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Identification of SNP markers for population genetics studies of the Mediterranean gorgonian, Leptogorgia sarmentosa

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Abstract

A set of single nucleotide polymorphisms (SNP) was developed from the transcriptome of the gorgonian Leptogorgia sarmentosa. 21,491 putative SNPs were identified, and a selected set of 320 SNPs was tested using a MassARRAY System on 95 samples from the NW Mediterranean. A total of 153 SNPs were successfully genotyped and found to be polymorphic. The newly developed loci will be a valuable tool for population genetics studies of one of the most ubiquitous gorgonian species in the Mediterranean Sea.

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Data availability

The data will be submitted to the European Variation Archive (http://www.ebi.ac.uk/eva/ ).

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Acknowledgements

This work was funded by the Agence de l’Eau Rhône-Méditerranée-Corse under project ICONE - Impacts actuels et potentiels de la CONnectivité Ecologique ajoutée par les récifs artificiels sur la biodiversité fixée des substrats durs du Golfe du Lion (PI, K. Guizien, AAP 2016). The authors gratefully acknowledge the helpful assistance during sampling of S. Blouet and the staff of the Aire Marine Protégée Agatoise. We also thank the scuba divers, JC Roca and B Hesse, for their technical assistance for field sampling in Banyuls sur Mer. We are grateful to the Bio2Mar core facility (http://bio2mar.obs-banyuls.fr) for providing access to instrumentation for RNA extractions. RNAseq was performed at the GeT-PlaGe core facility, INRAE Toulouse. SNP genotyping was performed at the Genome Transcriptome Facility of Bordeaux (grants from ANR-10-EQPX-16) with the help of Laure Dubois.

Funding

This work was funded by the Agence de l’Eau Rhône-Méditerranée-Corse under project ICONE - Impacts actuels et potentiels de la CONnectivité Ecologique ajoutée par les récifs artificiels sur la biodiversité fixée des substrats durs du Golfe du Lion (PI, K. Guizien, AAP 2016).

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Authors and Affiliations

  1. Laboratoire d’Ecogeochimie des Environnements Benthique, CNRS, Sorbonne Université, UMR 8222, 66650, Banyuls-sur-Mer, France

    M. Padrón

  2. IINRA, GeT-PlaGe, Genotoul, 31326, Castanet-Tolosan, France

    M. Milhes

  3. Univ. Bordeaux, INRAE, BIOGECO, 33610, Cestas, France

    A. Delcamp & E. Guichoux

Authors
  1. M. Padrón
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  2. M. Milhes
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  3. A. Delcamp
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  4. E. Guichoux
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Contributions

MP designed the study. MM, AD, and EG, performed the sequencing and genotyping. MP analyzed the data and wrote the manuscript.

Corresponding author

Correspondence to M. Padrón.

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Padrón, M., Milhes, M., Delcamp, A. et al. Identification of SNP markers for population genetics studies of the Mediterranean gorgonian, Leptogorgia sarmentosa. Conservation Genet Resour 13, 379–381 (2021). https://doi.org/10.1007/s12686-021-01218-3

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  • DOI: https://doi.org/10.1007/s12686-021-01218-3

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