Small RNAs as important regulators for the hybrid vigour of super-hybrid rice

Conserved miR164-targeted NAC genes negatively regulate drought resistance in rice

(2014) Yujie Fang et al.   JOURNAL OF EXPERIMENTAL BOTANY

Progress Toward Understanding Heterosis in Crop Plants

(2013) Patrick S. Schnable et al.   Annual Review of Plant Biology

Transcriptome analysis of rice root heterosis by RNA-Seq

(2013) Rongrong Zhai et al.   BMC GENOMICS

Heterosis in elite hybrid rice: speculation on the genetic and biochemical mechanisms

(2013) Stephen A Goff et al.   CURRENT OPINION IN PLANT BIOLOGY

Auxin metabolism and homeostasis during plant development

(2013) K. Ljung   DEVELOPMENT

Tuning the auxin transcriptional response

(2013) Edith Pierre-Jerome et al.   JOURNAL OF EXPERIMENTAL BOTANY

Epigenetic Variations in Plant Hybrids and Their Potential Roles in Heterosis

(2013) Guangming He et al.   Journal of Genetics and Genomics

Genomic and epigenetic insights into the molecular bases of heterosis

(2013) Z. Jeffrey Chen   NATURE REVIEWS GENETICS

Auxin response factor (OsARF12), a novel regulator for phosphate homeostasis in rice (Oryza sativa)

(2013) SuiKang Wang et al.   NEW PHYTOLOGIST

PIF4 and PIF5 Transcription Factors Link Blue Light and Auxin to Regulate the Phototropic Response in Arabidopsis

(2013) J. Sun et al.   PLANT CELL

Spatial and temporal expression modes of MicroRNAs in an elite rice hybrid and its parental lines

(2013) Ruiqiu Fang et al.   PLANTA

Genomic dosage effects on heterosis in triploid maize

(2013) H. Yao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Big roles for small RNAs in polyploidy, hybrid vigor, and hybrid incompatibility

(2012) Danny W-K Ng et al.   CURRENT OPINION IN PLANT BIOLOGY

Heterosis: emerging ideas about hybrid vigour

(2012) V. K. Baranwal et al.   JOURNAL OF EXPERIMENTAL BOTANY

PsRobot: a web-based plant small RNA meta-analysis toolbox

(2012) Hua-Jun Wu et al.   NUCLEIC ACIDS RESEARCH

Genome-Wide Analysis of DNA Methylation and Gene Expression Changes in Two Arabidopsis Ecotypes and Their Reciprocal Hybrids

(2012) H. Shen et al.   PLANT CELL

Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling

(2012) Patricia Hornitschek et al.   PLANT JOURNAL

QTL Mapping of Combining Ability and Heterosis of Agronomic Traits in Rice Backcross Recombinant Inbred Lines and Hybrid Crosses

(2012) Zhen Qu et al.   PLoS One

MicroRNA Transcriptomic Analysis of Heterosis during Maize Seed Germination

(2012) Dong Ding et al.   PLoS One

Repeat associated small RNAs vary among parents and following hybridization in maize

(2012) W. T. Barber et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Extraordinary transgressive phenotypes of hybrid tomato are influenced by epigenetics and small silencing RNAs

(2011) Padubidri V Shivaprasad et al.   EMBO JOURNAL

GeneProf: analysis of high-throughput sequencing experiments

(2011) Florian Halbritter et al.   NATURE METHODS

PlantNATsDB: a comprehensive database of plant natural antisense transcripts

(2011) D. Chen et al.   NUCLEIC ACIDS RESEARCH

KOBAS 2.0: a web server for annotation and identification of enriched pathways and diseases

(2011) Chen Xie et al.   NUCLEIC ACIDS RESEARCH

Functional Profiling Identifies Genes Involved in Organ-Specific Branches of the PIF3 Regulatory Network inArabidopsis

(2011) Maria Sentandreu et al.   PLANT CELL

Massive Analysis of Rice Small RNAs: Mechanistic Implications of Regulated MicroRNAs and Variants for Differential Target RNA Cleavage

(2011) D.-H. Jeong et al.   PLANT CELL

Changes in 24-nt siRNA levels in Arabidopsis hybrids suggest an epigenetic contribution to hybrid vigor

