(Q28546123)

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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

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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 (English)

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4

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Li-Yu Liu

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Men-Chi Chang

5

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author name string

Yun-Wei Yang

1

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Hung-Chi Chen

2

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Wei-Fu Jen

3

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publication date

2015

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10

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7

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e0131391

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Creative Commons Attribution 4.0 International

2 July 2015

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April 2022 Public Data File from Crossref

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Cytoscape

2 references

Europe PubMed Central

9 June 2022

https://europepmc.org/search?query=(METHODS:'Cytoscape')

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CZ Software Mentions: A large dataset of software mentions in the biomedical literature

MAPMAN: a user-driven tool to display genomics data sets onto diagrams of metabolic pathways and other biological processes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

9 May 2017

Development of a microarray for two rice subspecies: characterization and validation of gene expression in rice tissues

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Global expression profiling of low temperature induced genes in the chilling tolerant japonica rice Jumli Marshi

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Endogenous auxin and jasmonic acid levels are differentially modulated by abiotic stresses in rice

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Jasmonate regulates the inducer of cbf expression-C-repeat binding factor/DRE binding factor1 cascade and freezing tolerance in Arabidopsis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Identification of genes involved in the response of Arabidopsis to simultaneous biotic and abiotic stresses

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

The phytohormone crosstalk paradigm takes center stage in understanding how plants respond to abiotic stresses.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Metabolomics as a tool to investigate abiotic stress tolerance in plants

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Identification of transcription factors potential related to brown planthopper resistance in rice via microarray expression profiling

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Comparative transcriptome profiling of chilling stress responsiveness in two contrasting rice genotypes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Auxin: a regulator of cold stress response

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Seven zinc-finger transcription factors are novel regulators of the stress responsive gene OsDREB1B.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

A R2R3-type MYB gene, OsMYB2, is involved in salt, cold, and dehydration tolerance in rice

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Analysis of cytokinin mutants and regulation of cytokinin metabolic genes reveals important regulatory roles of cytokinins in drought, salt and abscisic acid responses, and abscisic acid biosynthesis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

ABA controls H₂O₂ accumulation through the induction of OsCATB in rice leaves under water stress

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

CONSTANS and the evolutionary origin of photoperiodic timing of flowering.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Common and distinct organ and stress responsive transcriptomic patterns in Oryza sativa and Arabidopsis thaliana

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Reactive oxygen species and antioxidant machinery in abiotic stress tolerance in crop plants

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Genome-wide analysis of NAC transcription factor family in rice

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

A subset of cytokinin two-component signaling system plays a role in cold temperature stress response in Arabidopsis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Transcriptional regulatory network triggered by oxidative signals configures the early response mechanisms of japonica rice to chilling stress

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Energy signaling in the regulation of gene expression during stress

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Proteasome regulation, plant growth and stress tolerance

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Ubiquitin-mediated regulation of apoptosis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

A third phytoene synthase is devoted to abiotic stress-induced abscisic acid formation in rice and defines functional diversification of phytoene synthase genes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Characterization of transcription factor gene SNAC2 conferring cold and salt tolerance in rice

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Functional analysis of AHK1/ATHK1 and cytokinin receptor histidine kinases in response to abscisic acid, drought, and salt stress in Arabidopsis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Cold stress regulation of gene expression in plants.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Functional analysis of a NAC-type transcription factor OsNAC6 involved in abiotic and biotic stress-responsive gene expression in rice

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

An early response regulatory cluster induced by low temperature and hydrogen peroxide in seedlings of chilling-tolerant japonica rice

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Overexpression of an R1R2R3 MYB gene, OsMYB3R-2, increases tolerance to freezing, drought, and salt stress in transgenic Arabidopsis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Involvement of polyamines in plant response to abiotic stress

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Integration of plant responses to environmentally activated phytohormonal signals

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

A prominent role for the CBF cold response pathway in configuring the low-temperature metabolome of Arabidopsis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

dwarf and delayed-flowering 1, a novel Arabidopsis mutant deficient in gibberellin biosynthesis because of overexpression of a putative AP2 transcription factor

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Monitoring expression profiles of rice genes under cold, drought, and high-salinity stresses and abscisic acid application using cDNA microarray and RNA gel-blot analyses

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Recessive and dominant mutations in the ethylene biosynthetic gene ACS5 of Arabidopsis confer cytokinin insensitivity and ethylene overproduction, respectively.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4489882

29 September 2017

Hormone balance and abiotic stress tolerance in crop plants

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0131391

21 January 2018

Putrescine is involved in Arabidopsis freezing tolerance and cold acclimation by regulating abscisic acid levels in response to low temperature.

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0131391

21 January 2018

Annotations and functional analyses of the rice WRKY gene superfamily reveal positive and negative regulators of abscisic acid signaling in aleurone cells

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0131391

21 January 2018

Multilevel genomic analysis of the response of transcripts, enzyme activities and metabolites in Arabidopsis rosettes to a progressive decrease of temperature in the non-freezing range

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0131391

21 January 2018

CTD phosphatases in the attenuation of wound-induced transcription of jasmonic acid biosynthetic genes in Arabidopsis

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0131391

21 January 2018

Cytoplasmic alkalization precedes reactive oxygen species production during methyl jasmonate- and abscisic acid-induced stomatal closure

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0131391

21 January 2018

Mutations in the gravity persistence signal loci in Arabidopsis disrupt the perception and/or signal transduction of gravitropic stimuli

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0131391

21 January 2018

Molecular characterization and expression profiles of MaCOL1, a CONSTANS-like gene in banana fruit

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0131391

21 January 2018

Characterization of the response of the Arabidopsis response regulator gene family to cytokinin.

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0131391

21 January 2018

Involvement of endogenous abscisic acid in methyl jasmonate-induced stomatal closure in Arabidopsis

1 reference

https://pubmed.ncbi.nlm.nih.gov/26133169

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Low temperature induction of Arabidopsis CBF1, 2, and 3 is gated by the circadian clock

1 reference

https://pubmed.ncbi.nlm.nih.gov/26133169

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Ethylene signaling negatively regulates freezing tolerance by repressing expression of CBF and type-A ARR genes in Arabidopsis

1 reference

https://pubmed.ncbi.nlm.nih.gov/26133169

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Cold stress-induced acclimation in rice is mediated by root-specific aquaporins

1 reference

https://pubmed.ncbi.nlm.nih.gov/26133169

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Auxin response in Arabidopsis under cold stress: underlying molecular mechanisms

1 reference

https://pubmed.ncbi.nlm.nih.gov/26133169

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Overexpression of the rice Osmyb4 gene increases chilling and freezing tolerance of Arabidopsis thaliana plants

1 reference

https://pubmed.ncbi.nlm.nih.gov/26133169

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1371/JOURNAL.PONE.0131391

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Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

2015PLoSO..1031391Y

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Consolidated OpenCitations Corpus – April 2017

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PMC publication ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

PubMed publication ID

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Consolidated OpenCitations Corpus – April 2017

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