Title: Thomas Dumartinet, Sébastien Ravel, Véronique Roussel, et al. Complex adaptive architecture underlies adaptation to quantitative host resistance in a fungal plant pathogen. Molecular Ecology. November 30, 2021." DOI: 10.1111/mec.16297 Contact information: Carlier, Jean, Centre de Coopération Internationale en Recherche Agronomique pour le Développement https://orcid.org/0000-0002-6967-1852 jean.carlier@cirad.fr Raw Sequences: Raw Illumina sequences (FastQ files) for all individuals and pools are available from the NCBI Sequence Read Archive under BioProject n°PRJNA783739 (Adaptation to quantitative resistance of Banana in the fungus Pseudocercospora fijiensis causing black leaf streak disease). General information: This repository contains the data and code required to reproduce analyses reported in the associated paper (details in the Material and Methods section). The repository includes the following files: 1. README.txt (Information file) 2. cuba_loc1_CIRAD86_01_min4_20_1.recode.vcf (data) 3. Pools2011_DUf_Q25_CIRAD86_sync.txt (data) 4. Pools2013_DUf_Q25_CIRAD86_sync.txt (data) 5. VCFToFasta.py (script) 6. FST_from_multiFasta.py (script) Files description: 1. README.txt This readme file describes the data deposited in Dryad corresponding to the following article: "Thomas Dumartinet, Sébastien Ravel, Véronique Roussel, et al. Complex adaptive architecture of quantitative resistance erosion in a plant fungal pathogen. Molecular Ecology. November 30, 2021." DOI: 10.1111/mec.16297" 2. cuba_loc1_CIRAD86_01_min4_20_1.recode.vcf VCF file containing the SNPs identified after mapping and filtration of the 63 isolates of P. fijiensis sequenced individually. This VCF was obtained following the procedure described in the "Material and Method"(Section 2.3). 3. Pools2011_DUf_Q25_CIRAD86_sync.txt Synchronized mpileup file (large text file) obtained with Popoolation software containing allele counts at every position for the 6 pooled populations sampled in 2011. This file was obtained following the procedure described in the "Material and Method"(Section 2.3) and using the fastQ sequences corresponding to the 6 P. fijiensis populations sampled in 2011, obtained with the Pool-Seq method. 4. Pools2013_DUf_Q25_CIRAD86_sync.txt Synchronized mpileup file (large text file) obtained with Popoolation software containing allele counts at every position for the 8 pooled populations sampled in 2013. This file was obtained following the procedure described in the "Material and Method"(Section 2.3) and using the fastQ sequences corresponding to the 8 P. fijiensis populations sampled in 2013, obtained with the Pool-Seq method. 5. VCFToFasta.py Python script used to convert a VCF file (cuba_loc1_CIRAD86_01_min4_20_1.recode.vcf) into multiFasta alignement (for each scaffold). This script take a reference genome and a vcf file as input files (output file is used to compute FST with "FST_from_multiFasta.py" and as input file for the Egglib software). 6. FST_from_multiFasta.py Python script used to compute FST on 1Kb non-overlapping windows using a multiFasta alignment file as input file.