Hi, every one
there are four population in the attached file presented by four different colors, I have to explain the network diagram of mtDNA sequences in context of yellow color, but don`t know how to describe it, please help me i need it urgent, waiting for your valuable comments
Hi,
each colour represents a population (location?). Each node represents a unique mtDNA sequence haplotype with the colour denoting the population where it is found and the size of the circle accounting for its frequency. The lengths of the lines connecting the haplotypes refer the distance of relatedness with the numbered steps usually representing one bp change per step. That means more distant nodes are more distantly related (more bp difference) haplotypes. With respect to your yellow population, you find three closely related frequent haplotypes in the middle, which are shared with the red population. Then you have a bunch of distantly related rare haplotypes, the small yellow nodes at the edge of the network. This pattern usually indicates an old population with one or a few ancestral haplotypes and lots of rare derivates split from them by mutation. Same holds for the red and blue population. The black one is odd, only rare distantly related haplotypes scattered across the network. Looks like a pool of migrants from different locations. There seems to be geneflow because most haplotypes are connected across population. But mostly ongoing geneflow from yellow to red, while red and blue have their most frequent, and therefore ancestral, haplotypes not shared.
You can probably pull around the nodes with the mouse to make the haplotype clusters better visible.
All the best!
hi Shahid,
I also agree with Benjamin. Other than that the diamond shaped median vector (mv) represents unsampled sequences or extinct ancestral sequences
Hi Shahid,
I think, if you create your network with different software it will be better (Did you create it with network software? I had used it before ), try to use Popart is very easy to use, I have used it to compare four population and I got a tidy and nice network. I hope this may help you!
thank you Sir for your valuable suggestion I will try that as well Sumeia Elgumati .