Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Tissue-level transcriptome response to local and distal chilling reveals potential chilling survival mechanisms in maize

ABSTRACT: Chilling is a major stress to plants of subtropical and tropical origins including maize. To reveal molecular mechanisms underlying chilling tolerance and chilling survival, we investigated maize transcriptome responses to chilling stress in differentiated leaves and roots as well as in crowns with meristem activity for survival. Chilling stress on maize shoots and roots is found to each contribute to seedling lethality in maize. Comparison of maize lines with different chilling tolerance capacity reveals that chilling survival in maize is highly associated with upregulation in leaves and crowns of abscisic acid response pathway, transcriptional regulators and cold response as well as downregulation of heat response in crowns. Comparison of chilling treatment on whole and part of the plants reveals that response to distal-chilling is very distinct from, and sometimes opposite to, response to local- or whole-plant chilling in both leaves and roots, suggesting a communication between shoots and roots in environmental perception. In sum, this study details chilling responses in leaves, roots and crowns and reveals potential chilling survival mechanism in maize, which lays ground for further understanding survival and tolerance mechanisms under low but non-freezing temperatures in tropical and subtropical plants.

ORGANISM(S): Zea mays

PROVIDER: GSE167881 | GEO | 2023/07/14

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Transcriptome analysis of four maize lines to detect the different responses to chilling stress and reveal the survival mechanisms in maize

Project description:Purpose: The goal of this analysis is that to reveal the different expression pattern in chilling-tolerant and chilling susceptible lines under chilling stress.Chilling is a major stress to plants of subtropical and tropical origins including maize. To reveal molecular mechanisms underlying chilling tolerance and chilling survival, we investigated maize transcriptome responses to chilling stress in differentiated leaves and roots as well as in crowns with meristem activity for survival. Chilling stress on maize shoots and roots is found to each contribute to seedling lethality in maize. Comparison of maize lines with different chilling tolerance capacity reveals that chilling survival in maize is highly associated with upregulation in leaves and crowns of abscisic acid response pathway, transcriptional regulators and metal ion transporters as well as downregulation of heat response in crowns. Comparison of chilling treatment on whole and part of the plants reveals that response to distal-chilling is very distinct from, and sometimes opposite to, response to local- or whole-plant chilling in both leaves and roots, suggesting a communication between shoots and roots in environmental perception. In sum, this study details chilling responses in leaves, roots and crowns and reveals potential chilling survival mechanism in maize, which lays ground for further understanding survival and tolerance mechanisms under low but non-freezing temperatures in tropical and subtropical plants.

2023-02-19 | GSE167156 | GEO

Tomato plants increase their tolerance to low temperatures in a chilling acclimation process entailing comprehensive transcriptional and metabolic adjustments

Project description:Most crops are from tropical origin and, consequently, chilling sensitive. However, some tropical plants, are able to augment their chilling tolerance in response to suboptimal growth temperatures. Yet, the molecular and physiological mechanisms underlying this response still remain unclear. Here, we demonstrate that tomato plants can develop a chilling acclimation response and document the comprehensive transcriptomic and metabolic adjustments leading to the increase in chilling tolerance.

2018-08-24 | GSE78154 | GEO

Phosphoproteomics of Jatropha curcas seedling under chilling stress

Project description:As a promising energy plant for biodiesel, Jatropha curcas is a tropical and subtropical shrub. Chilling is a major abiotic stress affecting the growth and development of J. curcas. In this study, we adopt the phosphoproteomic analysis, physiological measurement, ultrastructure observation to illustrate molecular mechanisms of J. curcas seedling under chilling (4 °C) stress. After chilling for 6 h, 308 significantly changed phosphoproteins were detected in J. curcas seedling without obvious physiological injury. When obvious physiological injury can be observed after chilling for 24 h, a total of 332 phosphoproteins were examined to be significantly changed, after recovery (28 °C) for 24 h, 291 phosphoproteins were varied at the phosphorylation level. The results of Gene Ontology analysis showed that phosphoproteins were mainly responsible for cellular protein modification process, transport, cellular component organization and signal transduction at the chilling and recovery periods. On the basis of protein-protein interaction network analysis, several protein kinases, such as SnRK2 (serine threonine-protein kinase srk2), MEKK1 (mitogen-activated protein kinase kinase kinase 1), EDR1, CDPK (calcium-dependent protein kinase), EIN2 (Ethylene-insensitive protein 2), EIN4, PI4K (phosphatidylinositol 4-kinase alpha 1) and 14-3-3 were possible responsible for cross-talk between ABA, Ca2+, ethylene, phosphoinositide and 14-3-3 mediated signaling pathways. We also highlighted the phosphorylation of HOS1 (E3 ubiquitin-protein ligase HOS1), APX (Cytosolic ascorbate peroxidase-1) and PIP2 (Aquaporin pip2) played vital roles in J. curcas seedling under chilling stress, and they will be valuable in further study form the molecular breeding perspective.

