Development and evaluation of the Axiom® IStraw35 384HT array for the allo-octoploid cultivated strawberry Fragaria ×ananassa
| hal.structure.identifier | University of Florida [Gainesville] [UF] | |
| dc.contributor.author | VERMA, S. | |
| hal.structure.identifier | USDA-ARS : Agricultural Research Service | |
| dc.contributor.author | BASSIL, N.V. | |
| hal.structure.identifier | Wageningen University and Research [Wageningen] [WUR] | |
| dc.contributor.author | VAN DE WEG, E. | |
| hal.structure.identifier | East Malling Research | |
| dc.contributor.author | HARRISON, R.J. | |
| hal.structure.identifier | Institut de Recerca i Tecnologia Agroalimentàries = Institute of Agrifood Research and Technology [IRTA] | |
| dc.contributor.author | MONFORT, A. | |
| hal.structure.identifier | Institut de Recerca i Tecnologia Agroalimentàries = Institute of Agrifood Research and Technology [IRTA] | |
| dc.contributor.author | HIDALGO, J.M. | |
| hal.structure.identifier | IFAPA-Centro de Churriana | |
| dc.contributor.author | AMAYA, I. | |
| hal.structure.identifier | Biologie du fruit et pathologie [BFP] | |
| dc.contributor.author | DENOYES-ROTHAN, Beatrice | |
| hal.structure.identifier | University of New Hampshire [UNH] | |
| dc.contributor.author | MAHONEY, L. | |
| hal.structure.identifier | University of New Hampshire [UNH] | |
| dc.contributor.author | DAVIS, T.M. | |
| hal.structure.identifier | University of Florida [Gainesville] [UF] | |
| dc.contributor.author | FAN, Z. | |
| hal.structure.identifier | University of California [Davis] [UC Davis] | |
| dc.contributor.author | KNAPP, S. | |
| hal.structure.identifier | University of Florida [Gainesville] [UF] | |
| dc.contributor.author | WHITAKER, V.M. | |
| dc.date.issued | 2017 | |
| dc.date.conference | 2016-08-13 | |
| dc.identifier.isbn | 9789462611528 | |
| dc.description.abstractEn | The 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.iso | en | |
| dc.publisher | International Society for Horticultural Science (ISHS) | |
| dc.publisher.location | Leuven (belgium) | |
| dc.source.title | Proceedings of the VIII International Strawberry Symposium | |
| dc.subject | fragaria x ananassa | |
| dc.subject | plante fruitière | |
| dc.subject | physiologie végétale | |
| dc.subject.en | breeding | |
| dc.subject.en | genotyping | |
| dc.subject.en | IStraw90 | |
| dc.subject.en | single nucleotide polymorphism (SNP) | |
| dc.subject.en | orchard crops | |
| dc.title.en | Development and evaluation of the Axiom® IStraw35 384HT array for the allo-octoploid cultivated strawberry Fragaria ×ananassa | |
| dc.type | Communication dans un congrès | |
| dc.identifier.doi | 10.17660/ActaHortic.2017.1156.10 | |
| dc.subject.hal | Sciences du Vivant [q-bio]/Biologie végétale | |
| bordeaux.page | np | |
| bordeaux.volume | 1156 | |
| bordeaux.conference.title | 8. International Strawberry Symposium | |
| bordeaux.country | CA | |
| bordeaux.title.proceeding | Proceedings of the VIII International Strawberry Symposium | |
| bordeaux.conference.city | Quebec | |
| bordeaux.peerReviewed | oui | |
| hal.identifier | hal-01602266 | |
| hal.version | 1 | |
| hal.invited | non | |
| hal.proceedings | oui | |
| hal.conference.end | 2016-08-17 | |
| hal.popular | non | |
| hal.audience | Non spécifiée | |
| hal.origin.link | https://hal.archives-ouvertes.fr//hal-01602266v1 | |
| bordeaux.COinS | ctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.btitle=Proceedings%20of%20the%20VIII%20International%20Strawberry%20Symposium&rft.date=2017&rft.volume=1156&rft.spage=np&rft.epage=np&rft.au=VERMA,%20S.&BASSIL,%20N.V.&VAN%20DE%20WEG,%20E.&HARRISON,%20R.J.&MONFORT,%20A.&rft.isbn=9789462611528&rft.genre=unknown |
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