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dc.contributorThiel, T.en_US
dc.contributorSretenovic-Rajicic, T.en_US
dc.contributorBaum, Michaelen_US
dc.contributorValkoun, Janen_US
dc.contributorGuo, Peiguoen_US
dc.contributorGrando, Stefaniaen_US
dc.contributorCeccarelli, Salvatoreen_US
dc.contributorGraner, Andreasen_US
dc.creatorVarshney, Rajeeven_US
dc.identifier.citationRajeev Varshney, T. Thiel, T. Sretenovic-Rajicic, Michael Baum, Jan Valkoun, Peiguo Guo, Stefania Grando, Salvatore Ceccarelli, Andreas Graner. (28/12/2007). Identification and validation of a core set of informative genic SSR and SNP markers for assaying functional diversity in barley. Molecular Breeding, 22 (1), pp. 1-13.en_US
dc.description.abstractA 'core set' of 28 simple sequence repeat (SSR) and 28 single nucleotide polymorphism (SNP) markers for barley was developed after screening six diverse genotypes (DGs) representing six countries (Afghanistan, Pakistan, Algeria, Egypt, Jordan and Syria) with 50 SSR and 50 SNP markers derived from expressed sequence tags (ESTs). The markers of the core set are single locus with very high quality amplifications, high polymorphism information content (PIC) and are distributed across the barley genome. PIC values for the selected SSR and SNP markers ranged between 0.32-0.72 (average 0.58) and 0.28-0.50 (average 0.42), respectively. To make the SNP genotyping cost effective, CAPS (cleaved amplified polymorphic sequence) and indel assays were developed for 23 markers and the remaining 5 SNP markers were optimized for pyrosequencing. A high coefficient of correlations (r = 0.96, P < 0.005) between the genetic similarity matrices of SSR and SNP genotyping data of the core set on diverse genotypes (DGs) and their similar groupings according to the geographical distribution in both SSR and SNP phenograms with high bootstrap values underline the utility and reliability of the core set. A comparative allelic and sequence diversity for SSR and SNP markers between the DGs and six elite parental genotypes (PGs) of mapping populations showed comparable diverse nature of two germplasm sets. However, unique SNPs and indels were observed in both germplasm sets providing more datapoints for analysing haplotypes in a better way for the corresponding SNP marker.en_US
dc.rightsCopyrighted; Non-commercial educational use onlyen_US
dc.sourceMolecular Breeding;22,(2007) Pagination 1-13en_US
dc.subjectgenetic diversityen_US
dc.subjectpolymorphism information content (pic)en_US
dc.subjectallele specific sequencingen_US
dc.subjectnucleotide diversityen_US
dc.titleIdentification and validation of a core set of informative genic SSR and SNP markers for assaying functional diversity in barleyen_US
dc.typeJournal Articleen_US
cg.creator.idBaum, Michael: 0000-0002-8248-6088en_US
cg.contributor.centerInternational Center for Agricultural Research in the Dry Areas - ICARDAen_US
cg.contributor.centerInternational Crops Research Institute for the Semi-Arid Tropics - ICRISATen_US
cg.contributor.centerLeibniz Institute of Plant Genetics and Crop Plant Research - ipk-gaterslebenen_US
cg.contributor.funderInternational Center for Agricultural Research in the Dry Areas - ICARDAen_US
cg.contributor.projectCommunication and Documentation Information Services (CODIS)en_US
cg.contributor.project-lead-instituteInternational Center for Agricultural Research in the Dry Areas - ICARDAen_US
cg.coverage.regionNorthern Africaen_US
cg.coverage.regionWestern Asiaen_US
cg.coverage.regionSouthern Asiaen_US
cg.isijournalISI Journalen_US
dc.identifier.statusLimited accessen_US
cg.journalMolecular Breedingen_US

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