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. 2015 Feb 25;16(1):23. doi: 10.1186/s13059-015-0590-8

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© Hubbard et al.; licensee BioMed Central. 2015

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Identification of wheat varieties using transcriptome data generated directly from PST-infected field samples. A total of 18,162 SNP positions were used to differentiate wheat varieties. Each of the 18,162 SNP positions with ≥10× coverage was assessed for correlation against the available sequence data for seven wheat varieties. For each SNP position, if the PST-infected field sample matched the sequence at a SNP site for a particular variety (for example, variety = AA; field sample = AA) the position was scored 1, if the site only partially matched (for example, variety = AA; field sample = AC) then the position was scored 0.5, and if the site had no match (for example, variety = AA; field sample = CC) then the position was given a score of 0. For each sample, the total score was determined and visualized for each of the seven wheat varieties. Numbers in parentheses represent scores associated with differential markers for a particular wheat variety (blue shading). Monomorphic markers across all varieties are represented in red. Background colour and header relate to the reported variety for a given sample. Warrior-1, W1865; Warrior-2, W994.