Applying genomic data in wildlife monitoring:Development guidelines for genotyping degraded samples with reduced single nucleotide polymorphism panels
| Autor: | Alina von Thaden, Tobias E. Reiners, Berardino Cocchiararo, Andrew C. Kitchener, Thomas Mölich, Annika Tiesmeyer, Clotilde Lambinet, Ettore Randi, Zsolt Hegyeli, Carsten Nowak, Federica Mattucci, José Miguel Lucas, Vinciane Schockert, Margherita Cragnolini, Paulo C. Alves, Leslie A. Lyons, José Galián, Luana Ramos |
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| Jazyk: | angličtina |
| Rok vydání: | 2020 |
| Předmět: |
0106 biological sciences
0301 basic medicine conservation biology Genotype Genotyping Techniques reduced SNP panel Wildlife Population genetics Animals Wild Genomics Single-nucleotide polymorphism Computational biology Biology Polymorphism Single Nucleotide 010603 evolutionary biology 01 natural sciences Article 03 medical and health sciences Genetics Animals Wildlife management Genotyping Ecology Evolution Behavior and Systematics Wildlife conservation Felis silvestris Biodiversity degraded DNA Genetics Population 030104 developmental biology genetic noninvasive sampling wildlife genomics Cats Hybridization Genetic Identification (biology) Biomarkers Biotechnology |
| Zdroj: | Thaden, A, Nowak, C, Tiesmeyer, A, Reiners, T E, Alves, P C, Lyons, L A, Mattucci, F, Randi, E, Cragnolini, M, Galián, J, Hegyeli, Z, Kitchener, A C, Lambinet, C, Lucas, J M, Mölich, T, Ramos, L, Schockert, V & Cocchiararo, B 2020, ' Applying genomic data in wildlife monitoring : Development guidelines for genotyping degraded samples with reduced single nucleotide polymorphism panels ', Molecular Ecology Resources, vol. 20, no. 3, pp. 662-680 . https://doi.org/10.1111/1755-0998.13136 Mol Ecol Resour |
| DOI: | 10.1111/1755-0998.13136 |
| Popis: | The genomic era has led to an unprecedented increase in the availability of genome-wide data for a broad range of taxa. Wildlife management strives to make use of these vast resources to enable refined genetic assessments that enhance biodiversity conservation. However, as new genomic platforms emerge, problems remain in adapting the usually complex approaches for genotyping of non-invasively collected wildlife samples. Here, we provide practical guidelines for the standardized development of reduced single nucleotide polymorphism (SNP) panels applicable for microfluidic genotyping of degraded DNA samples, such as faeces or hairs. We demonstrate how microfluidic SNP panels can be optimized to efficiently monitor European wildcat (Felis silvestris S.) populations. We show how panels can be set up in a modular fashion to accommodate informative markers for relevant population genetics questions, such as individual identification, hybridization assessment and the detection of population structure. We discuss various aspects regarding the implementation of reduced SNP panels and provide a framework that will allow both molecular ecologists and practitioners to help bridge the gap between genomics and applied wildlife conservation. |
| Databáze: | OpenAIRE |
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