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Malus domestica strain:Fuji

ABSTRACT: RNA-Seq of apple cultivar 'Fuji' dormant buds with different chill conditions

PROVIDER: PRJDB6779 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	DRR125445_1.fastq.gz	Fastqsanger.gz
	DRR125445_2.fastq.gz	Fastqsanger.gz
	DRR125446_1.fastq.gz	Fastqsanger.gz
	DRR125446_2.fastq.gz	Fastqsanger.gz
	DRR125447_1.fastq.gz	Fastqsanger.gz

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Malus domestica strain:Fuji

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Malus domestica cultivar:Fuji

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Malus domestica x Malus asiatica isolate:Fuji x zisaipearl | breed:Fuji x zisaipearl | cultivar:Fuji x zisaipearl

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Malus domestica cultivar: McIntosh and Husveti rozmaring

Project description:Genome-wide DNA methylation analysis between long-term in vitro shoot culture and acclimatized apple plants DNA methylation is a process of epigenetic modification that can alter the functionality of a genome. Using whole-genome bisulfite sequencing, this study quantify the level of DNA methylation in the epigenomes of two diploid apple (Malus x domestica) scion cultivars ('McIntosh' and 'Húsvéti rozmaring') derived from three environmental conditions: in vivo mother plants in an orchard, in vitro culture, and acclimatized in vitro plants. The global DNA methylation levels were not dependent on the source of plant material. Significant differences in DNA methylation were identified in 586 out of 45,116 genes, including promoter and coding sequences, and classified as differentially methylated genes (DMGs). Differential methylation was visualised by an MA plot and functional genomic maps were established for biological processes, molecular functions and cellular components. Considering the DMGs, in vitro tissue culture resulted in the highest level of methylation, which decreased after acclimatization and tended to be similar to that in the mother tree. Methylation patterns of the two scions differed, indicating cultivar-specific epigenetic regulation of gene expression during adaptation to various environments. After selecting genes that displayed differences larger than ±10% in CpG and CHG contexts, or larger than ±1.35% in the CHH context from among the DMGs, they were annotated in Blast2GO v5.1.12 for Gene Ontology. These DNA methylation results suggest that epigenetic changes may contribute to the adaptation of apple to environmental changes by modifying gene expression.

2019-07-25 | GSE116995 | GEO

Project description:RNase-seq of dormant buds in 'Fuji' apple

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Transcriptional Profiling of Apple (Malus x domestica Borkh) Floral Induction in Shoot Apical Meristems

2016-03-02 | GSE64646 | GEO

Malus domestica

Project description:Microarray analysis of apple buds during dormancy

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Project description:LncRNA-seq of dormant buds in 'Fuji' apple (Malus × domestica)

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Project description:MNase-seq of dormant buds in 'Fuji' apple (Malus × domestica)

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Transcriptional Profiling of Apple (Malus x domestica Borkh) Floral Induction in Shoot Apical Meristems

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