Data

Merged SNP Dataset: Vavilov and OzWheat Panels Imputed with OzWheat V1 (GRDC RustHapSelect Project)

Commonwealth Scientific and Industrial Research Organisation
Dodds, Peter ; McNeil, Meredith ; Dillon, Shannon ; Yadav, Seema ; Hayes, Ben ; Dinglasan, Eric ; Hickey, Lee
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ctx_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Adc&rfr_id=info%3Asid%2FANDS&rft_id=info:doi10.25919/pyqs-6574&rft.title=Merged SNP Dataset: Vavilov and OzWheat Panels Imputed with OzWheat V1 (GRDC RustHapSelect Project)&rft.identifier=https://doi.org/10.25919/pyqs-6574&rft.publisher=Commonwealth Scientific and Industrial Research Organisation&rft.description=This collection contains a merged SNP dataset from the Vavilov and OzWheat (panel 1 and 2) populations. OzWheat V1 SNP data was used as the reference population to impute missing SNPs in Vavilov and OzWheat V2 SNP data. This data was generated as part of GRDC project: ACRCP Phase 5: Optimising genetic control of wheat rusts through development of RustHapSelect (ref: CSP2304-013RTX). In this project we aim to validate a new approach to bring effective and durable rust resistance loci into elite high-yielding backgrounds much faster. This will ensure breeder take-up of this material free of deleterious background effects and increase adult plant resistance in Australian wheat varieties. Applying novel genomic selection techniques to identify resistance sources in two wheat diversity panels, Vavilov diversity panel (295 lines) and the OzWheat diversity panel (589 lines) and optimise crossing strategies to introgress into new cultivars.Lineage: The imputed SNP hapmap was generated from merging SNP data from the following datasets:1. Vavilov population genotyped with 90K Illumina SNP array and DArTSeq2. OzWheat_V1 genotyped with Illumina 90K and 40K SNP arrays, DArTSeq and Transcript SNPs (using an in-house Nextflow SNP pipeline)3. OzWheat_V2 genotyped with Illumina90K SNP array&rft.creator=Dodds, Peter &rft.creator=McNeil, Meredith &rft.creator=Dillon, Shannon &rft.creator=Yadav, Seema &rft.creator=Hayes, Ben &rft.creator=Dinglasan, Eric &rft.creator=Hickey, Lee &rft.date=2025&rft.edition=v2&rft.relation=https://link.springer.com/article/10.1007/s00122-025-05028-1&rft_rights=Creative Commons Attribution-ShareAlike 4.0 International Licence https://creativecommons.org/licenses/by-sa/4.0/&rft_rights=Access to the data is restricted&rft_rights=All Rights (including copyright) CSIRO 2025.&rft_subject=SNP&rft_subject=genotype&rft_subject=wheat&rft_subject=DArTSeq&rft_subject=leaf rust&rft_subject=stripe rust&rft_subject=transcript&rft_subject=Agricultural biotechnology not elsewhere classified&rft_subject=Agricultural biotechnology&rft_subject=AGRICULTURAL, VETERINARY AND FOOD SCIENCES&rft_subject=Crop and pasture improvement (incl. selection and breeding)&rft_subject=Crop and pasture production&rft.type=dataset&rft.language=English Access the data
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This collection contains a merged SNP dataset from the Vavilov and OzWheat (panel 1 and 2) populations. OzWheat V1 SNP data was used as the reference population to impute missing SNPs in Vavilov and OzWheat V2 SNP data. This data was generated as part of GRDC project: ACRCP Phase 5: Optimising genetic control of wheat rusts through development of RustHapSelect (ref: CSP2304-013RTX). In this project we aim to validate a new approach to bring effective and durable rust resistance loci into elite high-yielding backgrounds much faster. This will ensure breeder take-up of this material free of deleterious background effects and increase adult plant resistance in Australian wheat varieties. Applying novel genomic selection techniques to identify resistance sources in two wheat diversity panels, Vavilov diversity panel (295 lines) and the OzWheat diversity panel (589 lines) and optimise crossing strategies to introgress into new cultivars.
Lineage: The imputed SNP hapmap was generated from merging SNP data from the following datasets:
1. Vavilov population genotyped with 90K Illumina SNP array and DArTSeq
2. OzWheat_V1 genotyped with Illumina 90K and 40K SNP arrays, DArTSeq and Transcript SNPs (using an in-house Nextflow SNP pipeline)
3. OzWheat_V2 genotyped with Illumina90K SNP array

Available: 2025-12-11

Data time period: 2023-04-02 to 2027-06-30

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Subjects
Agricultural, Veterinary and Food Sciences | Agricultural Biotechnology | Agricultural Biotechnology Not Elsewhere Classified | Crop and Pasture Improvement (Incl. Selection and Breeding) | Crop and Pasture Production | DArTSeq | SNP | genotype | leaf rust | stripe rust | transcript | wheat |

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Grains Research & Development Corporation (GRDC) : CSP2304-013RTX

Identifiers
ACN 633 798 857