Originally Posted by hypostatic
Well that's why I asked about whether reference genomes were available for the species. If they're published, you just need primers for stretches of DNA that are different for each species, and you can just do a regular genotyping PCR run. Sequencing wouldn't be necessary.
OH HEY, while the whole genome hasn't been published, it does look like there is some mtDNA data available:
Here are specific primers based on that information:
So yeah... you should be able to tell the species based on whether you get amplification or not, and by PCR band size...
Assuming you have access to everything else needed to run a PCR, the primers would only set you back about $40....
I honestly hadn't considered that
I've worked with COI barcoding in the past and I'm now mostly doing metagenomics so this option completely slipped my mind.
I'll see if I can get this done somewhere in the next weeks, it might require some tweaking with cycle nr etc. and ideally I'll want a positive control for madagascariensis (but that's likely going to be difficult to get).