Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptome profiling of sugarcane root in response to low-K stress

ABSTRACT: To explore the molecular mechanism of low-K tolerance in sugarcane, we have employed whole genome microarray expression profiling to identify sugarcane genes in response to low-K stress. seeldings were transplanted to low-K hydroponic (containing 0.1 mmol.L-1 K+) and the roots were collected at 0 (CK), 8, 24 and 72 h after exposure to low-K condition. The expressions of genes in sugarcane roots were detected by microarray analysis. Totally 1545 genes at 8 h, 1053 genes at 24 h and 3155 at 72 h differentially expressed under low-K stress, when the 2-fold change was adopted as the threshold for determining differentially expressed genes. Among these genes, a certain amount of transcription factors, transporters, kinases, oxidative stress-related genes and genes in Ca+ and ethylene signaling pathway were detected to differentially express.

ORGANISM(S): Saccharum

PROVIDER: GSE61935 | GEO | 2014/10/02

SECONDARY ACCESSION(S): PRJNA262715

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Transcriptome profiling of sugarcane root in response to low-K stress

Project description:To explore the molecular mechanism of low-K tolerance in sugarcane, we have employed whole genome microarray expression profiling to identify sugarcane genes in response to low-K stress. seeldings were transplanted to low-K hydroponic (containing 0.1 mmol.L-1 K+) and the roots were collected at 0 (CK), 8, 24 and 72 h after exposure to low-K condition. The expressions of genes in sugarcane roots were detected by microarray analysis. Totally 1545 genes at 8 h, 1053 genes at 24 h and 3155 at 72 h differentially expressed under low-K stress, when the 2-fold change was adopted as the threshold for determining differentially expressed genes. Among these genes, a certain amount of transcription factors, transporters, kinases, oxidative stress-related genes and genes in Ca+ and ethylene signaling pathway were detected to differentially express. Seeldings were treated with low-K hydroponic (containing 0.1 mmol.L-1 K+) and after 0 (CK), 8, 24 and 72 h exposure to low -K stress, the roots of sugarcane were collected. Four independent experiments were performed using roots collected at different time points

2014-10-02 | E-GEOD-61935 | biostudies-arrayexpress

Ethanol Treatment Enhances Drought Stress Tolerance in Plants

Project description:Gene expression profiles of ethanol treated drought-stressed roots and shoots was performed at 3, 24, and 72 h after ethanol treatment and 1, 3, and 5 days after drought stress were analyzed using the custom microarray Agilent-034592.

2022-10-04 | GSE201609 | GEO

Differential epigenetic regulation in leaves and roots of sugarcane submitted to drought stress

Project description:In order to increase our understanding on the epigenetic regulation in response to abiotic stresses in plants, sRNA regulation in sugarcane plants submitted to drought stress was analyzed. Deep sequencing analysis was carried out to identify the sRNA regulated in leaves and roots of sugarcane cultivars with different drought sensitivities. An enrichment of 22-nt sRNA species was observed in leaf libraries. The pool of sRNA selected allowed the analysis of different sRNA classes (miRNA and siRNA). Twenty eight and 36 families of conserved miRNA were identified in leaf and root libraries, respectively. Dynamic regulation of miRNA was observed and the expression profile of eight miRNA was verified in leaf samples by stem-loop qRT-PCR assay. Altered miRNA regulation was correlated with changes in mRNA levels of specific targets. 22-nt miRNA triggered siRNA-candidates production by cleavage of their targets in response to drought stress. Some genes of sRNA biogenesis were down-regulated in tolerant genotypes and up-regulated in sensitive in response to drought stress. Our analysis contributes to increase the knowledge on the roles of sRNA in epigenetic-regulatory pathways in sugarcane submitted to drought stress. Screenning of sRNA transcriptome of sugarcane plants under drougth stress

2012-11-24 | E-GEOD-42483 | biostudies-arrayexpress

The molecular response of two Brassica napus cultivars to short-term hypoxia in the root zone

Project description:Waterlogging is one major stress for crops and causes multiple problems for plants, for example low gas diffusion, reducing conditions in the soil and accumulation of toxic metabolites. Brassica napus is an important oil crop with high waterlogging sensitivity, which may cause severe yield losses. Its reactions to the stress are not fully understood. In this work the transcriptional response of rapeseed to one aspect of waterlogging, hypoxia in the root zone, was analyzed, including two rapeseed cultivars from different origin, Avatar from Europe and Zhongshuang 9 from Asia. Both cultivars showed a high number of differentially expressed genes in roots after 4 and 24 h of hypoxia. The response included many well-known hypoxia-induced genes such as genes coding for glycolytic and fermentative enzymes. Leaves hardly responded to the root stress after a 24-h-stress treatment, and photosynthesis seemed to be not affected by the stress applied to roots. There was no clear difference in either gene expression or tolerance to waterlogging between the two genotypes used in this study.

