Cold-responsive genes in tomato
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ABSTRACT:
PROVIDER: PRJNA1201737 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Genome-wide identification of cold-responsive genes regulated by SlHY5 Raw sequence reads
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Project description:Free and glycosylated sterols play a central role in maintaining the structural integrity and proper functioning of plasma membrane, which serves as the primary sensor of cold and initiates signaling cascades to mitigate chilling-induced damage. Here we characterize the cold response of tomato (Micro-Tom) mutants with opposite glycosylated to free sterol ratio resulting from the overexpression and silencing of the sterol glycosyltransferases SlSGT2 and SlSGT1. A high ratio in the SlSGT2 overexpressing mutants increases cold tolerance, membrane stability, and oxidative stress responses, while a low ratio in the SlSGT1-silenced mutants causes the opposite phenotypes. The different cold sensitivity in these mutants is due to the altered membrane sterol profiles, rather than to a different capacity to adjust sterol levels during cold exposure. Changes in the glycosylated to free sterol ratio also trigger distinct transcriptional programs that establish a preconditioned stress-responsive state under basal conditions and a more efficient response under cold exposure in the SlSGT2 overexpressing mutants and compromise the capacity to withstand the effects of cold stress in the SlSGT1-silenced mutants. The SlSGT2 overexpressing mutants accumulate higher basal levels of jasmonates and display enhanced biosynthetic capacity under cold stress compared to SlSGT1-silenced and control plants. The elevated glycosylated to free sterol ratio in SlSGT2 overexpressing mutants facilitates JA biosynthesis and signaling, leading to the activation of cold-responsive genes, including those of the CBF–COR pathway, antioxidant defenses and polyamine biosynthesis. Our findings provide key insights into the mechanisms by which glycosylated sterols improve cold tolerance in tomato.
2025-09-30 | GSE292957 | GEO
Project description:To understand the gene network that controls plant tolerance to cold stress, we carried out a near full genome transcript expression profiling in Arabidopsis using Affymetrix GeneChips that contain approximately 24,000 genes. For microarray analysis, Arabidopsis seedlings were cold treated at 0 C for 0 h, 3 h, 6 h, and 24 h. A total of 939 genes were statistically determined to be cold-regulated with 655 being up-regulated and 284 down-regulated. A large number of the early cold-responsive genes encode transcription factors that likely control late-responsive genes, which implies a multitude of transcriptional cascades. In addition, many genes involved in post-transcriptional and chromatin level regulation were also cold regulated suggesting their involvement in cold responsive gene regulation. A number of genes important for the biosynthesis or signaling of plant hormones, such as abscisic acid, gibberellic acid and auxin, are regulated by cold stress, which is of potential importance in coordinating cold tolerance with growth and development. We compared the cold-responsive transcriptomes of wild type and ice1, a mutant defective in an upstream transcription factor required for chilling and freezing tolerance. The transcript levels of many cold-responsive genes were altered in the ice1 mutant not only during cold stress conditions, but also before cold treatments. Our study provides a global picture of the Arabidopsis cold-responsive transcriptome and its control by ICE1, and thus will be valuable for understanding gene regulation under cold stress and the molecular mechanisms of cold tolerance. Keywords: Cold Stress response
2005-10-01 | GSE3326 | GEO
Project description:Genome-wide identification of cold-responsive genes regulated by SlTGA2.2 and SlTGA5 Raw sequence reads
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Project description:Genome-wide identification of cold-responsive genes regulated by SlHY5 Transcriptome
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Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goal of this study is genome wide association mapping for cold tolerance and yield studies in tomato (Solanum spp.) by phenotyping the genotypes under six diffrent temporal arrangments. Also for conducting quantitative reverse transcription polymerase chain reaction (qRT–PCR) assay of cold tolerant genes.
2023-04-01 | GSE200034 | GEO
Project description:The transcriptome of leaves from two Anthurium cultivars, Oregon (Elegang, E, cold tolerant) and Fantasy love (Menghuan, MH, cold sensitive) under cold stress were sequenced by Illumina Novaseq™ 6000. Sequencing generated a total of 129.44 Gb of raw reads and an average of 7.19 Gb of reads for each sample. The analysis showed differences of transcriptomes between the control and the cold treatment samples. We identified numerous differentially expressed genes that exhibited distinct expression patterns. These genes have known or potential roles inAnthurium cold tolerance.Therefore, we are appealing candidates for further investigation of the gene expression and associated regulatory mechanisms related to the cold stress response of A. andraeanum.
2023-05-21 | GSE232629 | GEO
Project description:RNA sequencing was performed to investigate the the response mechanism of tomato response to cold stress.“Micro-TOM-EX” is the 'Micro-TOM' plants overexpressing a GATA transcription factor gene.
2020-04-19 | GSE148887 | GEO
Project description:Long non-coding RNAs (lncRNAs) are essential regulators of a broad range of biological processes in plants. Spectacular progress in next-generation sequencing technologies has enabled genome-wide identification of lncRNAs in multiple plant species. In this study, genome-wide lncRNA sequencing technology was used to identify cold-responsive lncRNAs at the booting stage in rice by comparison of a tolerant variety, Kongyu131 (KY131), and a sensitive variety, Dongnong422 (DN422). GO and KEGG enrichment analysis were performed, focusing on the cis- and trans- target genes of differential lncRNAs. To identify cold-responsive genes, a meta-analysis was used to integrate cold-tolerant QTLs at the booting stage. In total, 13 cold-responsive target genes were obtained by KEGG enrichment analysis combined with meta-analysis, as confirmed by qRT-PCR. Finally, three of these genes were identified in response to cold stress. These results sought to provide new insight into cold-resistance research for rice.
2018-12-15 | GSE123900 | GEO