Completed on 3 May 2016 by Pierre Gladieux . Sourced from http://biorxiv.org/content/early/2016/04/30/051151.
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Thank you very much for sharing your work. I looked at the methods and results and I have a few concerns regarding the validity of species identification.
Only the genealogy of the concatenated dataset is shown. The 10 individual gene trees are not presented, so I cannot get an idea of the level of discordance across genealogies. What would be the result of Genealogical Concordance Phylogenetic Species Recognition (http://taylorlab.berkeley.edu/... Table 3 suggests that most of the divergence in the total evidence genealogy is caused by one gene (MPG1). Table 4 shows that there is also exclusive polymorphism at one gene in one of the wheat-infecting lineages. Is it sufficient to conclude that these lineages are reproductively isolated and form distinct phylogenetic species?