organism: Triticum aestivum
description: exome sequences of ExomeCapture-DAS5-003430 - Accession Name = '60 GRR 108'; Remarks = 'Entry in the 1964 ISWRN.'; Released = '.'; Lattitude,Longitude,Elevation = '.,.,.'; Ancestry = 'Selkirk/3/Frontana//Kenya 58/Newthatch'
attributes.tag: Common Name
attributes.value: bread wheat
attributes.tag: Material
attributes.value: CItr 14261
attributes.tag: Sample Name
attributes.value: ExomeCapture-DAS5-003430
attributes.tag: Scientific Name
attributes.value: Triticum aestivum subsp. aestivum
attributes.tag: Submission description
attributes.value: 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
attributes.tag: Submission identifier
attributes.value: GSB-804
attributes.tag: Submission title
attributes.value: Exome sequencing of diverse collection of wheat landraces, cultivars and breeding lines
attributes.tag: collected_by
attributes.value: Canada by
attributes.tag: cultivar
attributes.value: 60 GRR 108
attributes.tag: culture_collection
attributes.value: USDA GRIN
attributes.tag: dev_stage
attributes.value: 2 week old
attributes.tag: ecotype
attributes.value: spring wheat
attributes.tag: geographic location (country and/or sea)
attributes.value: Canada
attributes.tag: specimen_voucher
attributes.value: USDA GRIN:CItr 14261
attributes.tag: sub_species
attributes.value: subsp. aestivum
attributes.tag: tissue_type
attributes.value: leaf
attributes.tag: variety
attributes.value: :60 GRR 108;:CI 14261