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The REACCH project was initiated in 2011 to ensure sustainable cereal production in the inland Pacific Northwest. The project was led by an interdisciplinary team of scientists and other professionals from three land grant institutions and the USDA Agricultural Research Service, with funding from the National Institute of Food and Agriculture’s Climate Variability and Change Program.

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Data: REACCHPNA Biotics - Bromus tectorum Genotype-by-sequencing data

This folder contains genotyping data for Bromus tectorum accessions collected throughout the PNW small grain production region. Data was obtained using a reduced representation genotype-by-sequencing (GBS) approach to identifying SNP molecular markers. The GBS approach used in relied upon a combination of a regular and a methylation-sensitive restriction enzyme to avoid repetitive regions of a target genome and instead favor lower copy regions to increase the probability of identifying informative genetic markers. A two-enzyme approach originally developed for species lacking a reference genome was utilized, where a rare (Pst1, CTGCA^G) and common (Msp1, C^CGG) restriction enzyme were used in combination. A modified GBS protocol developed by Mascher et al. (2013) for use with semi-conductor sequencing platform was followed according to protocol. The resulting amplicons were sequenced on an Ion Proton™ sequencer using an Ion P1™ Chip (Life Technologies, Carlsbad, CA). The master FASTQ file obtained from the sequencer was parsed by barcode to separate each accession into a separate file. FASTQ file size ranged from 5 to 112 MBs with an average size of 45.6 MBs

Source: REACCH PNA

Data and Resources

FieldValue
Modified
2016-08-02
Release Date
2016-08-02
Publisher
Identifier
nkn:{68745AF0-1D55-43F5-B512-27B9F10E3158}
Spatial / Geographical Coverage Location
-180,-90,180,90
License
Creative Commons Attribution Non-Commercial Share-Alike (CC-BY-NC-SA 4.0)
Public Access Level
Public
POD Theme
geospatial
farming
biota
Harvested from REACCH PNA
Harvest Source TitleREACCH PNA
Harvest Source URIhttp://nknportal.nkn.uidaho.edu/final.json
Last Harvest PerformedFri, 02/01/2019 - 17:30