UMR MIVEGEC

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.

Porpoises genetics and genomics

REACT Project

REACT2 Project

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51 to 60 of 167 Results

ReadMe.txt Oct 2, 2023 - R script and replication data for - The paradox of plant preference: the malaria vectors Anopheles gambiae and Anopheles coluzzii select suboptimal food sources for their survival and reproduction Plain Text - 1.6 KB - MD5: 237623e421273ffd68a50c4871c47933 Data citation and description
R_script_Performance_Preference-1.R Oct 2, 2023 - R script and replication data for - The paradox of plant preference: the malaria vectors Anopheles gambiae and Anopheles coluzzii select suboptimal food sources for their survival and reproduction R Syntax - 11.3 KB - MD5: 590c1eba9e6b9da116451da85a5611bc CodeDocumentation R script and data dictionary to replicate the analyses. Code developed by Prisca Paré and Thierry Lefevre
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 Sep 22, 2023 - Porpoises genetics and genomics Ben Chehida, Hédi Yacine; Stelwagen, Tjibbe; Hoekendijk, Jeroen; Ferreira, Marisa; Eira, Catarina; Pereira, Andreia T.; Nicolau, Lidia; Fontaine, Michael, 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", https://doi.org/10.23708/GOPRGV, DataSuds, V1 Data and scripts related to the study Ben Chehida Y, Stelwagen T, Hoekendijk JPA, Ferreira M, Eira C, Pereira AT, Nicolau L, Thumloup J, Fontaine MC. 2023. Harbor porpoise losing its edges: genetic time series suggests a rapid population decline in Iberian waters over the last 30...
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"

ReadMe.txt

Oct 2, 2023 - R script and replication data for - The paradox of plant preference: the malaria vectors Anopheles gambiae and Anopheles coluzzii select suboptimal food sources for their survival and reproduction

Plain Text - 1.6 KB -

Data citation and description

R_script_Performance_Preference-1.R

R Syntax - 11.3 KB -

CodeDocumentation

R script and data dictionary to replicate the analyses. Code developed by Prisca Paré and Thierry Lefevre

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

Sep 22, 2023 - Porpoises genetics and genomics

Ben Chehida, Hédi Yacine; Stelwagen, Tjibbe; Hoekendijk, Jeroen; Ferreira, Marisa; Eira, Catarina; Pereira, Andreia T.; Nicolau, Lidia; Fontaine, Michael, 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", https://doi.org/10.23708/GOPRGV, DataSuds, V1

Data and scripts related to the study Ben Chehida Y, Stelwagen T, Hoekendijk JPA, Ferreira M, Eira C, Pereira AT, Nicolau L, Thumloup J, Fontaine MC. 2023. Harbor porpoise losing its edges: genetic time series suggests a rapid population decline in Iberian waters over the last 30...

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 -

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 -

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 -

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 -

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 -

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 -

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 -

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"

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