Toward the standard methodologies for next-generation molecular phylogenetics

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This study aimed to establish the standard methodologies for phylogenetic inferences on the plant groups that underwent rapid species radiation. To this end, two next-generation-sequencer-based methodologies were examined, i.e., RAD-seq and RNA-seq. In the earlier trial of the RAD-seq, we found that the amount of the data output by GS Junior is far from that necessary for consistent phylogenetic study, so we switched to the use of Hiseq 2000. Now we have finished the library preparation and the data processing is underway. As for the RNA-seq, we analyzed the flower-expressed genes and succeeded to find some genes with unusual mode of molecular evolution, possibly because of their association with the plant speciation process. The gene regions were found to have much more information than the standard genes used for the routine phylogenetic studies.