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In order to understand the fungi diversity of the grape leaves

ABSTRACT: in order to understand the fungi diversity of the grape leaves Raw sequence reads

PROVIDER: PRJNA478621 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	SRR7472280_1.fastq.gz	Fastqsanger.gz
	SRR7472280_2.fastq.gz	Fastqsanger.gz
	SRR7472290.fastq.gz	Fastqsanger.gz
	SRR7472290_1.fastq.gz	Fastqsanger.gz
	SRR7472290_2.fastq.gz	Fastqsanger.gz

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Transcriptomic analysis of grape (Vitis vinifera L.) leaves exposed to ultraviolet C radiation

Project description:Solar ultraviolet C（UV-C）radiation reaching the Earth’s surface is little due to the filtering effects of the stratospheric ozone layer. At present, artificial UV-C irradiation is utilized for different biological processes. Grape is a major fruit crop around the world. Research has shown that UV-C irradiation induced the biosynthesis of phenols. However, changes at the molecular level in response to UV-C and leading to these effects are poorly understood. To elucidate the effect of UV-C on expression of genes in grape and the response mechanism, transcript abundance of grape (Vitis vinifera L.) leaves was quantified using the Affymetrix Grape Genome oligonucleotide microarray (15,700 transcripts) Grape leaves were exposed to UV-C irradiation at 6W/m2 for 10 min. LCK-0-1, LCK-0-2 and LCK-0-3 are 0 h after the initiation of treatment and as the controls; LTR-6-1, LTR-6-2 and LTR-6-3 are for 6 h after the initiation of treatment; LTR-12-1, LTR-12-2 and LTR-12-3 are for 12 h after the initiation of treatment. Three replicates for each time point. 9 samples in all.

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Integration of transcriptomic and proteomic analyses reveals new insights into the response of grape leaves to high temperature

Project description:Heat stress is one of the primary abiotic stresses that limit crop production . Grape is a popular cultivated fruit with high economic value throughout the world, and whose growth and development is often influenced by high temperature. Alternative splicing (AS) is a widespread mechanism increasing transcriptome complexity and proteome diversity. We conducted high temperature treatments (35oC, 40oC and 45oC) on grapevines (Vitis vinifera), and assessed proteomic and transcriptomic （especially AS）changes in leaves. We found that nearly 70% of the genes were alternatively spliced under high temperature. Intron retention (IR), exon skipping (ES) and alternative donor/acceptor sites were markedly induced under different high temperatures. IR was the most abundant up- and down-regulated AS event; moreover, IR events at 40 and 45oC were far higher than those at 35oC. These results indicated AS, especially IR, is an important posttranscriptional regulatory during grape leaf responses to high temperature. Proteomic analysis showed that protein levels of the RNA binding proteins SR45, SR30, and SR34, and the nuclear ribonucleic protein U1A in grape leaves gradually rose as ambient temperature increased. The results also revealed why AS events occurred more frequently under high temperature in grape leaves. After integrating transcriptomic and proteomic data, we found that HSPs and some important transcript factors such as MBF1c and HSFA2 were mainly involved in heat tolerance in grape through up-regulating transcriptional and translational levels, and were especially modulated by AS. The results provide the first simultaneous evidence for grape leaf responses to high temperature at transcriptional, posttranscriptional and translational levels.

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New Insights into Heat Responses in Grape Leaves through Combined Phosphoproteomic and Acetylproteomic Analyses

Project description:Heat stress is a serious and widespread threat to the quality and yield of many crops, including grape (Vitis vinifera), which is cultivated worldwide. Here, we conducted phosphoproteomic and acetylproteomic analyses of leaves from grape cultivated in four distinct temperature regimes. The phosphorylation or acetylation of a total of 1,011 phosphoproteins with 1,828 phosphosites, and 96 acetylproteins with 148 acetylsites, changed when plants were grown at 35°C, 40°C and 45°C in comparison with the proteome profiles of plants grown at 25°C. The greatest number of changes were observed at higher temperatures. Functional classification and enrichment analysis indicated that phosphorylation, rather than acetylation, of serine/arginine-rich splicing factors was involved in the responses to high temperatures. This is congruent with previous observations that alternative splicing events occurred more frequently in grapevine under high temperature. Changes in acetylation patterns were more common than changes in phosphorylation patterns in photosynthesis-related proteins at high temperatures, while heat shock proteins were more associated with modifications in phosphorylation than in acetylation. Nineteen proteins were identified with changes in both phosphorylation and acetylation, consistent with crosstalk between these post-translational modifications.

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