Data from: The Pillars of Hercules as a bathymetric barrier to gene-flow promoting isolation in a global deep-sea shark (Centroscymnus coelolepis)

Catarino D, Knutsen H, Veríssimo A, Olsen EM, Jorde PE, Menezes G, Sannæs H, Stanković D, Company JB, Neat F, Danovaro R, Dell'Anno A, Rochowski B, Stefanni S

Date Published: November 4, 2015

DOI: http://dx.doi.org/10.5061/dryad.ss368

 

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Content in the Dryad Digital Repository is offered "as is." By downloading files, you agree to the Dryad Terms of Service. To the extent possible under law, the authors have waived all copyright and related or neighboring rights to this data. CC0 (opens a new window) Open Data (opens a new window)

Title CC_microsatellites_genotypes
Downloaded 28 times
Description This file contains the microsatellites genotypes for the 503 specimens of Centroscymnus coelolepis (CC). The file is in genepop 3 digits format, which is widely used and can be easily converted in other types of files. It contains the genotypes for the 11 nuclear loci screened in the 8 localities studied: AZ-Azores; SAZ-South of Azores; UKIRE-United Kingdom and Ireland; MAU-Mauritania; MED-Western Mediterranean; PT-Portugal mainland; MAD-Madeira; AUS-Australia.
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Title CC_CR_aligment_all
Downloaded 10 times
Description This file contains all the 347 mtDNA Control Region sequences used in the above studied. The file is in fasta format with all the aligned sequences with 497bp.Localities codes: AZ-Azores; MAR-Mid-Atlantic Ridge; SAZ-South of Azores; UK-United Kingdom; IRE-Ireland; MAU-Mauritania; MED-Western Mediterranean; PT-Portugal mainland; MAD-Madeira; AUS-Australia; SAF-South Africa.
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Title CC_CR_aligment_haplotypes
Downloaded 11 times
Description This file contains all 27 haplotypes found in the studied areas for Centroscymnus coelolepis. The file is in fasta format. Haplotypes frequencies: H1-121; H2-144; H3-3; H4-1: H5-20; H6-1; H7-1;H8-1; H9-1; H10-7; H11-1; H12-1; H13-6; H14-4; H15-2; H16-1; H17-1; H18-8; H19-10; H20-4; H21-1; H22-1; H23-1; H24-1; H25-1; H26-2; H27-2.
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Title CC_DB_biologic_data
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Description This file in excel format contains the biological data used in the life-history analyses. Each line refers to one sampled specimen and the columns refer to: Cruise/Source- Code for the scientific cruise where the samples were collected or in other case provenience of the samples; Data provider- Person responsible/owner for the collection of the biological data; Genetic code- Sample genetic code, specimens without a genetic code were not screened with genetic markers; Area- Geographic region of the specimens collected: Atlantic, Mediterranean, Australia; Date: specimen capture date; Depth: specimen capture depth in meters; Total length: Specimen total length in centimeters; Total weight: specimen total weight in kilograms; Sex: Male or female; Mature/immature; Source: data from this study or retrieved from the literature (only for some Australian samples).
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Title IMa_parameter_file
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Description This file contains the command lines with all the parameters used to run IMa2 software. Input file was constructed from individual sequences and microsatellite genotypes for the subset of C. coelolepis samples. The subset consists of 53 samples drawn randomly from both Atlantic and Mediterranean groups (altogether 106 samples) and only samples with available microsatellite genotypes and mtDNA sequences were considered. The mutation rate was obtained from the DIYABC analysis.
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When using this data, please cite the original publication:

Catarino D, Knutsen H, Veríssimo A, Olsen EM, Jorde PE, Menezes G, Sannæs H, Stanković D, Company JB, Neat F, Danovaro R, Dell'Anno A, Rochowski B, Stefanni S (2015) The Pillars of Hercules as a bathymetric barrier to gene-flow promoting isolation in a global deep-sea shark (Centroscymnus coelolepis). Molecular Ecology 24(24): 6061–6079. http://dx.doi.org/10.1111/mec.13453

Additionally, please cite the Dryad data package:

Catarino D, Knutsen H, Veríssimo A, Olsen EM, Jorde PE, Menezes G, Sannæs H, Stanković D, Company JB, Neat F, Danovaro R, Dell'Anno A, Rochowski B, Stefanni S (2015) Data from: The Pillars of Hercules as a bathymetric barrier to gene-flow promoting isolation in a global deep-sea shark (Centroscymnus coelolepis). Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.ss368
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