(2011) M. Groszmann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The role of QTLs in the breeding of high-yielding rice

(2011) Kotaro Miura et al.   TRENDS IN PLANT SCIENCE

Overexpression of Osta-siR2141 caused abnormal polarity establishment and retarded growth in rice

(2010) Jiang Wang et al.   JOURNAL OF EXPERIMENTAL BOTANY

Auxin response factor 2 (ARF2) plays a major role in regulating auxin-mediated leaf longevity

(2010) P. O. Lim et al.   JOURNAL OF EXPERIMENTAL BOTANY

Expression Analysis of miRNAs and Highly-expressed Small RNAs in Two Rice Subspecies and their Reciprocal Hybrids

(2010) Fangfang Chen et al.   Journal of Integrative Plant Biology

Comparative Transcriptional Profiling and Preliminary Study on Heterosis Mechanism of Super-Hybrid Rice

(2010) Gui-Sheng Song et al.   Molecular Plant

Regulation of OsSPL14 by OsmiR156 defines ideal plant architecture in rice

(2010) Yongqing Jiao et al.   NATURE GENETICS

Gramene database in 2010: updates and extensions

(2010) K. Youens-Clark et al.   NUCLEIC ACIDS RESEARCH

PlantTFDB 2.0: update and improvement of the comprehensive plant transcription factor database

(2010) He Zhang et al.   NUCLEIC ACIDS RESEARCH

Entrez Gene: gene-centered information at NCBI

(2010) D. Maglott et al.   NUCLEIC ACIDS RESEARCH

Global Epigenetic and Transcriptional Trends among Two Rice Subspecies and Their Reciprocal Hybrids

(2010) G. He et al.   PLANT CELL

miR390,Arabidopsis TAS3tasiRNAs, and TheirAUXIN RESPONSE FACTORTargets Define an Autoregulatory Network Quantitatively Regulating Lateral Root Growth

(2010) Elena Marin et al.   PLANT CELL

The biosynthetic pathways and biological scopes of plant small RNAs

(2010) Franck Vazquez et al.   TRENDS IN PLANT SCIENCE

Small RNAs and Their Roles in Plant Development

(2009) Xuemei Chen   Annual Review of Cell and Developmental Biology

SOAP2: an improved ultrafast tool for short read alignment

(2009) R. Li et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Comparative gene expression profiles between heterotic and non-heterotic hybrids of tetraploid Medicago sativa

(2009) Xuehui Li et al.   BMC PLANT BIOLOGY

Repression of Apical Homeobox Genes Is Required for Embryonic Root Development in Arabidopsis

(2009) Stephen P. Grigg et al.   CURRENT BIOLOGY

Auxin regulation of the microRNA390-dependent transacting small interfering RNA pathway in Arabidopsis lateral root development

(2009) Eun Kyung Yoon et al.   NUCLEIC ACIDS RESEARCH

A transcriptomic analysis of superhybrid rice LYP9 and its parents

(2009) G. Wei et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Small RNAs serve as a genetic buffer against genomic shock in Arabidopsis interspecific hybrids and allopolyploids

(2009) M. Ha et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-wide identification and evolutionary analysis of the plant specific SBP-box transcription factor family

(2008) An-Yuan Guo et al.   GENE

A diverse set of microRNAs and microRNA-like small RNAs in developing rice grains

(2008) Q.-H. Zhu et al.   GENOME RESEARCH

Systematic sequence analysis and identification of tissue-specific or stress-responsive genes of NAC transcription factor family in rice

(2008) Yujie Fang et al.   MOLECULAR GENETICS AND GENOMICS

Altered circadian rhythms regulate growth vigour in hybrids and allopolyploids

(2008) Zhongfu Ni et al.   NATURE

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

Arabidopsis mitogen-activated protein kinase MPK12 interacts with the MAPK phosphatase IBR5 and regulates auxin signaling

(2008) Jin Suk Lee et al.   PLANT JOURNAL

MicroRNA-directed regulation: to cleave or not to cleave

(2008) Allison C. Mallory et al.   TRENDS IN PLANT SCIENCE

Identification of microRNAs and other small regulatory RNAs using cDNA library sequencing

(2007) Markus Hafner et al.   METHODS