Deep RNAseq indicates protective mechanisms of cold-tolerant indica rice plants during early vegetative stage

Genetic architecture of cold tolerance in rice (Oryza sativa) determined through high resolution genome-wide analysis

(2017) Ehsan Shakiba et al.   PLoS One

Plant sterols: Diversity, biosynthesis, and physiological functions

(2016) J. N. Valitova et al.   BIOCHEMISTRY-MOSCOW

Rice NAC transcription factor ONAC095 plays opposite roles in drought and cold stress tolerance

(2016) Lei Huang et al.   BMC PLANT BIOLOGY

Identification and physiological characterization of two sister lines of indica rice (Oryza sativa L.) with contrasting levels of cold tolerance

(2016) Janete M. Adamski et al.   CANADIAN JOURNAL OF PLANT SCIENCE

Abiotic Stress Signaling and Responses in Plants

(2016) Jian-Kang Zhu   CELL

Comparative transcriptomics of rice plants under cold, iron, and salt stresses

(2016) Marcelo Nogueira do Amaral et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Development of functional modules based on co-expression patterns for cell-wall biosynthesis related genes in rice

(2016) Anil Kumar Nalini Chandran et al.   JOURNAL OF PLANT BIOLOGY

Comparative metabolomic analysis reveals a reactive oxygen species-dominated dynamic model underlying chilling environment adaptation and tolerance in rice

(2016) Jingyu Zhang et al.   NEW PHYTOLOGIST

Rice mutants deficient in ω -3 fatty acid desaturase (FAD8) fail to acclimate to cold temperatures

(2016) Altanzaya Tovuu et al.   PLANT PHYSIOLOGY AND BIOCHEMISTRY

RiTE database: a resource database for genus-wide rice genomics and evolutionary biology

(2015) Dario Copetti et al.   BMC GENOMICS

A Mechanism for Sustained Cellulose Synthesis during Salt Stress

(2015) Anne Endler et al.   CELL

COLD1 Confers Chilling Tolerance in Rice

(2015) Yun Ma et al.   CELL

Knock-down of stress inducible OsSRFP1 encoding an E3 ubiquitin ligase with transcriptional activation activity confers abiotic stress tolerance through enhancing antioxidant protection in rice

(2015) Huimin Fang et al.   PLANT MOLECULAR BIOLOGY

Cold tolerance in rice germinating seeds revealed by deep RNAseq analysis of contrasting indica genotypes

(2015) Andressa Dametto et al.   PLANT SCIENCE

A quantitative shotgun proteomics analysis of germinated rice embryos and coleoptiles under low-temperature conditions

(2015) Joohyun Lee et al.   Proteome Science

Transposable Elements Contribute to Activation of Maize Genes in Response to Abiotic Stress

(2015) Irina Makarevitch et al.   PLoS Genetics

Genetic Analysis of Cold Tolerance at the Germination and Booting Stages in Rice by Association Mapping

(2015) Yinghua Pan et al.   PLoS One

Characterization of the Ubiquitin-Conjugating Enzyme Gene Family in Rice and Evaluation of Expression Profiles under Abiotic Stresses and Hormone Treatments

(2015) Zhiguo E et al.   PLoS One

Comparative Transcriptomics of Sijung and Jumli Marshi Rice during Early Chilling Stress Imply Multiple Protective Mechanisms

(2015) Angelica Lindlöf et al.   PLoS One

Analysis of Stress-Responsive Gene Expression in Cultivated and Weedy Rice Differing in Cold Stress Tolerance

(2015) Caroline Borges Bevilacqua et al.   PLoS One

Comparative Transcriptome Analysis of Shoots and Roots of TNG67 and TCN1 Rice Seedlings under Cold Stress and Following Subsequent Recovery: Insights into Metabolic Pathways, Phytohormones, and Transcription Factors

(2015) Yun-Wei Yang et al.   PLoS One

Identification and Fine Mapping of a Stably Expressed QTL for Cold Tolerance at the Booting Stage Using an Interconnected Breeding Population in Rice

(2015) Yajun Zhu et al.   PLoS One

Mapping QTLs for cold tolerance at germination and the early seedling stage in rice (Oryza sativaL.)

(2014) Aloka Lanka Ranawake et al.   BIOTECHNOLOGY & BIOTECHNOLOGICAL EQUIPMENT

Comparative transcriptome sequencing of tolerant rice introgression line and its parents in response to drought stress

(2014) Liyu Huang et al.   BMC GENOMICS

Natural Variation in the Sequence of SNAC1 and Its Expression Level Polymorphism in Rice Germplasms under Drought Stress

(2014) Khamdok Songyikhangsuthor et al.   Journal of Genetics and Genomics

Genome-wide profiling of changes in gene expression in response to infection of the japonica rice variety Yunyin by Magnaporthe oryzae

(2014) Feng Huang et al.   MOLECULAR BREEDING

QTL mapping and development of candidate gene-derived DNA markers associated with seedling cold tolerance in rice (Oryza sativa L.)

