Data from: Strong trans-Pacific break and local conservation units in the Galapagos shark (Carcharhinus galapagensis) revealed by genome-wide cytonuclear markers
| Main Authors: | Pazmiño, Diana A., Maes, Gregory E., Green, Madeline E., Simpfendorfer, Colin A., Hoyos-Padilla, Mauricio, Duffy, Clinton J.A., Meyer, Carl G., kerwath, Sven E., Salinas-de-León, Pelayo, van Herwerden, Lynne |
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| Format: | info dataset Journal |
| Terbitan: |
, 2017
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| Subjects: | |
| Online Access: |
https://zenodo.org/record/4968394 |
| ctrlnum |
4968394 |
|---|---|
| fullrecord |
<?xml version="1.0"?>
<dc schemaLocation="http://www.openarchives.org/OAI/2.0/oai_dc/ http://www.openarchives.org/OAI/2.0/oai_dc.xsd"><creator>Pazmiño, Diana A.</creator><creator>Maes, Gregory E.</creator><creator>Green, Madeline E.</creator><creator>Simpfendorfer, Colin A.</creator><creator>Hoyos-Padilla, Mauricio</creator><creator>Duffy, Clinton J.A.</creator><creator>Meyer, Carl G.</creator><creator>kerwath, Sven E.</creator><creator>Salinas-de-León, Pelayo</creator><creator>van Herwerden, Lynne</creator><date>2017-10-18</date><description>The application of genome-wide cytonuclear molecular data to identify management and adaptive units at various spatio-temporal levels is particularly important for overharvested large predatory organisms, often characterized by smaller, localized populations. Despite being "near threatened", current understanding of habitat use and population structure of Carcharhinus galapagensis is limited to specific areas within its distribution. We evaluated population structure and connectivity across the Pacific Ocean using genome-wide Single Nucleotide Polymorphisms (~7200 SNPs) and mitochondrial Control Region sequences (947bp) for 229 individuals. Neutral SNPs defined at least two genetically discrete geographic groups: an East Tropical Pacific (Mexico, east and west Galapagos Islands), and another central-west Pacific (Lord Howe Island, Middleton Reef, Norfolk Island, Elizabeth Reef, Kermadec, Hawaii and Southern Africa). More fine-grade population structure
was suggested using outlier SNPs: west Pacific, Hawaii, Mexico, and Galapagos. Consistently, mtDNA pairwise ΦST defined three regional stocks: east, central and west Pacific. Compared to neutral SNPs (FST=0.023-0.035), mtDNA exhibited more divergence (ΦST=0.258-0.539) and high overall genetic diversity (h=0.794 ±0.014; π=0.004 ±0.000), consistent with the longstanding Eastern Pacific Barrier between the east and central-west Pacific. Hawaiian and Southern African populations group within the west Pacific cluster. Effective population sizes were moderate/high for east/west populations (738 and 3421, respectively). Insights into the biology, connectivity, genetic diversity, and population demographics informs for improved conservation of this species, by delineating three to four conservation units across their Pacific distribution. Implementing such conservation management may be challenging, but is necessary to achieve long-term population resilience at basin and regional scales.</description><description>Report-DWh15-1847_2row_for_dartqc_all_indivOriginal (raw) report from DArTseq in two-row format for 3 individuals of Carcharhinus obscurus and 211 individuals of C. galapagensis from nine locations across the Indo-Pacific (Mexico, east and west Galapagos Islands, Lord Howe Island, Middleton Reef, Norfolk Island, Elizabeth Reef, Kermadec, Hawaii and Southern Africa). The excel sheet contains information of Allele ID, Clone ID, AlleleSequence, SNP Position, CallRate, Homozygous and Heterozygous frequency, and average reproducibility.</description><identifier>https://zenodo.org/record/4968394</identifier><identifier>10.5061/dryad.h2kh3</identifier><identifier>oai:zenodo.org:4968394</identifier><relation>doi:10.1038/s41437-017-0025-2</relation><relation>url:https://zenodo.org/communities/dryad</relation><rights>info:eu-repo/semantics/openAccess</rights><rights>https://creativecommons.org/publicdomain/zero/1.0/legalcode</rights><subject>Galapagos</subject><subject>genome-wide</subject><subject>Carcharhinus obscurus</subject><subject>SNPs</subject><subject>Carcharhinus galapagensis</subject><title>Data from: Strong trans-Pacific break and local conservation units in the Galapagos shark (Carcharhinus galapagensis) revealed by genome-wide cytonuclear markers</title><type>Other:info:eu-repo/semantics/other</type><type>Other:dataset</type><recordID>4968394</recordID></dc>
