Replication data for "Genomic insights into host shifts between Plasmodium vivax and Plasmodium simium in Latin America."

Version 1.0
Replication data for "Genomic insights into host shifts between Plasmodium vivax and Plasmodium simium in Latin America."
Lefebvre, Margaux; Degrugillier, Fanny; Arnathau, Céline; Gonzalez, Camila; Rondon, Sylvia; Link, Andres; Chaves, Andrea; Benavides, Julio A.; Alves Scarpellini Campos, Aline; Dos Santos, Edmilson; Huff, Rosana; Dornelles Silva, Cláudia Maria; Vanderhoeven, Ezequiel; De Thoisy, Benoit; Fontaine, Michael C.; Prugnolle, Franck; Rougeron, Virginie, 2025, "Replication data for "Genomic insights into host shifts between Plasmodium vivax and Plasmodium simium in Latin America."", https://doi.org/10.23708/RCOGR6, DataSuds, V1
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Description
These data and scripts are accompanying the manuscript: "Genomic insights into host shifts between Plasmodium vivax and Plasmodium simium in Latin America" by Margaux J. M. Lefebvre*, Fanny Degrugillier, Céline Arnathau, Camila González, Silvia Rondón, Andrés Link, Andrea. Chaves, Julio A. Benavides, Aline Alves Scarpellini Campos, Edmilson dos Santos, Rosana Huff, Cláudia Maria Dornelles Silva, Ezequiel Vanderhoeven, Benoit De Thoisy, Michael C. Fontaine2§*, Franck Prugnolle1§* & Virginie Rougeron13,14§* (*, contact person; § co-supervisors and co-last authors).

The archive here includes
  • the SNP polymorphism data in VCF format used for dataset_HF analysis (see Supplementary Figure 1)
  • the manuscript accompanying GitHub repository in a zipped folder.
    Subject Medicine, Health and Life Sciences
    Keyword Plasmodium simium, Plasmodium vivax, population genomics, host jump, zoonotic malaria
    Related Publication Lefebvre, M. J. M., Degrugillier, F., Arnathau, C., González, C., Rondón, S., Chaves, A., Benavides, J., Scarpellini Campos, A., dos Santos, E., Huff, R., Dornelles da Silva, C. M., Vanderhoeven, E., De Thoisy, B., Fontaine, M. C.*, Prugnolle, F.*, & Rougeron, V.* (2025). Genomic insights into host shifts between Plasmodium vivax and Plasmodium simium in Latin America. bioRrXiv preprint. (* co-supervisors and co-last authors). doi: 10.1101/2024.12.19.629455
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    ReadMe_RCOGR6.txt
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    Published Sep 24, 2025
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    MD5: 1131e4241bed6174af4acc0f82da82dc
    Contains citation, description and conditions of use of dataset data
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    README.txt
    Documentation/Plain Text - 862 B
    Published Sep 24, 2025
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    MD5: d9dbcdf5d398d978d03a59c859e7e278
    This README file describes every file in this Dataverse deposit.
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    Genetic_map_vivax_01.txt
    Genetic_map/Plain Text - 448.9 KB
    Published Sep 24, 2025
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    MD5: e47f6cbc13eb11bd2a43a44a9c69a4a4
    Genetic map of *P. vivax* for chromosome 01. Originally published in: *Lefebvre et al.*, *PLOS Pathogens* (2023), doi: 10.1371/journal.ppat.1012811
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    Genetic_map_vivax_02.txt
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    Published Sep 24, 2025
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    MD5: ae1dfd1eeed925aad4fa05a058c87904
    Genetic map of *P. vivax* for chromosome 02. Originally published in: *Lefebvre et al.*, *PLOS Pathogens* (2023), doi: 10.1371/journal.ppat.1012811
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    Genetic_map_vivax_03.txt
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    MD5: 4ec0fb4afd268c4ca30d99990aea7148
    Genetic map of *P. vivax* for chromosome 03. Originally published in: *Lefebvre et al.*, *PLOS Pathogens* (2023), doi: 10.1371/journal.ppat.1012811
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    Genetic_map_vivax_04.txt
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    Published Sep 24, 2025
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    MD5: 3cd8ac3f5599836b629a45d47645b461
    Genetic map of *P. vivax* for chromosome 04. Originally published in: *Lefebvre et al.*, *PLOS Pathogens* (2023), doi: 10.1371/journal.ppat.1012811
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    Genetic_map_vivax_05.txt
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    Published Sep 24, 2025
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    MD5: 0ecf4c774743fed7a890b6bc9316f85c
    Genetic map of *P. vivax* for chromosome 05. Originally published in: *Lefebvre et al.*, *PLOS Pathogens* (2023), doi: 10.1371/journal.ppat.1012811
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    Genetic_map_vivax_06.txt
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    Published Sep 24, 2025
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    MD5: b076a79828322ff33f7a4148155971f0
    Genetic map of *P. vivax* for chromosome 06. Originally published in: *Lefebvre et al.*, *PLOS Pathogens* (2023), doi: 10.1371/journal.ppat.1012811
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    Genetic_map_vivax_07.txt
    Genetic_map/Plain Text - 685.5 KB
    Published Sep 24, 2025
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    MD5: 3714758ae9e9bd6cc86ca9182fb3a1be
    Genetic map of *P. vivax* for chromosome 07. Originally published in: *Lefebvre et al.*, *PLOS Pathogens* (2023), doi: 10.1371/journal.ppat.1012811
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    Genetic_map_vivax_08.txt
    Genetic_map/Plain Text - 734.7 KB
    Published Sep 24, 2025
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    MD5: 0f765853ad8a942cc4a9c7161d0b77a3
    Genetic map of *P. vivax* for chromosome 08. Originally published in: *Lefebvre et al.*, *PLOS Pathogens* (2023), doi: 10.1371/journal.ppat.1012811
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