Transcriptional Profiling of Three Super-Hybrid Rice Combinations , 2014, International journal of molecular sciences.

[32]  Longping Yuan,et al.  Development of Hybrid Rice to Ensure Food Security , 2014 .

[33]  F. Xiong,et al.  A novel membrane-bound E3 ubiquitin ligase enhances the thermal resistance in plants. , 2014, Plant biotechnology journal.

[34]  J. Li,et al.  The Ubiquitin Receptor DA1 Interacts with the E3 Ubiquitin Ligase DA2 to Regulate Seed and Organ Size in Arabidopsis[C][W] , 2013, Plant Cell.

[35]  D. Xie,et al.  Genetic control of inflorescence architecture during rice domestication , 2013, Nature Communications.

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

[37]  P. Rudall,et al.  Early inflorescence development in the grasses (Poaceae) , 2013, Front. Plant Sci..

[38]  R. Khurana,et al.  Spatial and temporal activity of upstream regulatory regions of rice anther-specific genes in transgenic rice and Arabidopsis , 2013, Transgenic Research.

[39]  Jinping Hua,et al.  Genetic composition of yield heterosis in an elite rice hybrid , 2012, Proceedings of the National Academy of Sciences.

[40]  Pablo Cingolani,et al.  © 2012 Landes Bioscience. Do not distribute. , 2022 .

[41]  Ashutosh Kumar Singh,et al.  Expression dynamics of metabolic and regulatory components across stages of panicle and seed development in indica rice , 2012, Functional & Integrative Genomics.

[42]  S. Neelamraju,et al.  Os11Gsk gene from a wild rice, Oryza rufipogon improves yield in rice , 2012, Functional & Integrative Genomics.

[43]  Wendy J. Lyzenga,et al.  Abiotic stress tolerance mediated by protein ubiquitination. , 2012, Journal of experimental botany.

[44]  T. Hankemeier,et al.  Comparative Transcriptional Profiling and Preliminary Study on Heterosis Mechanism of Super-Hybrid Rice , 2010, Molecular plant.

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

[46]  Makoto Matsuoka,et al.  OsSPL14 promotes panicle branching and higher grain productivity in rice , 2010, Nature Genetics.

[47]  Jae-Hoon Jung,et al.  An Arabidopsis F-box protein regulates tapetum degeneration and pollen maturation during anther development , 2010, Planta.

[48]  Changyin Wu,et al.  OsSPX1 suppresses the function of OsPHR2 in the regulation of expression of OsPT2 and phosphate homeostasis in shoots of rice. , 2010, The Plant journal : for cell and molecular biology.

[49]  H. Cai,et al.  Analysis of QTLs for yield-related traits in Yuanjiang common wild rice (Oryza rufipogon Griff.). , 2010, Journal of genetics and genomics = Yi chuan xue bao.

[50]  T. Pham,et al.  RiceArrayNet: A Database for Correlating Gene Expression from Transcriptome Profiling, and Its Application to the Analysis of Coexpressed Genes in Rice1[C][W][OA] , 2009, Plant Physiology.

[51]  Zhike Lu,et al.  A transcriptomic analysis of superhybrid rice LYP9 and its parents , 2009, Proceedings of the National Academy of Sciences.

[52]  Q. Shen,et al.  Two rice phosphate transporters, OsPht1;2 and OsPht1;6, have different functions and kinetic properties in uptake and translocation. , 2009, The Plant journal : for cell and molecular biology.

[53]  D. Goring,et al.  The diversity of plant U-box E3 ubiquitin ligases: from upstream activators to downstream target substrates. , 2009, Journal of experimental botany.

[54]  Xiangfeng Wang,et al.  A genome-wide transcription analysis reveals a close correlation of promoter INDEL polymorphism and heterotic gene expression in rice hybrids. , 2008, Molecular plant.

[55]  T. Cuin,et al.  Potassium transport and plant salt tolerance. , 2008, Physiologia plantarum.

[56]  H. Piepho,et al.  Comparison of Maize (Zea mays L.) F1-Hybrid and Parental Inbred Line Primary Root Transcriptomes Suggests Organ-Specific Patterns of Nonadditive Gene Expression and Conserved Expression Trends , 2008, Genetics.

[57]  J. Zhuang,et al.  Super Hybrid Rice Breeding in China: Achievements and Prospects , 2007 .

[58]  Wei Huang,et al.  A QTL for rice grain width and weight encodes a previously unknown RING-type E3 ubiquitin ligase , 2007, Nature Genetics.

[59]  O. Beretta,et al.  Transcript Profiling of the Anoxic Rice Coleoptile[W][OA] , 2007, Plant Physiology.

[60]  H. Singh,et al.  Heterosis and combining ability for grain yield and its components in selected maize inbred lines , 2007 .

[61]  P. Collins,et al.  Performance comparison of one-color and two-color platforms within the Microarray Quality Control (MAQC) project , 2006, Nature Biotechnology.

[62]  J. Kyozuka,et al.  Genome-wide analysis of spatial and temporal gene expression in rice panicle development. , 2006, The Plant journal : for cell and molecular biology.

[63]  Jian Wang,et al.  Serial Analysis of Gene Expression Study of a Hybrid Rice Strain (LYP9) and Its Parental Cultivars1[w] , 2005, Plant Physiology.

[64]  P. Marri,et al.  Identification and mapping of yield and yield related QTLs from an Indian accession of Oryza rufipogon , 2005, BMC Genetics.

[65]  S. Rhee,et al.  MAPMAN: a user-driven tool to display genomics data sets onto diagrams of metabolic pathways and other biological processes. , 2004, The Plant journal : for cell and molecular biology.

[66]  B. Han,et al.  An F-box gene linked to the self-incompatibility (S) locus of Antirrhinum is expressed specifically in pollen and tapetum , 2002, Plant Molecular Biology.

[67]  D. Dwivedi,et al.  Heterosis in inter and intrasubspecific crosses over three-environments in rice , 1998, Euphytica.

[68]  J. Pozueta-Romero,et al.  Effect of anoxia on starch breakdown in rice and wheat seeds , 1992, Planta.

[69]  Jiming Li,et al.  Molecular marker-assisted selection for yield-enhancing genes in the progeny of “9311×O. rufipogon” using SSR , 2004, Euphytica.

[70]  S. S. Virmani,et al.  Two-line hybrid rice breeding manual. , 2003 .

[71]  K. Herrmann,et al.  THE SHIKIMATE PATHWAY. , 1999, Annual review of plant physiology and plant molecular biology.

[72]  P. Ziegler,et al.  Biosynthesis and Degradation of Starch in Higher Plants , 1989 .

[73]  P. Gross Achievements and prospects. , 1978, Science.