De novo analysis of transcriptome reveals genes associated with leaf abscission in sugarcane (Saccharum officinarum L.)

FOREVER YOUNG FLOWER Negatively Regulates Ethylene Response DNA-Binding Factors by Activating an Ethylene-Responsive Factor to Control Arabidopsis Floral Organ Senescence and Abscission

(2015) Wei-Han Chen et al.   PLANT PHYSIOLOGY

Transcriptional control of plant defence responses

(2014) Pierre Buscaill et al.   CURRENT OPINION IN PLANT BIOLOGY

De Novo Assembly and Transcriptome Analysis of Contrasting Sugarcane Varieties

(2014) Claudio Benicio Cardoso-Silva et al.   PLoS One

De novo assembly and characterization of transcriptome using Illumina paired-end sequencing and identification of CesA gene in ramie (Boehmeria nivea L. Gaud)

(2013) Touming Liu et al.   BMC GENOMICS

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

eggNOG v4.0: nested orthology inference across 3686 organisms

(2013) Sean Powell et al.   NUCLEIC ACIDS RESEARCH

Genome-wide annotation of genes and noncoding RNAs of foxtail millet in response to simulated drought stress by deep sequencing

(2013) Xin Qi et al.   PLANT MOLECULAR BIOLOGY

A Regulatory Cascade Involving Class II ETHYLENE RESPONSE FACTOR Transcriptional Repressors Operates in the Progression of Leaf Senescence

(2013) T. Koyama et al.   PLANT PHYSIOLOGY

Deep Sequencing of Maize Small RNAs Reveals a Diverse Set of MicroRNA in Dry and Imbibed Seeds

(2013) Detao Li et al.   PLoS One

Transcriptome Profiling of Radish (Raphanus sativus L.) Root and Identification of Genes Involved in Response to Lead (Pb) Stress with Next Generation Sequencing

(2013) Yan Wang et al.   PLoS One

Comparative Transcriptome Profiling of a Resistant vs. Susceptible Tomato (Solanum lycopersicum) Cultivar in Response to Infection by Tomato Yellow Leaf Curl Virus

(2013) Tianzi Chen et al.   PLoS One

Canopy position determines the photoprotective demand and antioxidant protection of leaves in salt-stressed Salvia officinalis L. plants

(2012) Taïeb Tounekti et al.   ENVIRONMENTAL AND EXPERIMENTAL BOTANY

Genome size variation in three Saccharum species

(2012) Jisen Zhang et al.   EUPHYTICA

Early gene expression events in the laminar abscission zone of abscission-promoted citrus leaves after a cycle of water stress/rehydration: involvement of CitbHLH1

(2012) Javier Agustí et al.   JOURNAL OF EXPERIMENTAL BOTANY

Parallel domestication of the Shattering1 genes in cereals

(2012) Zhongwei Lin et al.   NATURE GENETICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Ecophysiological responses of Caragana korshinskii Kom. under extreme drought stress: Leaf abscission and stem survives

(2012) D. H. Xu et al.   PHOTOSYNTHETICA

Genetic Control of Seed Shattering in Rice by the APETALA2 Transcription Factor SHATTERING ABORTION1

(2012) Y. Zhou et al.   PLANT CELL

A NAC transcription factor NTL4 promotes reactive oxygen species production during drought-induced leaf senescence in Arabidopsis

(2012) Sangmin Lee et al.   PLANT JOURNAL

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

Deep sequencing reveals the complex and coordinated transcriptional regulation of genes related to grain quality in rice cultivars

(2011) R C Venu et al.   BMC GENOMICS

Using RNA-Seq for gene identification, polymorphism detection and transcript profiling in two alfalfa genotypes with divergent cell wall composition in stems

(2011) S Samuel Yang et al.   BMC GENOMICS

Deep sequencing of the Camellia sinensis transcriptome revealed candidate genes for major metabolic pathways of tea-specific compounds

(2011) Cheng-Ying Shi et al.   BMC GENOMICS

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

The Pfam protein families database

(2011) M. Punta et al.   NUCLEIC ACIDS RESEARCH

HMMER web server: interactive sequence similarity searching

(2011) R. D. Finn et al.   NUCLEIC ACIDS RESEARCH

WRKY transcription factors: key components in abscisic acid signalling

(2011) Deena L. Rushton et al.   PLANT BIOTECHNOLOGY JOURNAL

MACROCALYX and JOINTLESS Interact in the Transcriptional Regulation of Tomato Fruit Abscission Zone Development

(2011) T. Nakano et al.   PLANT PHYSIOLOGY

Microarray Analysis of the Abscission-Related Transcriptome in the Tomato Flower Abscission Zone in Response to Auxin Depletion

(2010) S. Meir et al.   PLANT PHYSIOLOGY

Signaling Pathways Mediating the Induction of Apple Fruitlet Abscission

(2010) A. Botton et al.   PLANT PHYSIOLOGY

ABC transporter AtABCG25 is involved in abscisic acid transport and responses

(2010) T. Kuromori et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

PDR-type ABC transporter mediates cellular uptake of the phytohormone abscisic acid

(2010) J. Kang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

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

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

Improving sugarcane for biofuel: engineering for an even better feedstock

(2009) ERIC LAM et al.   Global Change Biology Bioenergy

The Sorghum bicolor genome and the diversification of grasses

(2009) Andrew H. Paterson et al.   NATURE

Single nucleotide polymorphism (SNP) discovery in the polyploidBrassica napususing Solexa transcriptome sequencing

(2009) Martin Trick et al.   PLANT BIOTECHNOLOGY JOURNAL

ARABIDOPSIS DEHISCENCE ZONE POLYGALACTURONASE1 (ADPG1), ADPG2, and QUARTET2 Are Polygalacturonases Required for Cell Separation during Reproductive Development in Arabidopsis

(2009) M. Ogawa et al.   PLANT CELL

Inactivation of the CTD phosphatase-like geneOsCPL1enhances the development of the abscission layer and seed shattering in rice

(2009) Hyeonso Ji et al.   PLANT JOURNAL

High-throughput gene and SNP discovery in Eucalyptus grandis, an uncharacterized genome

(2008) Evandro Novaes et al.   BMC GENOMICS

The BLADE-ON-PETIOLE genes are essential for abscission zone formation in Arabidopsis

(2008) S. M. McKim et al.   DEVELOPMENT

Ethylene-induced differential gene expression during abscission of citrus leaves

(2008) Javier Agustí et al.   JOURNAL OF EXPERIMENTAL BOTANY

Structure–function analysis of the NB-ARC domain of plant disease resistance proteins

(2008) Gerben van Ooijen et al.   JOURNAL OF EXPERIMENTAL BOTANY

Stamen Abscission Zone Transcriptome Profiling Reveals New Candidates for Abscission Control: Enhanced Retention of Floral Organs in Transgenic Plants Overexpressing Arabidopsis ZINC FINGER PROTEIN2

(2008) S. Cai et al.   PLANT PHYSIOLOGY