Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Gambusia affinis

ABSTRACT: Gambusia affinis Transcriptome or Gene expression

PROVIDER: PRJNA230279 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR1029141_1.fastq.gz	Fastqsanger.gz
	SRR1029141_2.fastq.gz	Fastqsanger.gz
	SRR1026862_1.fastq.gz	Fastqsanger.gz
	SRR1026862_2.fastq.gz	Fastqsanger.gz
	SRR1026864_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 24

Similar Datasets

Gambusia affinis

Project description:Gambusia affinis overview

| PRJNA263970 | ENA

Gambusia affinis

Project description:Gambusia affinis Genome sequencing and assembly

| PRJNA599452 | ENA

Gambusia affinis isolate:NE01

Project description:Gambusia affinis whole genome sequencing and assembly

| PRJNA386810 | ENA

Gambusia affinis & Gambusia holbrooki

Project description:RAD-sequencing and pooled sequencing of male and female populations of Gambusia affinis and Gambusia holbrooki Raw sequence reads

| PRJNA563257 | ENA

Gambusia yucatana

Project description:Gambusia yucatana

| PRJNA1020898 | ENA

Sternaspis affinis

Project description:Sternaspis affinis Transcriptome or Gene expression

| PRJNA283648 | ENA

Aldrovandia affinis

Project description:Aldrovandia affinis Transcriptome or Gene expression

| PRJNA335533 | ENA

Gambusia holbrooki

Project description:Gambusia holbrooki overview

| PRJNA195627 | ENA

Proteome of the Apogamous Fern Dryopteris affinis ssp. affinis

Project description:Performing proteomic studies on non-model organisms with little or no genomic information is still difficult. However, many specific processes and biochemical pathways occur only in species that are poorly characterized at the genomic level. For example, many plants can reproduce both sexually and asexually, the first one allowing the generation of new genotypes and the latter their fixation. Thus, both modes of reproduction are of great agronomic value. However, the molecular basis of asexual reproduction is not understood in any plant. In ferns, it combines the production of unreduced spores (diplospory) and the formation of sporophytes from somatic cells (apogamy). To set the basis to study these processes, we performed transcriptomics by next-generation sequencing (NGS) and shotgun proteomics by tandem mass spectrometry in the apogamous fern D. affinis ssp. affinis. For protein identification we used the public viridiplantae database (VPDB) to identify orthologous proteins from other plant species and new transcriptomics data to generate a “species-specific transcriptome database” (SSTDB). In total 1397 protein clusters with 5865 unique peptide sequences were identified (13 decoy proteins out of 1410, protFDR 0.93% on protein cluster level). We show that using a “species-specific transcriptome database” for protein identification increases the number of identified peptides almost four times compared to using only the publically available viridiplantae database. We identified homologs of proteins involved in reproduction of higher plants, including proteins with a potential role in apogamy.

2017-04-11 | PXD005423 | Pride

Gambusia holbrooki

Project description:Gambusia holbrooki Raw sequence reads

| PRJNA301984 | ENA