Transcriptome profiling of Eucalyptus nitens reveals deeper insight into the molecular mechanism of cold acclimation and deacclimation process

WRKY transcription factors in plant responses to stresses

(2017) Jingjing Jiang et al.   Journal of Integrative Plant Biology

Special trends in CBF and DREB2 groups inEucalyptus gunniivsEucalyptus grandissuggest that CBF are master players in the trade-off between growth and stress resistance

(2017) Hong C. Nguyen et al.   PHYSIOLOGIA PLANTARUM

Overexpression of an SKn-dehydrin gene from Eucalyptus globulus and Eucalyptus nitens enhances tolerance to freezing stress in Arabidopsis

(2016) Paula Aguayo et al.   TREES-STRUCTURE AND FUNCTION

Transcriptome and hormone profiling reveals Eucalyptus grandis defence responses against Chrysoporthe austroafricana

(2015) Ronishree Mangwanda et al.   BMC GENOMICS

Experimental validation of methods for differential gene expression analysis and sample pooling in RNA-seq

(2015) Anto P. Rajkumar et al.   BMC GENOMICS

Global transcriptome and gene regulation network for secondary metabolite biosynthesis of tea plant (Camellia sinensis)

(2015) Chun-Fang Li et al.   BMC GENOMICS

The Transcriptome and Terpene Profile ofEucalyptus grandisReveals Mechanisms of Defense Against the Insect Pest,Leptocybe invasa

(2015) Caryn N. Oates et al.   PLANT AND CELL PHYSIOLOGY

Transcriptome Profile in Response to Frost Tolerance in Eucalyptus globulus

(2015) Marta Fernández et al.   PLANT MOLECULAR BIOLOGY REPORTER

Integrated RNA-Seq and sRNA-Seq Analysis Identifies Chilling and Freezing Responsive Key Molecular Players and Pathways in Tea Plant (Camellia sinensis)

(2015) Chao Zheng et al.   PLoS One

Genome-Wide Analysis of the AP2/ERF Family in Eucalyptus grandis: An Intriguing Over-Representation of Stress-Responsive DREB1/CBF Genes

(2015) P. B. Cao et al.   PLoS One

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Transcriptome assembly and quantification from Ion Torrent RNA-Seq data

(2014) Serghei Mangul et al.   BMC GENOMICS

Genome-wide identification of WRKY family genes and their response to cold stress in Vitis vinifera

(2014) Lina Wang et al.   BMC PLANT BIOLOGY

Genomics of Cold Hardiness in Woody Plants

(2014) Michael Wisniewski et al.   CRITICAL REVIEWS IN PLANT SCIENCES

Performance Comparison between Rapid Sequencing Platforms for Ultra-Low Coverage Sequencing Strategy

(2014) Shengpei Chen et al.   PLoS One

Identification of Candidate Reference Genes in Perennial Ryegrass for Quantitative RT-PCR under Various Abiotic Stress Conditions

(2014) Linkai Huang et al.   PLoS One

RNA-Seq Using Two Populations Reveals Genes and Alleles Controlling Wood Traits and Growth in Eucalyptus nitens

(2014) Saravanan Thavamanikumar et al.   PLoS One

Comparative Transcriptomic Analysis of the Response to Cold Acclimation in Eucalyptus dunnii

(2014) Yiqing Liu et al.   PLoS One

Global transcriptome profiles of Camellia sinensis during cold acclimation

(2013) Xin-Chao Wang et al.   BMC GENOMICS

Identification of two putative reference genes from grapevine suitable for gene expression analysis in berry and related tissues derived from RNA-Seq data

(2013) Mauricio González-Agüero et al.   BMC GENOMICS

Cold Signaling and Cold Response in Plants

(2013) Kenji Miura et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Flavonoids as Antioxidants and Developmental Regulators: Relative Significance in Plants and Humans

(2013) Cecilia Brunetti et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Defense-related transcription factors WRKY70 and WRKY54 modulate osmotic stress tolerance by regulating stomatal aperture inArabidopsis

(2013) Jing Li et al.   NEW PHYTOLOGIST

PlantTFDB 3.0: a portal for the functional and evolutionary study of plant transcription factors

(2013) Jinpu Jin et al.   NUCLEIC ACIDS RESEARCH

Common and Distinct Functions of Arabidopsis Class A1 and A2 Heat Shock Factors in Diverse Abiotic Stress Responses and Development

(2013) H.-c. Liu et al.   PLANT PHYSIOLOGY

Post-translational regulation of cold acclimation response

(2013) Javier Barrero-Gil et al.   PLANT SCIENCE

Transcript profiling combined with functional annotation of 2,662 ESTs provides a molecular picture of Eucalyptus gunnii cold acclimation

(2013) Guylaine Keller et al.   TREES-STRUCTURE AND FUNCTION

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Designing a transcriptome next-generation sequencing project for a nonmodel plant species1

(2012) Susan R. Strickler et al.   AMERICAN JOURNAL OF BOTANY

Primer-BLAST: A tool to design target-specific primers for polymerase chain reaction

(2012) Jian Ye et al.   BMC BIOINFORMATICS

Transcriptome sequencing of Eucalyptus camaldulensis seedlings subjected to water stress reveals functional single nucleotide polymorphisms and genes under selection

(2012) Bala R Thumma et al.   BMC GENOMICS

A tale of three next generation sequencing platforms: comparison of Ion torrent, pacific biosciences and illumina MiSeq sequencers

