{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown"],"volume":["6"],"submitter":["Koning-Boucoiran CF"],"pubmed_abstract":["In order to develop a versatile and large SNP array for rose, we set out to mine ESTs from diverse sets of rose germplasm. For this RNA-Seq libraries containing about 700 million reads were generated from tetraploid cut and garden roses using Illumina paired-end sequencing, and from diploid Rosa multiflora using 454 sequencing. Separate de novo assemblies were performed in order to identify single nucleotide polymorphisms (SNPs) within and between rose varieties. SNPs among tetraploid roses were selected for constructing a genotyping array that can be employed for genetic mapping and marker-trait association discovery in breeding programs based on tetraploid germplasm, both from cut roses and from garden roses. In total 68,893 SNPs were included on the WagRhSNP Axiom array. Next, an orthol"],"journal":["Frontiers in plant science"],"pagination":["249"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC4404716"],"repository":["biostudies-literature"],"pubmed_title":["Using RNA-Seq to assemble a rose transcriptome with more than 13,000 full-length expressed genes and to develop the WagRhSNP 68k Axiom SNP array for rose (Rosa L.)."],"pmcid":["PMC4404716"],"pubmed_authors":["Esselink GD","Vukosavljev M","Krens FA","van de Weg WE","Koning-Boucoiran CF","Schulz D","Arens P","Voorrips RE","van 't Westende WP","Gitonga VW","Debener T","Maliepaard C","Smulders MJ"],"additional_accession":[]},"is_claimable":false,"name":"Using RNA-Seq to assemble a rose transcriptome with more than 13,000 full-length expressed genes and to develop the WagRhSNP 68k Axiom SNP array for rose (Rosa L.).","description":"In order to develop a versatile and large SNP array for rose, we set out to mine ESTs from diverse sets of rose germplasm. For this RNA-Seq libraries containing about 700 million reads were generated from tetraploid cut and garden roses using Illumina paired-end sequencing, and from diploid Rosa multiflora using 454 sequencing. Separate de novo assemblies were performed in order to identify single nucleotide polymorphisms (SNPs) within and between rose varieties. SNPs among tetraploid roses were selected for constructing a genotyping array that can be employed for genetic mapping and marker-trait association discovery in breeding programs based on tetraploid germplasm, both from cut roses and from garden roses. In total 68,893 SNPs were included on the WagRhSNP Axiom array. Next, an orthol","dates":{"release":"2015-01-01T00:00:00Z","publication":"2015","modification":"2026-04-07T17:00:08.916Z","creation":"2019-03-27T01:50:17Z"},"accession":"S-EPMC4404716","cross_references":{"pubmed":["25954285"],"doi":["10.3389/fpls.2015.00249"]}}