(2014) Suk-Man Kim et al.   MOLECULAR GENETICS AND GENOMICS

STRING v10: protein–protein interaction networks, integrated over the tree of life

(2014) Damian Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

Genome-wide analysis of endosperm-specific genes in rice

(2013) Dong-Ming Nie et al.   GENE

Comparative Genomic Paleontology across Plant Kingdom Reveals the Dynamics of TE-Driven Genome Evolution

(2013) Moaine El Baidouri et al.   Genome Biology and Evolution

The role of gibberellin signalling in plant responses to abiotic stress

(2013) E. H. Colebrook et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Sensing the environment: key roles of membrane-localized kinases in plant perception and response to abiotic stress

(2013) Yuriko Osakabe et al.   JOURNAL OF EXPERIMENTAL BOTANY

A mutation in theexpansin-like A2gene enhances resistance to necrotrophic fungi and hypersensitivity to abiotic stress inArabidopsis thaliana

(2013) Synan Abuqamar et al.   MOLECULAR PLANT PATHOLOGY

Plant Omics: Genome-Wide Analysis of ABA Repressor1 (ABR1) Related Genes in Rice During Abiotic Stress and Development

(2013) Manali Mishra et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Rice Annotation Project Database (RAP-DB): An Integrative and Interactive Database for Rice Genomics

(2013) Hiroaki Sakai et al.   PLANT AND CELL PHYSIOLOGY

Isolation and characterization of rice (Oryza sativa L.) E3-ubiquitin ligase OsHOS1 gene in the modulation of cold stress response

(2013) Tiago Lourenço et al.   PLANT MOLECULAR BIOLOGY

Low Temperature-Responsive Changes in the Anther Transcriptome's Repeat Sequences Are Indicative of Stress Sensitivity and Pollen Sterility in Rice Strains,

(2013) S. Ishiguro et al.   PLANT PHYSIOLOGY

Comparative Transcriptome Analysis of Two Rice Varieties in Response to Rice Stripe Virus and Small Brown Planthoppers during Early Interaction

(2013) Wenjing Zheng et al.   PLoS One

Global Expression Profiling of Low Temperature Induced Genes in the Chilling Tolerant Japonica Rice Jumli Marshi

(2013) Aakash Chawade et al.   PLoS One

Cytokinin cross-talking during biotic and abiotic stress responses

(2013) José A. O’Brien et al.   Frontiers in Plant Science

Avoiding damage and achieving cold tolerance in rice plants

(2013) Renata Pereira da Cruz et al.   Food and Energy Security

Biochemical identification of the OsMKK6–OsMPK3 signalling pathway for chilling stress tolerance in rice

(2012) Guosheng Xie et al.   BIOCHEMICAL JOURNAL

Impacts of Diversification of Cytochrome P450 on Plant Metabolism

(2012) Masaharu Mizutani   BIOLOGICAL & PHARMACEUTICAL BULLETIN

Genome-wide gene expression profiling of introgressed indica rice alleles associated with seedling cold tolerance improvement in a japonica rice background

(2012) Fan Zhang et al.   BMC GENOMICS

Contribution of the different omega-3 fatty acid desaturase genes to the cold response in soybean

(2012) Ángela Román et al.   JOURNAL OF EXPERIMENTAL BOTANY

Protein expression changes during cotton fiber elongation in response to low temperature stress

(2012) Mi Zheng et al.   JOURNAL OF PLANT PHYSIOLOGY

Transcription factor AtbZIP60 regulates expression of Ca2+-dependent protein kinase genes in transgenic cells

(2012) Wei Tang et al.   MOLECULAR BIOLOGY REPORTS

NCBI GEO: archive for functional genomics data sets—update

(2012) Tanya Barrett et al.   NUCLEIC ACIDS RESEARCH

Auxin: a regulator of cold stress response

(2012) Abidur Rahman   PHYSIOLOGIA PLANTARUM

Retrotransposons Control Fruit-Specific, Cold-Dependent Accumulation of Anthocyanins in Blood Oranges

(2012) E. Butelli et al.   PLANT CELL

A TFIIIA-type zinc finger protein confers multiple abiotic stress tolerances in transgenic rice (Oryza sativa L.)

(2012) Ji Huang et al.   PLANT MOLECULAR BIOLOGY

Comparative Transcriptome Profiling of Chilling Stress Responsiveness in Two Contrasting Rice Genotypes

(2012) Ting Zhang et al.   PLoS One

Genome-Wide Transcriptional Profiles during Temperature and Oxidative Stress Reveal Coordinated Expression Patterns and Overlapping Regulons in Rice

(2012) Dheeraj Mittal et al.   PLoS One

Proteomic analysis of salt-responsive ubiquitin-related proteins in rice roots

(2012) Chih-Wei Liu et al.   RAPID COMMUNICATIONS IN MASS SPECTROMETRY

Detection of a novel quantitative trait locus for cold tolerance at the booting stage derived from a tropical japonica rice variety Silewah

(2011) Masahiko Mori et al.   BREEDING SCIENCE

Engineering Cold Stress Tolerance in Crop Plants

(2011) Gulzar S. Sanghera et al.   CURRENT GENOMICS

OsWRKY45 alleles play different roles in abscisic acid signalling and salt stress tolerance but similar roles in drought and cold tolerance in rice

