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 358 domesticated 6-rowed spring barleys from german ex-situ genbank IPK.
| PRJEB62782 | 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: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.
Project description:Genotyping-by-sequencing (GBS) raw data of 319 plants from 32 barley accessions of the German Federal ex situ genebank hosted at the Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben.
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).