(2012) Michael Quail et al.   BMC GENOMICS

Deep-sequencing transcriptome analysis of chilling tolerance mechanisms of a subnival alpine plant, Chorispora bungeana

(2012) Zhiguang Zhao et al.   BMC PLANT BIOLOGY

Drought effects on water use efficiency, freezing tolerance and survival of Eucalyptus globulus and Eucalyptus globulus × nitens cuttings

(2012) Darío Navarrete-Campos et al.   NEW FORESTS

Primer3—new capabilities and interfaces

(2012) Andreas Untergasser et al.   NUCLEIC ACIDS RESEARCH

Reference Genes for High-Throughput Quantitative Reverse Transcription–PCR Analysis of Gene Expression in Organs and Tissues of Eucalyptus Grown in Various Environmental Conditions

(2012) Hua Cassan-Wang et al.   PLANT AND CELL PHYSIOLOGY

Photoperiod, temperature and water deficit differentially regulate the expression of four dehydrin genes from Eucalyptus globulus

(2012) Marta Fernández et al.   TREES-STRUCTURE AND FUNCTION

The role of WRKY transcription factors in plant abiotic stresses

(2011) Ligang Chen et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Quality control and preprocessing of metagenomic datasets

(2011) R. Schmieder et al.   BIOINFORMATICS

De novo assembled expressed gene catalog of a fast-growing Eucalyptus tree produced by Illumina mRNA-Seq

(2011) Eshchar Mizrachi et al.   BMC GENOMICS

RNA-Seq reveals genotype-specific molecular responses to water deficit in eucalyptus

(2011) Emilie Villar 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

Differential expression in RNA-seq: A matter of depth

(2011) S. Tarazona et al.   GENOME RESEARCH

A novel function for a redox-related LEA protein (SAG21/AtLEA5) in root development and biotic stress responses

(2011) FAEZAH MOHD SALLEH et al.   PLANT CELL AND ENVIRONMENT

Validation of reference genes for RT-qPCR studies of gene expression in banana fruit under different experimental conditions

(2011) Lei Chen et al.   PLANTA

Ectopic expression of a novel peach (Prunus persica) CBF transcription factor in apple (Malus × domestica) results in short-day induced dormancy and increased cold hardiness

(2011) Michael Wisniewski et al.   PLANTA

Isolation and characterization of three cold acclimation-responsive dehydrin genes from Eucalyptus globulus

(2011) Marta Fernandez et al.   Tree Genetics & Genomes

Validation of reference genes for quantitative RT-PCR studies of gene expression in perennial ryegrass (Lolium perenne L.)

(2010) Julia M Lee et al.   BMC MOLECULAR BIOLOGY

Two EguCBF1 genes overexpressed in Eucalyptus display a different impact on stress tolerance and plant development

(2010) Marie Navarro et al.   PLANT BIOTECHNOLOGY JOURNAL

Plant responses to cold: transcriptome analysis of wheat

(2010) Mark O. Winfield et al.   PLANT BIOTECHNOLOGY JOURNAL

Research on plant abiotic stress responses in the post-genome era: past, present and future

(2010) Takashi Hirayama et al.   PLANT JOURNAL

Molecular Basis of Plant Cold Acclimation: Insights Gained from Studying the CBF Cold Response Pathway

(2010) M. F. Thomashow   PLANT PHYSIOLOGY

Validation of reference genes for real-time qRT-PCR normalization during cold acclimation in Eucalyptus globulus

(2010) Marta Fernández et al.   TREES-STRUCTURE AND FUNCTION

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

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

Comparative SNP diversity among four Eucalyptus species for genes from secondary metabolite biosynthetic pathways

(2009) Carsten Külheim et al.   BMC GENOMICS

Complementary regulation of four Eucalyptus CBF genes under various cold conditions

(2009) M. Navarro et al.   JOURNAL OF EXPERIMENTAL BOTANY

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Cold stress and acclimation - what is important for metabolic adjustment?

(2009) A. Janská et al.   PLANT BIOLOGY

AmiGO: online access to ontology and annotation data

(2008) Seth Carbon et al.   BIOINFORMATICS

LEA (Late Embryogenesis Abundant) proteins and their encoding genes in Arabidopsis thaliana

(2008) Michaela Hundertmark et al.   BMC GENOMICS

RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays

(2008) J. C. Marioni et al.   GENOME RESEARCH

Cold-hardiness of olive ( Olea europaea L.) cultivars in cold-acclimated and non-acclimated stages: seasonal alteration of antioxidative enzymes and dehydrin-like proteins

(2008) A. CANSEV et al.   JOURNAL OF AGRICULTURAL SCIENCE

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

(2008) Da Wei Huang et al.   NUCLEIC ACIDS RESEARCH

Deep supercooling xylem parenchyma cells of katsura tree (Cercidiphyllum japonicum) contain flavonol glycosides exhibiting high anti-ice nucleation activity

(2008) JUN KASUGA et al.   PLANT CELL AND ENVIRONMENT

Dehydrins expression related to timing of bud burst in Norway spruce

(2008) Igor A. Yakovlev et al.   PLANTA

Acclimation to short-term low temperatures in two Eucalyptus globulus clones with contrasting drought resistance

(2008) F. Costa e Silva et al.   TREE PHYSIOLOGY