Infectious Diseases and Vectors: Ecology, Genetics, Evolution and Control

The aims of the group MIVEGEC are to develop integrative and transdisciplinary research to the mechanisms that maintain, amplify and transmit pathogenic agents, along with their genetic and epigenetic determinants, in order to better understand how these systems evolve and to improve their control.
L’UMR MIVEGEC "Maladies Infectieuses et Vecteurs : Ecologie, Génétique, Evolution et Contrôle" a pour mission de comprendre, via des recherches intégratives et transdisciplinaires, les mécanismes de maintenance, d’amplification et de transmission d’agents pathogènes, leurs déterminants génétiques et non génétiques, afin de pouvoir mieux appréhender l’évolution de ces systèmes infectieux et contribuer à en améliorer le contrôle.
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41 to 50 of 146 Results
ABC.tar.gz
Sep 22, 2023 - Replication data and scripts for: Harbor porpoise losing its edge: genetic time series suggests a rapid population decline in Iberian waters over the last 30 years
Gzip Archive - 10.3 MB - MD5: d32b0bbf2afabe5602cdfb5e6347f7db
CodeData
Input data and scripts required to replicate the demographic inference by Approximate Bayesian Computation (ABC) using the FastSimcoal coalescent simulator, arlumstat, and the abcrf R package. To uncompress, type "tar xzvf ABC.tar.gz"
Alignments.tar.gz
Sep 22, 2023 - Replication data and scripts for: Harbor porpoise losing its edge: genetic time series suggests a rapid population decline in Iberian waters over the last 30 years
Gzip Archive - 19.7 KB - MD5: cd98e94dec3f1ce700286915ecb8631e
Data
Mitochondrial DNA sequence alignments generated in the present study. Nexus (with unique haplotypes) and FASTA alignment are provided. To uncompress, type "tar xzvf Alignments.tar.gz"
BenChehida_et_al2023_Iberian_porpoises_mtDNA_README.txt
Sep 22, 2023 - Replication data and scripts for: Harbor porpoise losing its edge: genetic time series suggests a rapid population decline in Iberian waters over the last 30 years
Plain Text - 3.3 KB - MD5: bba418785eee201deba36e13b6c4c8fb
Documentation
Dataset description, citation and terms of use
FST.tar.gz
Sep 22, 2023 - Replication data and scripts for: Harbor porpoise losing its edge: genetic time series suggests a rapid population decline in Iberian waters over the last 30 years
Gzip Archive - 20.8 KB - MD5: e24fa2e28975020c8f445b2ec79fc5e6
CodeData
Input data and scripts used to compute the Hudson et al 1992 estimator of FST as well as the Excoffier et al 1992 estimator of PhiST. To uncompress, type "tar xzvf FST.tar.gz"
Haplotype_diversity.tar.gz
Sep 22, 2023 - Replication data and scripts for: Harbor porpoise losing its edge: genetic time series suggests a rapid population decline in Iberian waters over the last 30 years
Gzip Archive - 21.6 KB - MD5: 0034569f5c0ec472d94cf2b5530d77a2
CodeData
Input data and script used to compute haplotype diversity in each population for Table 1. To uncompress, type "tar xzvf Haplotype_diversity.tar.gz"
Phylogenetic_tree.tar.gz
Sep 22, 2023 - Replication data and scripts for: Harbor porpoise losing its edge: genetic time series suggests a rapid population decline in Iberian waters over the last 30 years
Gzip Archive - 2.1 MB - MD5: 9006ed11c813d0a9216ab1d3d3f231f9
Data
Input data and settings used to build the phylogenetic tree. To uncompress, type "tar xzvf Phylogenetic_tree.tar.gz"
Rarefaction.tar.gz
Sep 22, 2023 - Replication data and scripts for: Harbor porpoise losing its edge: genetic time series suggests a rapid population decline in Iberian waters over the last 30 years
Gzip Archive - 33.5 KB - MD5: b247f1ff7cd9314f6b72acb236e2ec84
CodeData
Input data and script to replicate the rarefaction analysis for the estimators of mtDNA genetic diversity. To uncompress, type "tar xzvf Rarefaction.tar.gz"
Taconet_2023_input_data_dictionary.pdf
Taconet_2023_input_data_dictionary.pdf
Aug 4, 2023 - Data and code for: Physiological and behavioural resistance of malaria vectors in rural West-Africa: a data mining study to adress their fine-scale spatiotemporal heterogeneity, drivers, and predictability
Adobe PDF - 32.6 KB - MD5: 71a610ee7b81a01506a4bcc432e867a2
Documentation
Data dictionary (i.e. labels of the columns of the input data)
Louis_et_al2023_3.1.1.smartpca_fromvcf.tar.gz
Jun 9, 2023 - Replication data and scripts for: Ancient dolphin genomes reveal rapid repeated adaptation to coastal waters
Gzip Archive - 41.6 MB - MD5: edeb5067263a9c6545e0ebbf479817d1
CodeData
Input file and scripts to format a vcf file and run smartpca (Figure S4). To uncompress, type "tar xzvf 3.1.1.smartpca_fromvcf.tar.gz"
Louis_et_al2023_3.1.2.smartpca_fromhaplo.tar.gz
Jun 9, 2023 - Replication data and scripts for: Ancient dolphin genomes reveal rapid repeated adaptation to coastal waters
Gzip Archive - 29.7 MB - MD5: 7f3a8762ab2f1393f629b9061ed84167
CodeData
Scripts and input files to format an haplo file and run smartpca both for the data mapped to the killer whale reference genome and bottlenose dolphin reference genome (see subfolder mapped_Ttruncatus) (Figures 1c, S5 and S6). To uncompress, type "tar xzvf 3.1.2.smartpca_fromhaplo...
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