2022-05-03 | GSE180262 | GEO

Expression analysis of the effect of protoplasting and sorting in roots exposed to low pH

Project description:To estimate the effect of protoplasting and sorting on low pH-regulated gene expression, we generated expression profiles for whole roots treated with low pH for 24 hours and whole roots that had been protoplasted and FACS sorted after 24 hours of exposure to low pH. Stress responses in plants are tightly coordinated with developmental processes, but the interaction between these pathways is poorly understood. Here we use genome-wide assays at high spatial and temporal resolution to understand the processes that lnk development and stress in the Arabidopsis root. Our meta-analysis finds little evidence for a universal stress response. Common stress responses appear to exists and, analagous to animal systems, many of them show cell-type specificity, suggesting a convergent evolutionary theme in multicellular organisms. Common stress responses may be mediated by cell identity regulators, as mutations in these genes resulted in altered responses to stress. Our results reveal surprising linkages between stress and development at cellular resolution, and show the power of multiple genome-wide datasets to elucidate biological processes. 3 replicates of protoplasted, FACS sorted whole roots exposed to low pH and 2 replicates of whole roots exposed to low pH

2011-11-23 | E-GEOD-30091 | biostudies-arrayexpress

Label-free quantitative proteomics of enriched nuclei from sugarcane (Saccharum ssp) stems in response to drought stress

Project description:Drought is considered the major abiotic stress limiting crop productivity. This study sought to identify proteins involved in the drought response in sugarcane stems submitted to drought stress. The integration of nuclei enrichment sample preparation with the shotgun proteomic approach (nLC-MS/MS) resulted in great coverage of the sugarcane stem proteome with 5,381 protein groups identified (1% FDR). A total of 1,204 differentially accumulated proteins (DAPs) were detected in response to drought, among which 586 showed increased abundance and 618 decreased abundance.

2019-06-10 | PXD013797 | Pride

Root proteome alterations of sugarcane cultivar RB966928 promoted by regrowth cycle in commercial production

Project description:Decrease in agricultural productivity in successive cuttings of sugarcane plants has been related to several extrinsic and intrinsic factors, even though no studies have been recently conducted to assess the physiological potential of sett roots in successive cuts in sugarcane culture. Proteomic studies on sugarcane sett roots at different cut stages are unknown. The UPLC-ESI-TOF-MS system and bioinformatics tools were used to identify proteins of sett roots in the first and fifth cuts of sugarcane cultivar RB966928 in the sprouting stage. The differences in proteome of sett roots from sugarcane cv. RB966928 in the first and fifth cut detected in current study support the hypothesis that the proteome of sett roots may change after successive cuts in sugarcane culture. A reduction in the number of proteins has been observed in the roots of the fifth cut, while 34% of proteins, identified exclusively in the first cut, were absent in the fifth one. Proteome analysis of sett roots in the first and fifth cut showed that the changes after successive cuts are not only quantitative, but mainly qualitative. The detailed list of proteins identified in the first cut but absent in the fifth cut reported in the present study is relevant since it opens a perspective for the lines of research that employ biotic or abiotic elicitors to induce gene expression for essential proteins absents in sett roots of the fifth cut, increasing the agricultural productivity and longevity of cane fields.

2021-12-14 | PXD023098 | JPOST Repository

Comparative transcriptome analysis of banana (Musa acuminata L. AAA group, cv. Cavendish) leaves and roots in response to low-potassium stress

Project description:Potassium (K+) is a crucial macronutrient in high biomass plants, especially in banana.we comparatively studyed the phenotypic traits and transcriptomic profiles of banana leaves and roots between low potassium group (LK) and normal-potassium group (NK). In our study, the K+ content and biomass index of banana seedling were all significantly decreased under the stress of low potassium group. Moreover, thirty differentially expressed genes (DEGs) related to potassium transport and uptake and transcription factors were analyzed deeply. DEGs about ABC transporters, protein kinases and ion transporters were also detected, these genes may play important roles during potassium deficiency. These results provide valuable information about banana response to low potassium conditions.

2019-12-31 | GSE102968 | GEO

Expression analysis of the effect of protoplasting and sorting in roots exposed to low pH

2011-11-23 | GSE30091 | GEO