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Why have earlier phylogenies produced ample support based on "DNA fragments with limited polymorphic information loci"?
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The here provided data and reconstructions did not resolve anything beyond what already the ITS and 5S-IGS data of Forest et al. (2005) showed (see also fig. 1 in Grimm & Renner, 2013 illustrating the not insubstantial information content in the data available back then). The identification of highly-divergent plastid regions may indeed open the door for in-detail intra-generic analyses, but it has yet to be seen, if this will lead to better resolved phylogenies and how stable these differentiation patterns are when not only a single individual is studied per species (or two per genus as here). For two Fagales genera (Nothofagus, Nothofagaceae; Quercus; Fagaceae) it has been observed that plastid evolution and differentiation is largely decoupled from speciation processes. This may explain why studies using classic plastid markers failed to clearly resolve interspecies relationships.

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