|
| format |
Other:info:eu-repo/semantics/other Other Other:dataset Journal:Journal Journal |
| author |
Pazmiño, Diana A. Maes, Gregory E. Green, Madeline E. Simpfendorfer, Colin A. Hoyos-Padilla, Mauricio Duffy, Clinton J.A. Meyer, Carl G. kerwath, Sven E. Salinas-de-León, Pelayo van Herwerden, Lynne |
| title |
Data from: Strong trans-Pacific break and local conservation units in the Galapagos shark (Carcharhinus galapagensis) revealed by genome-wide cytonuclear markers |
| publishDate |
2017 |
| topic |
Galapagos genome-wide Carcharhinus obscurus SNPs Carcharhinus galapagensis |
| url |
https://zenodo.org/record/4968394 |
| contents |
The application of genome-wide cytonuclear molecular data to identify management and adaptive units at various spatio-temporal levels is particularly important for overharvested large predatory organisms, often characterized by smaller, localized populations. Despite being "near threatened", current understanding of habitat use and population structure of Carcharhinus galapagensis is limited to specific areas within its distribution. We evaluated population structure and connectivity across the Pacific Ocean using genome-wide Single Nucleotide Polymorphisms (~7200 SNPs) and mitochondrial Control Region sequences (947bp) for 229 individuals. Neutral SNPs defined at least two genetically discrete geographic groups: an East Tropical Pacific (Mexico, east and west Galapagos Islands), and another central-west Pacific (Lord Howe Island, Middleton Reef, Norfolk Island, Elizabeth Reef, Kermadec, Hawaii and Southern Africa). More fine-grade population structure
was suggested using outlier SNPs: west Pacific, Hawaii, Mexico, and Galapagos. Consistently, mtDNA pairwise ΦST defined three regional stocks: east, central and west Pacific. Compared to neutral SNPs (FST=0.023-0.035), mtDNA exhibited more divergence (ΦST=0.258-0.539) and high overall genetic diversity (h=0.794 ±0.014; π=0.004 ±0.000), consistent with the longstanding Eastern Pacific Barrier between the east and central-west Pacific. Hawaiian and Southern African populations group within the west Pacific cluster. Effective population sizes were moderate/high for east/west populations (738 and 3421, respectively). Insights into the biology, connectivity, genetic diversity, and population demographics informs for improved conservation of this species, by delineating three to four conservation units across their Pacific distribution. Implementing such conservation management may be challenging, but is necessary to achieve long-term population resilience at basin and regional scales. Report-DWh15-1847_2row_for_dartqc_all_indivOriginal (raw) report from DArTseq in two-row format for 3 individuals of Carcharhinus obscurus and 211 individuals of C. galapagensis from nine locations across the Indo-Pacific (Mexico, east and west Galapagos Islands, Lord Howe Island, Middleton Reef, Norfolk Island, Elizabeth Reef, Kermadec, Hawaii and Southern Africa). The excel sheet contains information of Allele ID, Clone ID, AlleleSequence, SNP Position, CallRate, Homozygous and Heterozygous frequency, and average reproducibility. |
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IOS16997.4968394 |
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ZAIN Publications |
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7213 |
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library:special library |
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Cognizance Journal of Multidisciplinary Studies |
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5267 |
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Cognizance Journal of Multidisciplinary Studies |
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16997 |
| subject_area |
Multidisciplinary |
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Stockholm |
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INTERNASIONAL |
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2022-06-06T05:23:57Z |
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