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The second most represented haplotype (A2) was present only in Africa and Asia.
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None of these HLA haplotypes are complete or pure; most represent ancestral haplotypes on which new variants have arisen.
Two haplotypes were the most represented: h1 was present in 12% of individuals and h2 in 16.2%.
Separate haplotype genealogies for the two portions of the AChE2 gene were constructed with HapView [ 41] that uses the topology of most parsimonious trees (DNAPARS, PHYLIP Package) [ 42] with branch lengths representing haplotype genealogies, i.e. discrete mutational steps.
n represents the number of haplotypes, S represents the number of segregating sites, h represents haplotype diversity, π represents nucleotide diversity, and K represents average number of differences.
Private haplotypes could also represent haplotypes that went undetected in other sky islands due to limited sampling, but we believe this is unlikely because in most cases sample sizes were high relative to the number of haplotypes.
Letters in/around circles represent haplotypes at each locus.
The second most frequent represented pattern was haplotype ITS-H17 present in 11 strains isolated from Salicornia plants rhizosphere and algal biofilm collected from Sabkhet El Melah and Chott el Douz, respectively.
Pairwise distance from 1 = pairwise distance from the most common haplotype, represented by specimen 1; pairwise distance from 56 = pairwise distance from the most divergent haplotype, specimen 56.
The time to the most common ancestor values revealed that populations from the Midwest and Northeast USA represented different haplotype lineages, indicating major divergence of haplotypes lineages before the Last Glacial Maximum and suggesting the existence of multiple glacial refugia.
In the TCS genealogical network, the most frequent haplotype was represented in samples from all continents surveyed and it is also likely to be the ancestral haplotype of pfserca.
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