Phenotype-genotype association analyses.

A) Genotypes of G280S and A65S mutations in A. coluzzii samples from Côte d’Ivoire (Anopheles gambiae 1000 Genomes Phase 2), and resistance phenotype to pirimiphos-methyl. B) Phenotype-genotype association tests for the 71 Ivorian A. coluzzii samples. Includes summaries of single-variable GLM models for the following variables: 280S presence (including a subset of samples with only one 280S allele), 65S, CNV and number of 280S alleles. Also includes the minimal model obtained using stepwise reduction of a starting multi-variable model (BIC criterion). Model significance is measured with ANOVA comparison with null model (no variables) and a χ2 test. C) G280S genotypes and pirimiphos-methyl resistance phenotype for 1080 mosquitoes from West African populations of A. gambiae and A. coluzzii collected from six locations. For each sample, we also report collection dates, geographical locations, and details of the species identification, genotyping, and phenotyping (concentrations, exposure time). D) Phenotype-genotype association tests for G280S alleles in nine West African populations. Includes summaries of GLM models for each population. Model significance is measured with ANOVA comparison with null model (no variables) and a χ2 test. E) Number of Ace1 copies and pirimiphos-methyl resistance phenotypes for 167 mosquitoes from the same West African populations. F) Phenotype-genotype association tests for CNV mutations (Ace1 copies [CNV] and 280S-to-280G allele ratio [ratio_FAM_HEX]) in West African populations. Includes summaries of GLM models for each population and each variable separately, and a minimal GLM obtained using the BIC criterion from an initial model with both variables. Model significance is measured with ANOVA comparison with null model (no variables) and a χ2 test. G) Protocols for species identification and Ace1 mutation genotyping, including primer sequences. (XLSX)