Additional file 5: Figure S4.

Correlation of normalized read counts (RPKM) for unigenes in orthogroups shared between the interface transcriptomes and reference assembly TrVeBC1 (ppgp.huck.psu.edu). Reads from each interface transcriptome were mapped to a reference assembly (TrVeBC2, ppgp.huck.psu.edu) that included whole haustorium data from T. versicolor grown on M. truncatula. A subset of unigenes is more highly expressed in the interface transcriptome of T. versicolor grown on M. truncatula; a similar pattern is not observed for T. versicolor grown on Z. mays. This is due to a bias for Medicago grown Triphysaria unigenes in the reference dataset TrVeBC2, which was constructed with reads from Medicago grown Triphysaria. For unigenes in shared orthogroups, the RPKM values are highly correlated (Pearson’s R = 0.81) between interface transcriptomes indicating that technical and biological variation is low.

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Honaas et al. BMC Plant Biology 2013 13:9   doi:10.1186/1471-2229-13-9