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Theory, practice, and conservation in the age of genomics: The Galápagos giant tortoise as a case study.

التفاصيل البيبلوغرافية
العنوان: Theory, practice, and conservation in the age of genomics: The Galápagos giant tortoise as a case study.
المؤلفون: Gaughran SJ; Department of Ecology and Evolutionary Biology Yale University New Haven CT USA., Quinzin MC; Department of Ecology and Evolutionary Biology Yale University New Haven CT USA., Miller JM; Department of Ecology and Evolutionary Biology Yale University New Haven CT USA., Garrick RC; Department of Biology University of Mississippi Oxford MS USA., Edwards DL; Life and Environmental Sciences University of California, Merced Merced CA USA., Russello MA; Department of Biology University of British Columbia, Okanagan Campus Kelowna BC Canada., Poulakakis N; Department of Biology School of Sciences and Engineering University of Crete Heraklion, Crete Greece.; Natural History Museum of Crete School of Sciences and Engineering University of Crete Heraklion, Crete Greece., Ciofi C; Department of Biology University of Florence Sesto Fiorentino (FI) Italy., Beheregaray LB; Molecular Ecology Lab School of Biological Sciences Flinders University Adelaide SA Australia., Caccone A; Department of Ecology and Evolutionary Biology Yale University New Haven CT USA.
المصدر: Evolutionary applications [Evol Appl] 2017 Oct 23; Vol. 11 (7), pp. 1084-1093. Date of Electronic Publication: 2017 Oct 23 (Print Publication: 2018).
نوع المنشور: Journal Article
اللغة: English
بيانات الدورية: Publisher: Blackwell Pub Country of Publication: England NLM ID: 101461828 Publication Model: eCollection Cited Medium: Print ISSN: 1752-4571 (Print) Linking ISSN: 17524571 NLM ISO Abbreviation: Evol Appl Subsets: PubMed not MEDLINE
أسماء مطبوعة: Original Publication: [Oxford] : Blackwell Pub.
مستخلص: High-throughput DNA sequencing allows efficient discovery of thousands of single nucleotide polymorphisms (SNPs) in nonmodel species. Population genetic theory predicts that this large number of independent markers should provide detailed insights into population structure, even when only a few individuals are sampled. Still, sampling design can have a strong impact on such inferences. Here, we use simulations and empirical SNP data to investigate the impacts of sampling design on estimating genetic differentiation among populations that represent three species of Galápagos giant tortoises ( Chelonoidis spp.). Though microsatellite and mitochondrial DNA analyses have supported the distinctiveness of these species, a recent study called into question how well these markers matched with data from genomic SNPs, thereby questioning decades of studies in nonmodel organisms. Using >20,000 genomewide SNPs from 30 individuals from three Galápagos giant tortoise species, we find distinct structure that matches the relationships described by the traditional genetic markers. Furthermore, we confirm that accurate estimates of genetic differentiation in highly structured natural populations can be obtained using thousands of SNPs and 2-5 individuals, or hundreds of SNPs and 10 individuals, but only if the units of analysis are delineated in a way that is consistent with evolutionary history. We show that the lack of structure in the recent SNP-based study was likely due to unnatural grouping of individuals and erroneous genotype filtering. Our study demonstrates that genomic data enable patterns of genetic differentiation among populations to be elucidated even with few samples per population, and underscores the importance of sampling design. These results have specific implications for studies of population structure in endangered species and subsequent management decisions.
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معلومات مُعتمدة: S10 RR019895 United States RR NCRR NIH HHS; S10 RR029676 United States RR NCRR NIH HHS
فهرسة مساهمة: Keywords: Chelonoidis; conservation; genomics; population structure; sampling design; single nucleotide polymorphism
سلسلة جزيئية: Dryad 10.5061/dryad.2hj75
تواريخ الأحداث: Date Created: 20180721 Latest Revision: 20230926
رمز التحديث: 20231215
مُعرف محوري في PubMed: PMC6050186
DOI: 10.1111/eva.12551
PMID: 30026799
قاعدة البيانات: MEDLINE
الوصف
تدمد:1752-4571
DOI:10.1111/eva.12551