Wednesday, March 11, 2009

A New, Improved, Dendrogram For Mummichog mtDNA

For all you gene jockeys out there, I generated a dendrogram through the Geneious program's Tree package using HKY Neighbor Joining with 10 bootstraps and a minimum of 50% consensus support for nodes. I used a stretch of 669 bases in the gene with the available sequences we have. And it shows a somewhat different picture from only looking at 272 bases, not surprisingly; the New England fish resolve as a clade with Nantucket being slightly different, the Charleston, SC, fish resolve into a double-lobed clade with Sapelo Island, GA, off to the side, and Chincoteague, VA, and Virginia Beach, VA, resolve as a surprisingly distinct and distant clade. The outgroups, Fundulus majalis and a Rivulus species, aren't shown in this figure and are down to the lower right. Here it is: (you can expand the image by clicking on it):

This reinforces my working theory that the New England fish are the result of a founders effect, and are very different from even nearby more southerly fish. I'll show you the whole story later.

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