(2011) Zeng Tao et al.   JOURNAL OF EXPERIMENTAL BOTANY

A rice microsomal delta-12 fatty acid desaturase can enhance resistance to cold stress in yeast and Oryza sativa

(2011) Jinlei Shi et al.   MOLECULAR BREEDING

Investigation of the potential for triterpene synthesis in rice through genome mining and metabolic engineering

(2011) Yoshi-Shige Inagaki et al.   NEW PHYTOLOGIST

Enhanced chilling tolerance at the booting stage in rice by transgenic overexpression of the ascorbate peroxidase gene, OsAPXa

(2011) Yutaka Sato et al.   PLANT CELL REPORTS

Identification and characterization of annexin gene family in rice

(2011) Sravan Kumar Jami et al.   PLANT CELL REPORTS

Structure, function and membrane interactions of plant annexins: An update

(2011) Dorota Konopka-Postupolska et al.   PLANT SCIENCE

Response to photoxidative stress induced by cold in japonica rice is genotype dependent

(2011) Victoria Bonnecarrère et al.   PLANT SCIENCE

ERD15—An attenuator of plant ABA responses and stomatal aperture

(2011) Markku K. Aalto et al.   PLANT SCIENCE

Identification and fine mapping of a major quantitative trait locus originating from wild rice, controlling cold tolerance at the seedling stage

(2010) Maiko Koseki et al.   MOLECULAR GENETICS AND GENOMICS

Overexpression of an F-box Protein Gene Reduces Abiotic Stress Tolerance and Promotes Root Growth in Rice

(2010) Yong-Sheng Yan et al.   Molecular Plant

Perspectives on Remorin Proteins, Membrane Rafts, and Their Role During Plant–Microbe Interactions

(2010) Iris K. Jarsch et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Plant responses to cold: transcriptome analysis of wheat

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

OsRAN2, essential for mitosis, enhances cold tolerance in rice by promoting export of intranuclear tubulin and maintaining cell division under cold stress

(2010) NA CHEN et al.   PLANT CELL AND ENVIRONMENT

A Novel MYBS3-Dependent Pathway Confers Cold Tolerance in Rice

(2010) C. F. Su et al.   PLANT PHYSIOLOGY

Map-based cloning of the rice cold tolerance gene Ctb1

(2010) Koji Saito et al.   PLANT SCIENCE

Overexpression of ethylene response factor TERF2 confers cold tolerance in rice seedlings

(2010) Yun Tian et al.   TRANSGENIC RESEARCH

Stress-Induced Activation of Heterochromatic Transcription

(2010) Mireille Tittel-Elmer et al.   PLoS Genetics

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

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

Cytokinin action in plant development

(2009) Tomáš Werner et al.   CURRENT OPINION IN PLANT BIOLOGY

Ectopic expression of a cold-responsive OsAsr1 cDNA gives enhanced cold tolerance in transgenic rice plants

(2009) Soo-Jin Kim et al.   MOLECULES AND CELLS

Unexpected consequences of a sudden and massive transposon amplification on rice gene expression

(2009) Ken Naito et al.   NATURE

A guide to using MapMan to visualize and compare Omics data in plants: a case study in the crop species, Maize

(2009) BJÖRN USADEL et al.   PLANT CELL AND ENVIRONMENT

Stress-induced changes in theArabidopsis thalianatranscriptome analyzed using whole-genome tiling arrays

(2009) Georg Zeller et al.   PLANT JOURNAL

Identification and expression profiling analysis of TIFY family genes involved in stress and phytohormone responses in rice

(2009) Haiyan Ye et al.   PLANT MOLECULAR BIOLOGY

OsPRP3, a flower specific proline-rich protein of rice, determines extracellular matrix structure of floral organs and its overexpression confers cold-tolerance

(2009) Kodiveri Muthukalianan Gothandam et al.   PLANT MOLECULAR BIOLOGY

Transcriptome map for seedling stage specific salinity stress response indicates a specific set of genes as candidate for saline tolerance in Oryza sativa L.

(2008) Sumita Kumari et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Low temperature and light regulate delta 12 fatty acid desaturases (FAD2) at a transcriptional level in cotton (Gossypium hirsutum)

(2008) Anastasia Kargiotidou et al.   JOURNAL OF EXPERIMENTAL BOTANY

The Receptor-Like Cytoplasmic Kinase (OsRLCK) Gene Family in Rice: Organization, Phylogenetic Relationship, and Expression during Development and Stress

(2008) Shubha Vij et al.   Molecular Plant

Analyzing real-time PCR data by the comparative CT method

(2008) Thomas D Schmittgen et al.   Nature Protocols

Overexpression of a rice OsDREB1F gene increases salt, drought, and low temperature tolerance in both Arabidopsis and rice

(2008) Qiuyun Wang et al.   PLANT MOLECULAR BIOLOGY

QTL analysis of cold tolerance at seedling stage in rice (Oryza sativa L.) using recombination inbred lines

(2007) Ling Jiang et al.   JOURNAL OF CEREAL SCIENCE