Published May 16, 2024 | Version v2
Dataset Open

Neutral processes and taxonomic scale drive beta species-genetic diversity correlations in a submesophotic tropical reef fish

Authors/Creators

  • 1. CEFE, Univ Montpellier, CNRS, EPHE-PSL University, IRD, Montpellier, France
  • 2. Hawai'i Institute of Marine Biology, University of Hawai'i, Kaneohe, HI 96744, USA
  • 3. Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, WA, USA
  • 4. MARBEC, Univ Montpellier, CNRS, IFREMER, IRD, Montpellier, 34095, France
  • 5. Institut Universitaire de France, Paris, France

Description

This dataset is associated to the following publication:

Vilcot M, Faure N, Andrews KR, Bowen BW, Leprieur F, Manel S. (2024) Neutral processes and taxonomic scale drive beta species-genetic diversity correlations in a submesophotic tropical reef fish. Molecular Ecology 33, e17423. (doi:10.1111/mec.17423)

 

Data: 

  • "Report_DEtel22-6705_SNP_2_ordered_Bowen.csv": SNP data from Dart Sequencing on Etelis coruscans, from Andrews et al. (2020) samples

  • "PA_Mat_GaspObis.RDS": fish species presence data, gathered from an updated version of Albouy et al. (2019)

  • "metadata_samples_full.csv": all Etelis coruscans sample information, from Andrews et al. (2020) and the SEAMOUNTS project

  • "metadata_samples.csv": Etelis coruscans sample information, only for samples that have passed the genetic filtering and were used for subsequent analyses 

  • "metadata_stations.csv": sampling station information

  • "Taxonomy_Fishbase.csv": species taxonomic information, downloaded with rfishbase::load_taxa() 

  • "traits_Luiz_et_al_2013.csv": species trait information from Luiz et al. (2013)  

Related dataset: 

Etelis coruscans SNP data on samples from the SEAMOUNTS project are available at https://doi.org/10.5281/zenodo.11201065

Scripts:  

Scripts used to reproduce the analyses and figures of the final article are available at https://github.com/mvilcot/etelis_SGDCs 

 

References:  

Albouy, C., Archambault, P., Appeltans, W., Araújo, M. B., Beauchesne, D., Cazelles, K., Cirtwill, A. R., Fortin, M.-J., Galiana, N., Leroux, S. J., Pellissier, L., Poisot, T., Stouffer, D. B., Wood, S. A., & Gravel, D. (2019). The marine fish food web is globally connected. Nature Ecology & Evolution, 3(8), Article 8. https://doi.org/10.1038/s41559-019-0950-y   

Andrews, K. R., Copus, J. M., Wilcox, C., Williams, A. J., Newman, S. J., Wakefield, C. B., & Bowen, B. W. (2020). Range-Wide population structure of 3 deepwater Eteline snappers across the Indo-Pacific Basin. Journal of Heredity, 111(5), 471‑485. https://doi.org/10.1093/jhered/esaa029  

Luiz, O. J., Allen, A. P., Robertson, D. R., Floeter, S. R., Kulbicki, M., Vigliola, L., Becheler, R., & Madin, J. S. (2013). Adult and larval traits as determinants of geographic range size among tropical reef fishes. Proceedings of the National Academy of Sciences, 110(41), 16498‑16502. https://doi.org/10.1073/pnas.1304074110  

Boettiger, C., Lang, D. T., & Wainwright, P. C. (2012). rfishbase: Exploring, manipulating and visualizing FishBase data from R. Journal of Fish Biology, 81(6), 2030‑2039. https://doi.org/10.1111/j.1095-8649.2012.03464.x

 

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