Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Hordeum vulgare subsp. spontaneum

ABSTRACT: Wild Barley Diversity Collection Exome Capture

PROVIDER: PRJNA472251 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR7192270_1.fastq.gz	Fastqsanger.gz
	SRR7192270_2.fastq.gz	Fastqsanger.gz
	SRR7192280_1.fastq.gz	Fastqsanger.gz
	SRR7192280_2.fastq.gz	Fastqsanger.gz
	SRR7192290_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 160

Similar Datasets

Hordeum vulgare subsp. spontaneum

Project description:Sequencing of a wild barley accession

| PRJEB630 | ENA

Hordeum vulgare subsp. spontaneum

Project description:Hordeum spontaneum Genome Sequencing Using Exome Capture

| PRJNA507441 | ENA

Hordeum vulgare and Hordeum spontaneum

Project description:Small RNA and degradome sequencing of cultivated barley and Tibetan wild barley

| PRJNA507337 | ENA

Genome-Wide Association Mapping of Stem Rust Resistance in Hordeum vulgare subsp. spontaneum.

Project description:Stem rust was one of the most devastating diseases of barley in North America. Through the deployment of cultivars with the resistance gene Rpg1, losses to stem rust have been minimal over the past 70 yr. However, there exist both domestic (QCCJB) and foreign (TTKSK aka isolate Ug99) pathotypes with virulence for this important gene. To identify new sources of stem rust resistance for barley, we evaluated the Wild Barley Diversity Collection (WBDC) (314 ecogeographically diverse accessions of Hordeum vulgare subsp. spontaneum) for seedling resistance to four pathotypes (TTKSK, QCCJB, MCCFC, and HKHJC) of the wheat stem rust pathogen (Puccinia graminis f. sp. tritici, Pgt) and one isolate (92-MN-90) of the rye stem rust pathogen (P. graminis f. sp. secalis, Pgs). Based on a coefficient of infection, the frequency of resistance in the WBDC was low ranging from 0.6% with HKHJC to 19.4% with 92-MN-90. None of the accessions was resistant to all five cultures of P. graminis A genome-wide association study (GWAS) was conducted to map stem rust resistance loci using 50,842 single-nucleotide polymorphic markers generated by genotype-by-sequencing and ordered using the new barley reference genome assembly. After proper accounting for genetic relatedness and structure among accessions, 45 quantitative trait loci were identified for resistance to P. graminis across all seven barley chromosomes. Three novel loci associated with resistance to TTKSK, QCCJB, MCCFC, and 92-MN-90 were identified on chromosomes 5H and 7H, and two novel loci associated with resistance to HKHJC were identified on chromosomes 1H and 3H. These novel alleles will enhance the diversity of resistance available for cultivated barley.

| S-EPMC5633397 | biostudies-literature

Hordeum vulgare subsp. vulgare

Project description:Exome mapping of barley

| PRJDB4643 | ENA

Geography of Genetic Structure in Barley Wild Relative Hordeum vulgare subsp. spontaneum in Jordan.

Project description:Informed collecting, conservation, monitoring and utilization of genetic diversity requires knowledge of the distribution and structure of the variation occurring in a species. Hordeum vulgare subsp. spontaneum (K. Koch) Thell., a primary wild relative of barley, is an important source of genetic diversity for barley improvement and co-occurs with the domesticate within the center of origin. We studied the current distribution of genetic diversity and population structure in H. vulgare subsp. spontaneum in Jordan and investigated whether it is correlated with either spatial or climatic variation inferred from publically available climate layers commonly used in conservation and ecogeographical studies. The genetic structure of 32 populations collected in 2012 was analyzed with 37 SSRs. Three distinct genetic clusters were identified. Populations were characterized by admixture and high allelic richness, and genetic diversity was concentrated in the northern part of the study area. Genetic structure, spatial location and climate were not correlated. This may point out a limitation in using large scale climatic data layers to predict genetic diversity, especially as it is applied to regional genetic resources collections in H. vulgare subsp. spontaneum.

| S-EPMC4981475 | biostudies-literature

Hordeum vulgare Transcriptome or Gene expression

Project description:We hypothesized that the genome segments of cultivated barley should show certain similarity with its ancestral wild barley. Instead of whole genome sequences, we employed RNA-Seq to investigated the genomic origin of modern cultivated barley using some representative wild barley genotypes from the Near East and Tibet, and representative world-wide selections of cultivated barley.

2014-10-06 | E-MTAB-4221 | biostudies-arrayexpress

Hordeum vulgare subsp. vulgare

Project description:Exome sequencing of barley accessions

| PRJDB9636 | ENA

Hordeum vulgare subsp. vulgare

Project description:Exome sequencing of transgenic barley plants

| PRJDB5202 | ENA

Hordeum vulgare subsp. spontaneum

Project description:Hordeum vulgare subsp. spontaneum Exome

| PRJNA305578 | ENA