Genome-Wide Analysis of Gene and microRNA Expression in Diploid and Autotetraploid Paulownia fortunei (Seem) Hemsl. under Drought Stress by Transcriptome, microRNA, and Degradome Sequencing

Functional Analysis of Differentially Expressed MicroRNAs Associated with Drought Stress in Diploid and Tetraploid Paulownia fortunei

(2017) Guoqiang Fan et al.   PLANT MOLECULAR BIOLOGY REPORTER

Identification of microRNAs and their targets in Paulownia fortunei plants free from phytoplasma pathogen after methyl methane sulfonate treatment

(2016) Guoqiang Fan et al.   BIOCHIMIE

Transcriptome analysis and molecular marker discovery in Solanum incanum and S. aethiopicum, two close relatives of the common eggplant (Solanum melongena) with interest for breeding

(2016) P. Gramazio et al.   BMC GENOMICS

De novo Transcriptome Analysis and Molecular Marker Development of Two Hemarthria Species

(2016) Xiu Huang et al.   Frontiers in Plant Science

Genome-wide identification of the Phaseolus vulgaris sRNAome using small RNA and degradome sequencing

(2015) Damien Formey et al.   BMC GENOMICS

Synergistic regulatory networks mediated by microRNAs and transcription factors under drought, heat and salt stresses in Oryza Sativa spp.

(2015) Deepti Nigam et al.   GENE

Identification and Functional Analysis of MicroRNAs and Their Targets in Platanus acerifolia under Lead (Pb) Stress

(2015) Yuanlong Wang et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Transcriptional regulation of drought response: a tortuous network of transcriptional factors

(2015) Dhriti Singh et al.   Frontiers in Plant Science

Expression Profile of Maize MicroRNAs Corresponding to Their Target Genes Under Drought Stress

(2014) Ying-Ge Wang et al.   BIOCHEMICAL GENETICS

Identification of miR159s and their target genes and expression analysis under drought stress in potato

(2014) Jiangwei Yang et al.   COMPUTATIONAL BIOLOGY AND CHEMISTRY

ABA-dependent and ABA-independent signaling in response to osmotic stress in plants

(2014) Takuya Yoshida et al.   CURRENT OPINION IN PLANT BIOLOGY

Compatible solute, transporter protein, transcription factor, and hormone-related gene expression provides an indicator of drought stress in Paulownia fortunei

(2014) Yanpeng Dong et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Computational identification of miRNAs and their targets in Phaseolus vulgaris

(2014) J. Han et al.   GENETICS AND MOLECULAR RESEARCH

A miR169 isoform regulates specific NF-YA targets and root architecture in Arabidopsis

(2014) Céline Sorin et al.   NEW PHYTOLOGIST

Water deficit down-regulates miR398 and miR408 in pea (Pisum sativum L.)

(2014) Živko Jovanović et al.   PLANT PHYSIOLOGY AND BIOCHEMISTRY

Comparative expression profiling of miRNA during anther development in genetic male sterile and wild type cotton

(2013) Mingming Wei et al.   BMC PLANT BIOLOGY

Enhancement of oxidative and drought tolerance in Arabidopsis by overaccumulation of antioxidant flavonoids

(2013) Ryo Nakabayashi et al.   PLANT JOURNAL

GmNFYA3, a target gene of miR169, is a positive regulator of plant tolerance to drought stress

(2013) Zhiyong Ni et al.   PLANT MOLECULAR BIOLOGY

Identification of Transcriptome SNPs for Assessing Allele-Specific Gene Expression in a Super-Hybrid Rice Xieyou9308

(2013) Rongrong Zhai et al.   PLoS One

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Transcriptome-Wide Characterization of miRNA-Directed and Non-miRNA-Directed Endonucleolytic Cleavage Using Degradome Analysis Under Low Ambient Temperature in Phalaenopsis aphrodite subsp. formosana

(2012) Feng-Ming An et al.   PLANT AND CELL PHYSIOLOGY

Identification of drought-responsive microRNAs in Medicago truncatula by genome-wide high-throughput sequencing

