title: Conservation genomics of natural and managed populations: building a conceptual and practical framework.
abstract: The boom of massive parallel sequencing (MPS) technology and its applications in conservation of natural and managed populations brings new opportunities and challenges to meet the scientific questions that can be addressed. Genomic conservation offers a wide range of approaches and analytical techniques, with their respective strengths and weaknesses that rely on several implicit assumptions. However, finding the most suitable approaches and analysis regarding our scientific question are often difficult and time-consuming. To address this gap, a recent workshop entitled 'ConGen 2015' was held at Montana University in order to bring together the knowledge accumulated in this field and to provide training in conceptual and practical aspects of data analysis applied to the field of conservation and evolutionary genomics. Here, we summarize the expertise yield by each instructor that has led us to consider the importance of keeping in mind the scientific question from sampling to management practices along with the selection of appropriate genomics tools and bioinformatics challenges.
authors.affiliation: Departement de Biologie, Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, G1V 0A6, Canada.
authors.forename: Laura Marilyn
authors.initials: LM
authors.lastname: Benestan
authors.affiliation: Departement de Biologie, Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, G1V 0A6, Canada.
authors.forename: Anne-Laure
authors.initials: AL
authors.lastname: Ferchaud
authors.affiliation: Institute for Bioinformatics and Evolutionary Studies, University of Idaho, Moscow, ID, 83844, USA.
authors.forename: Paul A
authors.initials: PA
authors.lastname: Hohenlohe
authors.affiliation: Flathead Lake Biological Station, Fish and Wildlife Genomic Group, Division of Biological Science, University of Montana, Missoula, MT, 59812, USA.|Wildlife Program, Fish and Wildlife Genomic Group, College of Forestry and Conservation, University of Montana, Missoula, MT, 59812, USA.
authors.forename: Brittany A
authors.initials: BA
authors.lastname: Garner
authors.affiliation: Hollings Marine Lab, College of Charleston and Medical, University of South Carolina, 331 Fort Johnson Rd., Charleston, SC, 29412, USA.
authors.forename: Gavin J P
authors.initials: GJ
authors.lastname: Naylor
authors.affiliation: Department of Biology, Pennsylvania State University, 208 Mueller Lab, University Park, PA, 1680, USA.
authors.forename: Iliana Brigitta
authors.identifier: 0000-0001-6463-7308
authors.initials: IB
authors.lastname: Baums
authors.affiliation: USDA Forest Service, National Genomics Center for Wildlife and Fish Conservation, 800 E. Beckwith Ave., Missoula, MT, 59801, USA.
authors.forename: Michael K
authors.initials: MK
authors.lastname: Schwartz
authors.affiliation: School of Biological Sciences, Washington State University, Pullman, WA, 99164, USA.
authors.forename: Joanna L
authors.initials: JL
authors.lastname: Kelley
authors.affiliation: Flathead Lake Biological Station, Fish and Wildlife Genomic Group, Division of Biological Science, University of Montana, Missoula, MT, 59812, USA.|Wildlife Program, Fish and Wildlife Genomic Group, College of Forestry and Conservation, University of Montana, Missoula, MT, 59812, USA.
authors.forename: Gordon
authors.initials: G
authors.lastname: Luikart
mesh_terms: D005075:Biological Evolution; D003226:Congresses as Topic; D003247:Conservation of Natural Resources; D005828:Genetics, Population / Q000379:methods*; D023281:Genomics / Q000379:methods*; D059014:High-Throughput Nucleotide Sequencing; D012107:Research Design; D017422:Sequence Analysis, DNA
keywords: SNPs discovery and filtering; conservation genomics; effective population size; genetic population structure; local adaptation; massively parallel sequencing