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Epigenetic bases of grafting-induced vigour in eggplant [RNA-Seq]

ABSTRACT: Epigenetic bases of grafting-induced vigour in eggplant [RNA-Seq]

PROVIDER: PRJNA563667 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR10060529_1.fastq.gz	Fastqsanger.gz
	SRR10060529_2.fastq.gz	Fastqsanger.gz
	SRR10060530_1.fastq.gz	Fastqsanger.gz
	SRR10060530_2.fastq.gz	Fastqsanger.gz
	SRR10060531_1.fastq.gz	Fastqsanger.gz

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Epigenetic bases of grafting-induced vigour in eggplant

Project description:Epigenetic bases of grafting-induced vigour in eggplant

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Epigenetic bases of grafting-induced vigour in eggplant [Bisulfite-Seq]

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Epigenetic bases of grafting-induced vigour in eggplant [RNA-Seq]

Project description:In horticulture, grafting is a popular technique used to combine positive features of two different plants, obtained by joining a scion (generally the part above the ground) onto a rootstock (constituted by the stem and roots). Despite its wide-use, the biological mechanisms driving rootstock-induced alterations of the scion phenotype are not fully understood. Given that epigenetics is an important component of distance signalling in plants, we investigated the genome wide changes in the DNA methylation induced in eggplants grafted onto two interspecific rootstocks commercially used to induce scion vigour, compared to self-grafted plants. We found that vigour was associated to a specific change in scion gene expression and a genome wide hypo-methylation in CHH context. Interestingly, this hypomethylation correlated with downregulation of younger and potentially more active LTR retrotransposons. Our data indicate that graft-induced epigenetics modifications are associated to both physiological and molecular phenotypes in plants, and suggest that rootstocks can induce vigour by reducing DNA methylation in the scion genome, similarly to what observed in some heterotic hybrids.

2021-09-30 | GSE136784 | GEO

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Epigenetic bases of grafting-induced vigour in eggplant

Project description:This SuperSeries is composed of the SubSeries listed below.

2021-09-30 | GSE136785 | GEO

Grafting vigour is associated with DNA de-methylation in eggplant.

Project description:In horticulture, grafting is a popular technique used to combine positive traits from two different plants. This is achieved by joining the plant top part (scion) onto a rootstock which contains the stem and roots. Rootstocks can provide resistance to stress and increase plant production, but despite their wide use, the biological mechanisms driving rootstock-induced alterations of the scion phenotype remain largely unknown. Given that epigenetics plays a relevant role during distance signalling in plants, we studied the genome-wide DNA methylation changes induced in eggplant (Solanum melongena) scion using two interspecific rootstocks to increase vigour. We found that vigour was associated with a change in scion gene expression and a genome-wide hypomethylation in the CHH context. Interestingly, this hypomethylation correlated with the downregulation of younger and potentially more active long terminal repeat retrotransposable elements (LTR-TEs), suggesting that graft-induced epigenetic modifications are associated with both physiological and molecular phenotypes in grafted plants. Our results indicate that the enhanced vigour induced by heterografting in eggplant is associated with epigenetic modifications, as also observed in some heterotic hybrids.

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Project description:Cultivated eggplant XN, a waterlogging-tolerant variety, were treated with waterlogging stress, and the root of XN eggplant were harvested at the time point of 0, 6, 12, and 24 h post treatment ,relatively. iTRAQ-based quantitative proteomics was performed to analyze protein dynamics in eggplant root.

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Project description:Transcriptome analysis of Eggplant cv. PPL during fruit development at 0, 5, 10, 20 and 50 dpa. Eggplant is third most important solanaceae crop species after potato and tomato. It is a versatile crop adapted to different agro-climatic regions and can be grown throughout the year. Unripe eggplant fruit is consumed as cooked vegetable in various ways. It is low in calories and fats, contains mostly water, some protein, fibre and carbohydrates. To decipher molecular mechanisms involved in fruit development eggplant fruit were collected at 0, 5, 10, 20 and 50 dpa and gene expression profiles were analyzed using Affymetrix tomato GeneChip Genome array.

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Project description:MiRNAs are a class of non-coding, small RNAs that play important roles in the regulation of gene expression. Although plant miRNAs have been extensively studied in model systems, less is known in other plants with limited genome sequence data, including eggplant (Solanum melongena L.). To identify miRNAs in eggplant and their response to Verticillium dahliae infection, a fungal pathogen for which effective cure methods and a clear understanding of its mechanisms are currently lacking, we deep-sequenced two small RNA (sRNA) libraries prepared from mocked and infected seedlings of eggplants. Specifically, 30,830,792 reads produced 7,716,328 unique small RNAs have been identified.

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