Triticum aestivum (ID 522206) - BioProject

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Accession: PRJEB31218 ID: 522206

Triticum aestivum (bread wheat)

Exome sequencing of diverse collection of wheat landraces, cultivars and breeding lines

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The exome sequenced hexaploid wheat accessions were selected from a worldwide population of landraces and cultivars obtained from the USDA National Small Grains Collection and the Australian Grains Genebank (formally the Australian Winter Cereal Collection). The worldwide population comprised 3990 accessions from 106 countries that were genotyped using the Infinium iSelect 90K SNP wheat bead chip array. The MCG method was used to select accessions for exome sequencing. This method uses a genetic relationship matrix calculated from genotype data to iteratively chose and arbitrary number of accessions (in the case of this study 20% of the accessions) that collectively explain the largest proportion of variance in genetic relationships among the whole set. Genomic DNA was extracted from leaf tissue for each accession using the Agencourt DNAdvance Genomic DNA Isolation Kit (Beckman Coulter) and subjected to sequence capture using the NimbleGen SeqCap EZ wheat whole genome assay. In brief, 1 µg of DNA was fragmented with the Covaris S2 instrument to obtain an average fragment length of 300 bp. Shorter fragments were removed using Agencourt AMPure XP beads (Beckman Coulter). The KAPA Library Preparation Kit (Kapa Biosystems) and adapters supplied in the NimbleGen SeqCap EZ Reagent Kit Plus v2 (Roche) were used to prepare sample libraries for the capture assay, according to the KAPA protocol but excluding steps 8.1-8.22. The quality and yield of each sample library was assessed using an Agilent 2200 TapeStation (Agilent Technologies) before proceeding to the sequence capture assay following the Roche protocol. Each target capture sequence enriched sample library was sequenced on an Illumina HiSeq2000 instrument (Illumina) to generate about 30 million reads per accession. The project leaders are Matthew Hayden (Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, Victoria, Australia; La Trobe University, Bundoora, Victoria, Australia) and Eduard Akhunov (Kansas State University, USA). More information can be found on our project website at http://wheatgenomics.plantpath.ksu.edu/1000EC Less...

Accession	PRJEB31218
Scope	Monoisolate
Organism	Triticum aestivum[Taxonomy ID: 4565] Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Pooideae; Triticodae; Triticeae; Triticinae; Triticum; Triticum aestivum
Submission	Registration date: 13-Feb-2019 - Kansas State Uiversity - Fei He (Kansas State University USA) - Raj Pasam (Agriculture Victoria AgriBio Centre for AgriBioscience Bundoora Victoria Australia) - Fan Shi (Agriculture Victoria AgriBio Centre for Agri Bioscience Bundoora Victoria Australia) - Surya Kant (Agriculture Victoria AgriBio Centre for AgriBioscience Bundoora Victoria Australia) - Gabriel Keeble-Gagnere (Agriculture Victoria AgriBio Centre for AgriBioscience - Bundoora Victoria Australia) - Pippa Kay (Agriculture Victoria AgriBio Centre for AgriBioscience Bundoora Victoria Australia) - Kerrie Forrest (Agriculture Victoria AgriBio Centre for AgriBioscience Bundoora Victoria Australia) - Allan Fritz (Kansas State University USA) - Pierre Hucl (University of Saskatchewan Saskatoon Saskatchewan Canada) - Krystalee Wiebe (University of Saskatchewan Saskatoon Saskatchewan Canada) - Ron Knox (Swift Current Research and Development Centre Swift Current Saskatchewan Canada) - Richard Cuthbert (Swift Current Research and Development Centre Swift Current Saskatchewan Canada) - Curtis Pozniak (University of Saskatchewan Saskatoon Saskatchewan Canada) - Alina Akhunova (Kansas State University USA) - Peter L. Morrell (University of Minnesota USA) - John P. Davies (Corteva Agriscience Agriculture Division of DowDuPont USA) - Steve R. Webb (Corteva Agriscience Agriculture Division of DowDuPont USA) - German Spangenberg (Agriculture Victoria AgriBio Centre for AgriBioscience Bundoora Victoria Australia; La Trobe University Bundoora Victoria Australia) - Ben Hayes (Agriculture Victoria AgriBio Centre for AgriBioscience Bundoora Victoria Australia; University of Queensland St Lucia Queensland Australia) - Hans Daetwyler (Agriculture Victoria AgriBio Centre for AgriBioscience Bundoora Victoria Australia; La Trobe University Bundoora Victoria Australia) - Josquin Tibbit (Agriculture Victoria AgriBio Centre for AgriBioscience Bundoora Victoria Australia; La Trobe University Bundoora Victoria Australia) - Matthew Hayden (Agriculture Victoria AgriBio Centre for AgriBioscience Bundoora Victoria Australia; La Trobe University Bundoora Victoria Australia) - Eduard Akhunov (Kansas State University USA)

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Triticum aestivum (bread wheat)

Exome sequencing of diverse collection of wheat landraces, cultivars and breeding lines

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