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Development and evaluation of the Axiom® IStraw35 384HT array for the allo-octoploid cultivated strawberry Fragaria ×ananassa

hal.structure.identifierUniversity of Florida [Gainesville] [UF]
dc.contributor.authorVERMA, S.
hal.structure.identifierUSDA-ARS : Agricultural Research Service
dc.contributor.authorBASSIL, N.V.
hal.structure.identifierWageningen University and Research [Wageningen] [WUR]
dc.contributor.authorVAN DE WEG, E.
hal.structure.identifierEast Malling Research
dc.contributor.authorHARRISON, R.J.
hal.structure.identifierInstitut de Recerca i Tecnologia Agroalimentàries = Institute of Agrifood Research and Technology [IRTA]
dc.contributor.authorMONFORT, A.
hal.structure.identifierInstitut de Recerca i Tecnologia Agroalimentàries = Institute of Agrifood Research and Technology [IRTA]
dc.contributor.authorHIDALGO, J.M.
hal.structure.identifierIFAPA-Centro de Churriana
dc.contributor.authorAMAYA, I.
hal.structure.identifierBiologie du fruit et pathologie [BFP]
dc.contributor.authorDENOYES-ROTHAN, Beatrice
hal.structure.identifierUniversity of New Hampshire [UNH]
dc.contributor.authorMAHONEY, L.
hal.structure.identifierUniversity of New Hampshire [UNH]
dc.contributor.authorDAVIS, T.M.
hal.structure.identifierUniversity of Florida [Gainesville] [UF]
dc.contributor.authorFAN, Z.
hal.structure.identifierUniversity of California [Davis] [UC Davis]
dc.contributor.authorKNAPP, S.
hal.structure.identifierUniversity of Florida [Gainesville] [UF]
dc.contributor.authorWHITAKER, V.M.
dc.date.issued2017
dc.date.conference2016-08-13
dc.identifier.isbn9789462611528
dc.description.abstractEnThe Axiom® IStraw90 SNP (single nucleotide polymorphism) array was developed to enable high-throughput genotyping in allo-octoploid cultivated strawberry (Fragaria ×ananassa). However, high cost ($ 80-105 sample-1) limits throughput for certain applications. On average the IStraw90 has yielded 50 to 60% usable data points, defined as PHR (Poly High Resolution) and NMH (No Minor Homozygote) marker classes. Thus, an array is needed with a higher percentage of usable data points at a lower cost. We initiated an effort to identify IStraw90 SNP markers that were genetically mapped in one or more strawberry populations from research programs around the world. Seven programs participated in this endeavor. A total of 41,183 SNP probes were submitted to Affymetrix for quality check, 38,506 of which were accommodated on the Axiom® IStraw35 384HT design. In order to assess the performance of the Axiom® IStraw35 384HT array, 384 DNA samples from the University of Florida strawberry breeding program were assayed at a cost of $ 50 per sample, all inclusive. The performance of the array met expectations. More than 87% of markers belonged to the PHR and NMH categories. This array is expected to provide high-quality genome scanning at a more affordable price for strawberry researchers worldwide.
dc.language.isoen
dc.publisherInternational Society for Horticultural Science (ISHS)
dc.publisher.locationLeuven (belgium)
dc.source.titleProceedings of the VIII International Strawberry Symposium
dc.subjectfragaria x ananassa
dc.subjectplante fruitière
dc.subjectphysiologie végétale
dc.subject.enbreeding
dc.subject.engenotyping
dc.subject.enIStraw90
dc.subject.ensingle nucleotide polymorphism (SNP)
dc.subject.enorchard crops
dc.title.enDevelopment and evaluation of the Axiom® IStraw35 384HT array for the allo-octoploid cultivated strawberry Fragaria ×ananassa
dc.typeCommunication dans un congrès
dc.identifier.doi10.17660/ActaHortic.2017.1156.10
dc.subject.halSciences du Vivant [q-bio]/Biologie végétale
bordeaux.pagenp
bordeaux.volume1156
bordeaux.countryCA
bordeaux.title.proceedingProceedings of the VIII International Strawberry Symposium
bordeaux.conference.cityQuebec
bordeaux.peerReviewedoui
hal.identifierhal-01602266
hal.version1
hal.invitednon
hal.proceedingsoui
hal.conference.end2016-08-17
hal.popularnon
hal.audienceNon spécifiée
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-01602266v1
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