2019-01-09 | PXD011438 | Pride

Genome-wide comparative transcriptome profiling of two contrasting chilling tolerant rice genotypes in response to early chilling stress

Project description:To understand the molecular mechanisms underlying chilling tolerance in rice, transcriptomic deep sequencing was performed to reveal the differentially expressed genes between chilling tolerance chromosome substitution line (CSL), DC90 and its chilling-sensitive recurrent parent 9311 under early chilling stress events. Our results revealed a set of DEGs with higher basal expression in DC90 by comparison with 9311. They were functionally enriched in GO terms, such as, response to stress, response to stimulus, and response to abiotic stimulus, suggesting their positive role in intrinsic chilling tolerance. Common up-regulated and down-regulated DEGs were enriched in 26 and 34 GO terms, including response to stimulus, response to stress, and response to abiotic stimulus, respectively. Furthermore, comparative transcriptomic analysis between DC90 and 9311 in response to early chilling stress revealed 502 DEGs specifically identified in DC90. Most of gene loci were located beyond introgressed regions, implying that the introgression led to reprogramming of transcriptome in response to early chilling stress. CARMO platform analysis of these DEGs presented a complex regulatory network, including phytohormone signaling, photosynthesis pathway, that coordinately involved in chilling tolerance response of DC90. Here, the unveiled molecular regulatory network shed light on deep understanding the mechanisms of rice chilling tolerance. As well, chilling tolerant-QTLs and co-localized DEGs in introgressed fragments, will be focused for further functional investigation of the molecular mechanisms of early chilling stress response in rice.

2017-06-25 | GSE76415 | GEO

Expression data from rice seeds during low temperature treatment

Project description:As a species mostly planted in tropical and subtropical regions, rice is sensitive to chilling temperature, especially at reproductive stage. However, the effect of low temperature on seed development has not been well characterized. The transcriptome of two rice cultivars Zhonghua11 and Hanfeng were analyzed to characterize the gene regulatory networks of rice seed during low temperature treatment. Whole plants of two rice cultivars Zhonghua11 (low temperature sensitive) and Hanfeng (low temperature tolerance) were treated at 14°C for 2 days during seed development stage. The plants without treatment serve as controls. Rice seeds were harvested for RNA extraction.

2012-02-19 | E-GEOD-31077 | biostudies-arrayexpress

Determining and validating of chilling responsive microRNAs associated with leaf growth of hybrid maize (Zea mays L.) ADA313

Project description:The exxpression profilling of chilling responsive and growth regulated microRNAs of maize hybrid ADA313 was conducted. Maize seedling were subjected to chilling temperature then meristem, elongation and mature growth zones were sampled. 321 known maize microRNA expression level were determined and compared between meristem, elongation and mature zones. Determining and validating of chilling responsive microRNAs associated with leaf growth of hybrid maize (Zea mays L.) ADA313

2021-02-01 | GSE127219 | GEO

Transcription profiling of maize to identify gene expression changes after chilling for 28 hours (acclimation phase)

Project description:The aim of this study was to identify alarm (fast) and acclimation phase (delayed) changes in the gene expression pattern in leaves of maize (CM 109 genotype) subjected to moderate chilling for 28 hours.

2009-11-01 | E-MEXP-1865 | biostudies-arrayexpress

Transcription profiling of maize to identify gene expression changes after chilling for 4 hours (alarm phase)

Project description:This experiment evaluates quick (alarm) response to chilling in chilling-sensitive maize plants. Maize inbred line cm109 were grown in optimal conditions until third leaf was fully developed. At this stage plants were divided into three experimental variants: k0 - control plants, frozen at the beginning of daylight, k4 - control plants kept in the same conditions and frozen after 4 hours since beginning of daylight, c4 - plants kept in 14 deg. C for 4 hours since "dawn". At the mentioned moments, leaves were harvested and frozen in liquid nitrogen for RNA isolation.

2009-11-01 | E-MEXP-1875 | biostudies-arrayexpress

Integrative physiological, transcriptome, and metabolomic unveil the chilling responses of two melon genotypes

Project description:The physiological indicators, transcriptome, and metabolome of two melon varieties with contrasting chilling tolerance (‘162’, chilling-tolerant; ‘13-5A’ ,chilling-sensitive) were analyzed under chilling stress.

2023-02-25 | GSE225921 | GEO

Expression data from rice seeds during low temperature treatment

2012-02-19 | GSE31077 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data