Article (Scientific journals)
Applying genomic data in wildlife monitoring: Development guidelines for genotyping degraded samples with reduced single nucleotide polymorphism panels
von Thaden, A.; Nowak, C.; Tiesmeyer, A. et al.
2020In Molecular Ecology Resources, 20 (3), p. 662-680
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Keywords :
Felis silvestris
Abstract :
[en] 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 noninvasively 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. © 2020 The Authors. Molecular Ecology Resources published by John Wiley & Sons Ltd
Disciplines :
Zoology
Author, co-author :
von Thaden, A.;  Conservation Genetics Group, Senckenberg Research Institute and Natural History Museum Frankfurt, Gelnhausen, Germany, Institute for Ecology, Evolution and Diversity, Johann Wolfgang Goethe-University, Frankfurt am Main, Germany
Nowak, C.;  Conservation Genetics Group, Senckenberg Research Institute and Natural History Museum Frankfurt, Gelnhausen, Germany, LOEWE Centre for Translational Biodiversity Genomics (LOEWE-TBG), Frankfurt am Main, Germany
Tiesmeyer, A.;  Conservation Genetics Group, Senckenberg Research Institute and Natural History Museum Frankfurt, Gelnhausen, Germany, Institute for Ecology, Evolution and Diversity, Johann Wolfgang Goethe-University, Frankfurt am Main, Germany
Reiners, T. E.;  Conservation Genetics Group, Senckenberg Research Institute and Natural History Museum Frankfurt, Gelnhausen, Germany, Institute for Ecology, Evolution and Diversity, Johann Wolfgang Goethe-University, Frankfurt am Main, Germany
Alves, P. C.;  CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO – Laboratório Associado, Universidade do Porto, Vairão, Portugal, Departamento de Biologia, Faculdade de Ciências da Universidade do Porto, Porto, Portugal, Wildlife Biology Program, University of Montana, Missoula, MT, United States
Lyons, L. A.;  Department of Veterinary Medicine and Surgery, College of Veterinary Medicine, University of Missouri, Columbia, MO, United States
Mattucci, F.;  Area per la Genetica della Conservazione, ISPRA, Ozzano dell'Emilia, Bologna, Italy
Randi, E.;  Department BIGEA, University of Bologna, Bologna, Italy, Department 18/Section of Environmental Engineering, Aalborg University, Aalborg, Denmark
Cragnolini, M.;  Institut für Spezielle Zoologie und Evolutionsbiologie, Biologisch-Pharmazeutische Fakultät, Friedrich-Schiller-Universität Jena, Jena, Germany
Galián, J.;  Departamento de Zoología y Antropología Física, Facultad de Veterinaria, Universidad de Murcia, Murcia, Spain
Hegyeli, Z.;  “Milvus Group” Bird and Nature Protection Association, Tîrgu Mureş, Romania
Kitchener, A. C.;  Department of Natural Sciences, National Museums Scotland, Edinburgh, United Kingdom, Institute of Geography, School of Geosciences, University of Edinburgh, Edinburgh, United Kingdom
Lambinet, Clotilde ;  Université de Liège - ULiège > Département de Biologie, Ecologie et Evolution > Zoogéographie
Lucas, J. M.;  Departamento de Zoología y Antropología Física, Facultad de Veterinaria, Universidad de Murcia, Murcia, Spain
Mölich, T.;  Landesverband Thüringen e.V., BUND für Umwelt und Naturschutz Deutschland (BUND), Erfurt, Germany
Ramos, L.;  CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO – Laboratório Associado, Universidade do Porto, Vairão, Portugal, Departamento de Biologia, Faculdade de Ciências da Universidade do Porto, Porto, Portugal
Schockert, Vincianne ;  Université de Liège - ULiège > Département de Biologie, Ecologie et Evolution > Zoogéographie
Cocchiararo, B.;  Conservation Genetics Group, Senckenberg Research Institute and Natural History Museum Frankfurt, Gelnhausen, Germany, LOEWE Centre for Translational Biodiversity Genomics (LOEWE-TBG), Frankfurt am Main, Germany
More authors (8 more) Less
Language :
English
Title :
Applying genomic data in wildlife monitoring: Development guidelines for genotyping degraded samples with reduced single nucleotide polymorphism panels
Publication date :
2020
Journal title :
Molecular Ecology Resources
ISSN :
1755-098X
eISSN :
1755-0998
Publisher :
Blackwell, Oxford, United Kingdom
Volume :
20
Issue :
3
Pages :
662-680
Peer reviewed :
Peer Reviewed verified by ORBi
Available on ORBi :
since 15 July 2021

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