Multilocus nested haplotype networks extended with DNA fingerprints show common origin and fine‐scale, ongoing genetic divergence in a wild microbial metapopulation

@article{Carbone2001MultilocusNH,
  title={Multilocus nested haplotype networks extended with DNA fingerprints show common origin and fine‐scale, ongoing genetic divergence in a wild microbial metapopulation},
  author={Ignazio Carbone and Linda Myra Kohn},
  journal={Molecular Ecology},
  year={2001},
  volume={10}
}
Nested haplotype networks for three loci in a haploid, fungal plant pathogen, Sclerotinia sclerotiorum, in two natural, Norwegian populations of the woodland buttercup, Ranunculus ficaria, were extended with DNA fingerprints to determine fine‐scale population divergence. To preserve the cladistic structure in the network for both nonrecombinant and postrecombinant haplotypes in highly recombinant clades, recombinant events were not removed (‘peeled off’), but instead were examined in… 
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Contingency permutation testing for associations of infection type with DNA fingerprint, single- or multilocus haplotype, or hierarchically nested clades based on single locus haplotypes found significant association of haplotype with mycelial compatibility group and DNA fingerprint for all loci except CAL.
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Mismatch distributions indicate exponential population growth, probably during postglacial invasion of C. hultenii into formerly glaciated areas of western North America and the presence of one southern and at least one northern glacial refugium in South Central Alaska is inferred.
2 - Inferring Process from Pattern in Fungal Population Genetics
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The discovery of a globally distributed A. fumigatus species clade highlights the need for ecological studies of the fungus to either document global dispersal or propose alternative mechanisms by which it persists as single, global phylogenetic population.
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The results suggest the speciation event of the two species was triggered by violent climatic changes during the Quaternary glaciation, suggesting a significant phylogeographic structure.
Selective sweeps in populations of the broad host range plant pathogenic fungus Sclerotinia sclerotiorum
TLDR
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Results indicate that soybean is infected mainly by pathogen genotypes residual from other crop or weed hosts and that a few pathogen Genotypes are responsible for a large proportion of infections.
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