Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Arabidopsis thaliana

ABSTRACT: Dynamic DNA methylation reconfiguration during seed development and germination (MethylC-seq)

PROVIDER: PRJNA373836 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR5239970.fastq.gz	Fastqsanger.gz
	SRR5239980.fastq.gz	Fastqsanger.gz
	SRR5239971.fastq.gz	Fastqsanger.gz
	SRR5239981.fastq.gz	Fastqsanger.gz
	SRR5239972.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 24

Similar Datasets

Arabidopsis thaliana

Project description:Dynamic DNA methylation reconfiguration during seed development and germination (RNA-seq)

| PRJNA373835 | ENA

methylC-seq data over Arabidopsis thaliana germination

Project description:methylC-seq profiling of 4 time points during germination in Arabidopsis, from mature seed, through stratification, germination and to post-germination.

2017-08-15 | GSE94456 | GEO

Dynamic DNA methylation reconfiguration during seed development and germination

Project description:Dynamic DNA methylation reconfiguration during seed development and germination

| PRJNA373832 | ENA

Dynamic DNA methylation reconfiguration during seed development and germination (RNA-seq)

Project description:The life cycle of flowering plants ends and begins with seeds. Unlike animals, plants can pause their life cycle as dormant seeds during this transition. DNA methylation is involved in the regulation of gene expression and genome integrity. Reprogramming erases and re-establishes DNA methylation during development in animals. Knowledge of reprogramming or reconfiguration in plants has been limited to pollen and the central cell. To better understand epigenetic reconfiguration in the embryo, which forms the plant body, we compared dry and germinating seed time-series methylomes to publicly available seed development methylomes. Time-series whole genome bisulfite sequencing (WGBS) revealed extensive gain of CHH methylation during seed development and drastic loss of CHH methylation during germination. These dynamic changes in methylation mainly occur within transposable elements. Active DNA methylation during embryogenesis depends on both RNA-directed DNA methylation and heterochromatin formation pathways whereas global demethylation during germination occurs in a passive manner. However, an active DNA demethylation pathway is initiated during late embryogenesis, which contributes to the endosperm specific methylation patterns.This study provides new insights into dynamic DNA methylation reprogramming events during seed development and germination and suggests possible mechanisms of regulation. The observed sequential methylation/demethylation cycle suggests an important role of DNA methylation in seed dormancy.

2017-08-31 | GSE94711 | GEO

Dynamic DNA methylation reconfiguration during seed development and germination (MethylC-seq)

2017-08-31 | GSE94710 | GEO

RNA-seq data over Arabidopsis thaliana germination

Project description:RNAseq profiling of 10 time points during germination in Arabidopsis, from freshly harvested seed, through mature seed, stratification, germination and to post-germination.

2017-08-15 | GSE94457 | GEO

sRNA-seq data over Arabidopsis thaliana germination

Project description:sRNA-seq profiling of 10 time points during germination in Arabidopsis, from freshly harvested seed, through mature seed, stratification, germination and to post-germination.

2017-08-15 | GSE94458 | GEO

Arabidopsis thaliana

Project description:methylC-seq data over Arabidopsis thaliana germination

| PRJNA369751 | ENA

Karrikin responses in Arabidopsis thaliana seed

Project description:Karrikins promote seed germination in Arabidopsis thaliana. Completion of germination (protrusion of the radicle) is not observed until ~72 h in dormant wildtype seed under these conditions. We used microarrays to examine karrikin-induced transcriptional changes after 24 h of imbibition. Transcriptional changes may indicate events leading to karrikin-induced germination or karrikin-specific markers.

2010-03-01 | GSE20556 | GEO

SCL15 is a critical regulator for plant development, germination, seed dormancy and seed vigor in Arabidopsis thaliana

Project description:Seed maturation, dormancy and germination are distinct physiological processes. Transition from maturation to dormancy, and from dormancy into germination are not only critical developmental phases in the plant life cycle but are also important agricultural traits. These developmental processes and their phase transitions are fine determined and coordinately regulated by genetic makeup and environmental cues. SCARECROW-LIKE15 (SCL15) has been demonstrated to be essential for repressing the seed maturation programme in vegetative tissues (Gao et al., Nat Commun, 2015, 6:7243). Here we report that SCL15 is also important for seed dormancy maintenance, germination timing and seed vigor performance based on the effects of SCL15 mutation on plant germination, growth and reproduction when compared with wild type Arabidopsis and over-expression lines 35S:SCL15 and Napin:SCL15. Seed dormancy is enhanced by the mutation of SCL15 in a GA signaling dependent way, indicating that SCL15 plays a negative role for primary dormancy release. Seed germination is positively regulated by SCL15 through interaction with ABA, GA and auxin signaling. SCL15 acts as positive regulator of seed vigor and effect of SCL15 mRNA abundance on seed reserve accumulation and seed development during late embryogenesis may contribute to the seed vigor performance.

2020-11-04 | GSE160707 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data