Hi
I want to reconstruct the phylogenetic trees of plants and insects.
What genes do you suggest when reconstructing the plants(Moraceae) phylogenetic tree? I have used the ITS, G3pdh, GBSSI, ncpGS and ETS, but there are some problem when sequencing. Is there are something wrong with my gene?
As for the insects (Hymenoptera), I want to use the mitochondrial cytochrome c Oxidase subunit, and what gene & primers do you suggest?
The choice of gene depends on many factors. I work on plant phylogenetics specifically Solanaceaea, Malvaceae and Convolvulaceae. I have tried rbcL, matK, ITS, and some intergenic spacer and all worked well in term of sequencing. The resolution power of a marker accounts for what relationship we want to infer.
In insects COI, Cytb, 28S, ITS are commonly used markers on species level. However ITS is a bit difficult to align because of the extensive indels, and also difficult sometimes to amplify. If you want to go genus level or higher some more conservative gens should also be considered such 18S, H3 histone.
I suggest you to contact QY DAI at [email protected]. She's have been working a lot on sequencing hymenopterans.
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