Computational protocol: Polyandry Is a Common Event in Wild Populations of the Tsetse Fly Glossina fuscipes fuscipes and May Impact Population Reduction Measures

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Protocol publication

[…] The polymorphic information content (PIC) of each of the 19 SSR loci was determined using the program Cervus 3.0 . For each locus and population, the number of alleles (Na), frequency range, observed heterozygosity (HO) and expected heterozygosity (HE) were estimated using the program Genepop version 4 . The same software was also used to test for linkage disequilibrium between pairs of loci in each population (100 batches, 1000 interactions per batch) and for deviations from Hardy-Weinberg (HW) equilibrium, at each locus/population combination, using Fisher's exact test. The Bonferroni correction was used for all tests involving multiple comparisons . The average exclusion probability (Excl.), i.e. the probability of excluding a single unrelated candidate parent from the parentage of a given offspring, knowing the genotype of the second parent, was estimated using the program Cervus 3.0. For each locus and population, the frequency of null alleles was calculated using the Brookfield estimation in Micro-Checker 2.2.3 . For the X-linked loci the number of alleles and the frequency range were evaluated using the data from both males and females, whereas heterozygosity, exclusion tests and frequency of null alleles, were calculated using the data obtained from only the females. Microsatellite Analyser (MSA) software, version 4.05 was applied to determine the degree of genetic differentiation between Kabunkanga and Buvuma in terms of Fst . […]

Pipeline specifications

Software tools Cervus, Genepop
Application Population genetic analysis
Organisms Homo sapiens, Drosophila melanogaster, Ilex paraguariensis, Hemisus marmoratus
Diseases Trypanosomiasis