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
Data and Resources
Field | Value |
---|---|
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 |
Harvest Source Title | REACCH PNA |
Harvest Source URI | http://nknportal.nkn.uidaho.edu/final.json |
Last Harvest Performed | Fri, 02/01/2019 - 17:30 |