Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Spirodela polyrhiza

ABSTRACT: Spirodela polyrhiza overview

PROVIDER: PRJNA46627 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	SRR072258.fastq.gz	Fastqsanger.gz
	SRR072259.fastq.gz	Fastqsanger.gz
	SRR072260.fastq.gz	Fastqsanger.gz
	SRR072261.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 519

Similar Datasets

Spirodela polyrhiza root and frond phosphate starvation RNA-Seq

Project description:Spirodela polyrhiza (9509) was grown under replete conditions for 10d, subject to media without phosphate or control for 24h, and then sequenced.

2023-03-05 | GSE226143 | GEO

Spirodela polyrhiza

Project description:Spirodela polyrhiza Raw sequence reads

| PRJNA922734 | ENA

Spirodela polyrhiza

Project description:Spirodela polyrhiza Transcriptome or Gene expression

| PRJNA778039 | ENA

Spirodela polyrhiza strain:7498

Project description:Spirodela polyrhiza mitochondrial genome

| PRJNA67853 | ENA

Spirodela polyrhiza

Project description:Spirodela polyrhiza clone 9509 sequenced with Oxford Nanopore

| PRJEB27612 | ENA

Unusual predominance of maintenance DNA methylation in Spirodela polyrhiza

Project description:5-methylcytosine (5mC) is a modified base often described as necessary for the proper regulation of genes and transposons and for the maintenance of genome integrity in plants. However, the extent of this dogma is limited by the current phylogenetic sampling of land plant species diversity. Here, we report that a monocot plant, Spirodela polyrhiza, has lost CG gene body methylation, genome-wide CHH methylation, and the presence or expression of several genes in the highly conserved RNA-directed DNA methylation (RdDM) pathway. It has also lost the CHH methyltransferase CHROMOMETHYLASE 2. Consequently, the transcriptome is depleted of 24-nucleotide, heterochromatic, small interfering RNAs that act as guides for the deposition of 5mC to RdDM-targeted loci in all other currently sampled angiosperm genomes. Although the genome displays low levels of genome-wide 5mC primarily at LTR retrotransposons, CG maintenance methylation is still functional. In contrast, CHG methylation is weakly maintained even though H3K9me2 is present at loci dispersed throughout the euchromatin and highly enriched at regions likely demarcating pericentromeric regions. Collectively, these results illustrate that S. polyrhiza is maintaining CG and CHG methylation mostly at repeats. S. polyrhiza reproduces rapidly through clonal propagation in aquatic environments, which we hypothesize may enable low levels of maintenance methylation to persist in large populations.

2022-08-24 | GSE161234 | GEO

Spirodela polyrhiza strain:7498

Project description:Spirodela polyrhiza genome sequencing project

| PRJNA46611 | ENA

Spirodela polyrhiza strain:No. 7498

Project description:Spirodela polyrhiza salt Transcriptome

| PRJNA563960 | ENA

Spirodela polyrhiza strain:9509

Project description:Spirodela polyrhiza strain:9509 Genome sequencing

| PRJNA308109 | ENA

Spirodela polyrhiza

Project description:Discovery of novel and conserved microRNAs in Spirodela polyrhiza by deep sequencing