Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Crocus sieberi subsp. sublimis

ABSTRACT: Crocus sieberi subsp. sublimis Transcriptome or Gene expression

PROVIDER: PRJNA413953 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR6162830.fastq.gz	Fastqsanger.gz
	SRR6162830_1.fastq.gz	Fastqsanger.gz
	SRR6162830_2.fastq.gz	Fastqsanger.gz
	SRR6162831_1.fastq.gz	Fastqsanger.gz
	SRR6162831_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 5

Similar Datasets

Crocus sieberi subsp. sublimis cultivar:tricolour

Project description:Crocus sieberi subsp. sublimis Tepal transcriptome

| PRJNA378387 | ENA

Crocus sativus

Project description:Crocus sativus Transcriptome or Gene expression

| PRJNA524437 | ENA

Crocus sativus

Project description:Crocus sativus Transcriptome or Gene expression

| PRJNA222764 | ENA

Crocus sativus

Project description:Crocus sativus Transcriptome or Gene expression

| PRJNA222766 | ENA

Crocus sativus

Project description:Crocus sativus Transcriptome or Gene expression

| PRJNA222765 | ENA

Epigenetic variability among saffron crocus (Crocus sativus L.) accessions characterised by different phenotypes

Project description:This work represents the first epigenomic study carried out on saffron crocus. Five accessions of saffron, showing differences in tepal pigmentation, yield of saffron and flowering time, were analysed at the epigenetic level by applying a methylation-sensitive restriction enzyme-sequencing (MRE-seq) approach. Five accession-specific hypomethylomes plus a reference hypomethylome, generated by combining the sequence data from the single accessions, were obtained. Assembled sequences were annotated against existing online databases. In the absence of the Crocus genome, the rice genome was mainly used as the reference as it is the best annotated genome among monocot plants. Comparison of the hypomethylomes revealed many differentially methylated regions, confirming the high epigenetic variability present among saffron accessions, including sequences encoding for proteins that could be good candidates to explain the accessions’ alternative phenotypes. In particular, transcription factors involved in flowering process (MADS-box and TFL) and for the production of pigments (MYB) were detected. Finally, by comparing the generated sequences of the different accessions, a high number of SNPs, likely having arisen as a consequence of the prolonged vegetative propagation, were detected, demonstrating surprisingly high genetic variability. Gene ontology (GO) was performed to map and visualise sequence polymorphisms located within the GOs and to compare their distributions among different accessions. As well as suggesting the possible existence of alternative phenotypes with a genetic basis, a clear difference in polymorphic GO is present among accessions based on their geographic origin, supporting a possible signature of selection in the Indian accession with respect to the Spanish ones.

2021-03-24 | GSE166350 | GEO

Crocus sativus cultivar:Crocus sativus

Project description:Crocus sativus cultivar:Crocus sativus Raw sequence reads

| PRJNA562470 | ENA

Crocus sativus

Project description:Comprehensive transcriptome map of Crocus sativus

| PRJNA277895 | ENA

Crocus sativus

Project description:Crocus sativus overview

| PRJNA222870 | ENA

Crocus sieberi

Project description:Crocus sieberi overview