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Vitis vinifera embryogenic callus epigenomics (WGBS data)

ABSTRACT: Vitis vinifera embryogenic callus epigenomics (WGBS data)

PROVIDER: PRJNA691259 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13403347_1.fastq.gz	Fastqsanger.gz
	SRR13403347_2.fastq.gz	Fastqsanger.gz
	SRR13403348_1.fastq.gz	Fastqsanger.gz
	SRR13403348_2.fastq.gz	Fastqsanger.gz

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Vitis vinifera embryogenic callus epigenomics

Project description:Vitis vinifera embryogenic callus epigenomics

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Vitis vinifera embryogenic callus epigenomics (WGBS data)

Project description:Plants regenerated from tissue culture frequently show somaclonal variation. In this study we compared the transcriptomic and epigenetic state of embryogenic callus of grapevine with leaves from mature grapevine plants. In particular, we focussed on the expression of transposable elements and changes in siRNA abundance and genome-wide methylation in these tissues.

2021-08-27 | GSE164582 | GEO

Vitis vinifera embryogenic callus epigenomics (RNA-seq)

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Vitis vinifera embryogenic callus epigenomics (small RNA data)

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Vitis vinifera embryogenic callus epigenomics (RNA-seq)

2021-08-27 | GSE164583 | GEO

Vitis vinifera embryogenic callus epigenomics

Project description:Somatic variation is a valuable source of trait diversity in clonally propagated crops. In grapevine, which has been clonally propagated worldwide for centuries, important phenotypes such as white berry colour are the result of genetic changes caused by transposable elements. Additionally, epiallele formation may play a role in determining geo-specific (‘terroir’) differences in grapes and thus ultimately in wine. This genomic plasticity might be co-opted for crop improvement via somatic embryogenesis, but that depends on a species-specific understanding of the epigenetic regulation of transposable element (TE) expression and silencing in these cultures. For this reason, we used whole-genome bisulphite sequencing, mRNA sequencing and small RNA sequencing to study the epigenetic status and expression of TEs in embryogenic callus, in comparison with leaf tissue.

2021-08-27 | GSE164586 | GEO

Vitis vinifera embryogenic callus epigenomics (small RNA data)

2021-08-27 | GSE164584 | GEO

Vitis vinifera cultivar:Chardonnay

Project description:Vitis vinifera embryogenic callus epigenomics

| PRJNA685534 | ENA

Vitis vinifera strain:Callus

Project description:Vitis vinifera strain:Callus Phenotype or Genotype

| PRJNA229947 | ENA

Embryogenic competence acquisition in sugarcane callus is associated with differential H+ pump abundance and activity

Project description:Somatic embryogenesis is an important biological process in several plant species, including sugarcane. Proteomics approaches have shown that H+ pumps are differentially regulated during somatic embryogenesis; however, the relationship between H+ flux and embryogenic competence is still unclear. This work aimed to elucidate the association between extracellular H+ flux and somatic embryo maturation in sugarcane. We performed a microsomal proteomics analysis and analyzed changes in extracellular H+ flux and H+ pump (P-H+-ATPase, V-H+-ATPase and H+-PPase) activity in embryogenic and non-embryogenic callus. A total of 657 proteins were identified, 16 of which were H+ pumps. We observed that P-H+-ATPase and H+-PPase were more abundant in embryogenic callus. Compared with non-embryogenic callus, embryogenic callus showed high H+ influx, especially at maturation day 14 as well as higher H+ pump activity, mainly P-H+-ATPase and H+-PPase activity. The H+-PPase appears to be the major H+ pump in embryogenic callus during somatic embryo formation, functioning in both vacuole acidification and PPi homeostasis. These results provide evidence for an association between higher H+ pump protein abundance and, consequently, higher H+ flux and embryogenic competence acquisition in the callus of sugarcane.

2018-06-26 | PXD009858 | Pride

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