(2011) Tianzuo Wang et al.   BMC GENOMICS

Roles of arabidopsis WRKY18, WRKY40 and WRKY60 transcription factors in plant responses to abscisic acid and abiotic stress

(2011) Han Chen et al.   BMC PLANT BIOLOGY

Light-harvesting chlorophyll a/b-binding proteins are required for stomatal response to abscisic acid in Arabidopsis

(2011) Yan-Hong Xu et al.   JOURNAL OF EXPERIMENTAL BOTANY

Signal transduction during cold, salt, and drought stresses in plants

(2011) Guo-Tao Huang et al.   MOLECULAR BIOLOGY REPORTS

Multiple reference genomes and transcriptomes for Arabidopsis thaliana

(2011) Xiangchao Gan et al.   NATURE

A dual role for MYB60 in stomatal regulation and root growth of Arabidopsis thaliana under drought stress

(2011) Jee Eun Oh et al.   PLANT MOLECULAR BIOLOGY

Transcription factors as tools to engineer enhanced drought stress tolerance in plants

(2010) Syed Sarfraz Hussain et al.   BIOTECHNOLOGY PROGRESS

Identification of the family of aquaporin genes and their expression in upland cotton (Gossypium hirsutum L.)

(2010) Wonkeun Park et al.   BMC PLANT BIOLOGY

Profiling of cold-stress-responsive miRNAs in rice by microarrays

(2010) De-Kang Lv et al.   GENE

Evolutionary distribution of light-harvesting complex-like proteins in photosynthetic eukaryotes

(2010) Jonathan A.D. Neilson et al.   GENOME

Function annotation of the rice transcriptome at single-nucleotide resolution by RNA-seq

(2010) T. Lu et al.   GENOME RESEARCH

miRBase: integrating microRNA annotation and deep-sequencing data

(2010) A. Kozomara et al.   NUCLEIC ACIDS RESEARCH

Molecular Basis of the Core Regulatory Network in ABA Responses: Sensing, Signaling and Transport

(2010) T. Umezawa et al.   PLANT AND CELL PHYSIOLOGY

The Mg-Chelatase H Subunit ofArabidopsisAntagonizes a Group of WRKY Transcription Repressors to Relieve ABA-Responsive Genes of Inhibition

(2010) Yi Shang et al.   PLANT CELL

Overexpression of a NAC transcription factor enhances rice drought and salt tolerance

(2009) Xingnan Zheng et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

MicroRNAs: Target Recognition and Regulatory Functions

(2009) David P. Bartel   CELL

Dual function of Arabidopsis ATAF1 in abiotic and biotic stress responses

(2009) Yaorong Wu et al.   CELL RESEARCH

Post-transcriptional gene regulation of salinity and drought responses by plant microRNAs

(2009) ALEJANDRA A. COVARRUBIAS et al.   PLANT CELL AND ENVIRONMENT

CleaveLand: a pipeline for using degradome data to find cleaved small RNA targets

(2008) C. Addo-Quaye et al.   BIOINFORMATICS

Endogenous siRNA and miRNA Targets Identified by Sequencing of the Arabidopsis Degradome

(2008) Charles Addo-Quaye et al.   CURRENT BIOLOGY

Global identification of microRNA–target RNA pairs by parallel analysis of RNA ends

(2008) Marcelo A German et al.   NATURE BIOTECHNOLOGY

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

Criteria for Annotation of Plant MicroRNAs

(2008) B. C. Meyers et al.   PLANT CELL

Isolation and characterization of genes encoding GRF transcription factors and GIF transcriptional coactivators in Maize (Zea mays L.)

(2008) Deng-Feng Zhang et al.   PLANT SCIENCE

Widespread Translational Inhibition by Plant miRNAs and siRNAs

(2008) P. Brodersen et al.   SCIENCE

Over-expression of the ArabidopsisAtMYB41gene alters cell expansion and leaf surface permeability

(2007) Eleonora Cominelli et al.   PLANT JOURNAL