TY - JOUR
T1 - Applying genomic data in wildlife monitoring
T2 - Development guidelines for genotyping degraded samples with reduced single nucleotide polymorphism panels
AU - Thaden, Alina
AU - Nowak, Carsten
AU - Tiesmeyer, Annika
AU - Reiners, Tobias E.
AU - Alves, Paulo C.
AU - Lyons, Leslie A.
AU - Mattucci, Federica
AU - Randi, Ettore
AU - Cragnolini, Margherita
AU - Galián, José
AU - Hegyeli, Zsolt
AU - Kitchener, Andrew C.
AU - Lambinet, Clotilde
AU - Lucas, José M.
AU - Mölich, Thomas
AU - Ramos, Luana
AU - Schockert, Vinciane
AU - Cocchiararo, Berardino
N1 - © 2020 The Authors. Molecular Ecology Resources published by John Wiley & Sons Ltd.
PY - 2020/5
Y1 - 2020/5
N2 - 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.
AB - 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.
KW - Felis silvestris
KW - conservation biology
KW - degraded DNA
KW - genetic noninvasive sampling
KW - reduced SNP panel
KW - wildlife genomics
UR - http://www.scopus.com/inward/record.url?scp=85078846174&partnerID=8YFLogxK
U2 - 10.1111/1755-0998.13136
DO - 10.1111/1755-0998.13136
M3 - Journal article
C2 - 31925943
SN - 1755-098X
VL - 20
SP - 662
EP - 680
JO - Molecular Ecology Resources
JF - Molecular Ecology Resources
IS - 3
ER -