Project description:SNP matrix of barley collection from german ex-situ genbank IPK.
| PRJEB51851 | ENA
Project description:SNP matrix of barley core set from german ex-situ genbank IPK selected for BPGv2 project.
| PRJEB70778 | ENA
Project description:SNP matrix of barley collection from german ex-situ genbank IPK and ICARDA (International Center for Agricultural Research in the Dry Areas) wheat genebank accessions
Project description:Whole-genome-sequencing performed for 1,110 barley genotypes, including 812 plant genetic resources (288 spring type and 524 winter type) from German Federal ex situ Genebank for Agriculture and Horticultural Crops at the Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), and 298 European elite materials (128 spring type and 170 winter type).
Project description:Near isogenic wheat lines(NILs), differing in the presence of both or none of the FHB-resistance QTL Fhb1 and Qfhs.ifa-5A, have been sequenced using Illumina HiSeq2000 under disease pressure (3, 6, 12, 24, 36, 48 hai) as well as with mock-inoculation, to discern transcriptional differences induced by Fusarium graminearum. The NILs are BC5F2 lines generated from the Mexican Spring wheat line CM-82036, the resistance QTL donor line, as recurrent background and the susceptible German Spring wheat line Remus as the donor of the susceptible QTL alleles.
Project description:Crop-wild geneflow is common when domesticated plants and their wild relatives grow close to each other. The resultant hybrid forms appear as semi-domesticates and were somtimes considered as missing links between crops and their wild progenitors. Wild-growing barleys in Central and Asia, named Hordeum agriocrithon, show hallmark characters of both wild and domesticated forms. 77 wild barley accessions from the collection of the German Federal ex situ genebank hosted at IPK Gatersleben were chosen for genome-wide genotyping. Public WGS data of 315 wild and domesticated were included in the analysis.
Project description:To accelerate genetic studies in sugarcane, an Axiom Sugarcane100K single nucleotide polymorphism (SNP) array was designed and customized in this study. Target enrichment sequencing 300 sugarcane accessions selected from the world collection of sugarcane and related grass species yielded more than four million SNPs, from which a total of 31,449 single dose (SD) SNPs and 68,648 low dosage (33,277 SD and 35,371 double dose) SNPs from two datasets respectively were selected and tiled on Affymetrix Axiom SNP array. Most of selected SNPs (91.77%) were located within genic regions (12,935 genes), with an average of 7.1 SNPs/gene according to sorghum gene models. This newly developed array was used to genotype 469 sugarcane clones, including one F1 population derived from cross between Green German and IND81-146, one selfing population derived from CP80-1827, and 11 diverse sugarcane accessions as controls. Results of genotyping revealed a high polymorphic SNP rate (77.04%) among the 469 samples. Three linkage maps were constructed by using SD SNP markers, including a genetic map for Green German with 3,482 SD SNP markers spanning 3,336 cM, a map for IND81-146 with 1,513 SD SNP markers spanning 2,615 cM, and a map for CP80-1827 with 536 SD SNP markers spanning 3,651 cM. Quantitative trait loci (QTL) analysis identified a total of 18 QTLs controlling Sugarcane yellow leaf virus resistance segregating in the two mapping populations, harboring 27 disease resistant genes. This study demonstrated the successful development and utilization of a SNP array as an efficient genetic tool for high throughput genotyping in highly polyploid sugarcane.