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Koops K, Humle T, Frandsen P, Fitzgerald M, D'Auvergne L, Jackson HA, Børsting C, Siegismund HR, Soumah AG, Hvilsom C. Genetics as a novel tool in mining impact assessment and biomonitoring of critically endangered western chimpanzees in the Nimba Mountains, Guinea. CONSERVATION SCIENCE AND PRACTICE 2023. [DOI: 10.1111/csp2.12898] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/18/2023] Open
Affiliation(s)
- Kathelijne Koops
- Ape Behaviour & Ecology Group, Department of Evolutionary Anthropology University of Zurich Zurich Switzerland
- Department of Archaeology University of Cambridge Cambridge UK
| | - Tatyana Humle
- Durrell Institute of Conservation and Ecology, School of Anthropology and Conservation University of Kent Kent UK
| | - Peter Frandsen
- Research and Conservation Copenhagen Zoo Copenhagen Denmark
| | - Maegan Fitzgerald
- Department of Ecology and Conservation Biology Texas A&M University College Station Texas USA
| | - Lucy D'Auvergne
- Durrell Institute of Conservation and Ecology, School of Anthropology and Conservation University of Kent Kent UK
| | - Hazel A. Jackson
- Durrell Institute of Conservation and Ecology, School of Anthropology and Conservation University of Kent Kent UK
| | - Claus Børsting
- Department of Forensic Medicine University of Copenhagen Copenhagen Denmark
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2
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Masías VH, Crespo R FA, Navarro R P, Masood R, Krämer NC, Hoppe HU. On spatial variation in the detectability and density of social media user protest supporters. TELEMATICS AND INFORMATICS 2021. [DOI: 10.1016/j.tele.2021.101730] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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3
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Schoenecker KA, King SRB, Ekernas LS, Oyler‐McCance SJ. Using Fecal DNA and Closed‐Capture Models to Estimate Feral Horse Population Size. J Wildl Manage 2021. [DOI: 10.1002/jwmg.22056] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
| | - Sarah R. B. King
- Natural Resource Ecology Laboratory Colorado State University Fort Collins CO 80523 USA
| | - L. Stefan Ekernas
- U.S. Geological Survey, Fort Collins Science Center Fort Collins CO 80526 USA
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4
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Martínez-Íñigo L, Baas P, Klein H, Pika S, Deschner T. Home range size in central chimpanzees (Pan troglodytes troglodytes) from Loango National Park, Gabon. Primates 2021; 62:723-734. [PMID: 34218403 PMCID: PMC8410711 DOI: 10.1007/s10329-021-00927-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2020] [Accepted: 06/21/2021] [Indexed: 11/25/2022]
Abstract
Ranging behavior has been studied extensively in eastern (Pan troglodytes schweinfurthii) and western (P. t. verus) chimpanzees, but relatively little is known regarding home ranges of the other two subspecies (P. t. ellioti; P. t. troglodytes). In this study, we determined the home range size and space use of a habituated community (Rekambo) of central chimpanzees living in a habitat mosaic in Loango National Park, Gabon. Data on travel routes were collected during follows between January 2017 and April 2019 (N = 670,616 relocations, collected over 640 days and 5690 h of observation). We used three methods for calculating home range size (minimum convex polygon, kernel density estimation, and biased random bridges). We compare our estimates to those obtained from prior genetic and camera trap studies of the Rekambo community and contrast them with estimates from other chimpanzee communities of the four chimpanzee subspecies. Depending on the methodology used, the home range size of the Rekambo community ranged between 27.64 and 59.03 km2. The location of the center of the home range remained relatively stable over the last decade, while the overall size decreased. The Rekambo home range is, therefore, one of the largest documented so far for chimpanzees outside savannah-woodland habitats. We discuss several explanations, including the presence of savannah, interspecies competition, and intercommunity interactions.
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Affiliation(s)
- Laura Martínez-Íñigo
- Interim Group Primatology, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, 04103, Leipzig, Germany. .,Wild Chimpanzee Foundation - Guinean Representation, Commune de Dixinn, BP1487P, Conakry, Guinea.
| | - Pauline Baas
- Interim Group Primatology, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, 04103, Leipzig, Germany
| | - Harmonie Klein
- Interim Group Primatology, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, 04103, Leipzig, Germany
| | - Simone Pika
- Institute of Cognitive Science, Comparative BioCognition, Osnabrück University, Artilleriestrasse 34, 49076, Osnabrück, Germany
| | - Tobias Deschner
- Interim Group Primatology, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, 04103, Leipzig, Germany
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5
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Liker A, Bókony V, Pipoly I, Lemaître JF, Gaillard JM, Székely T, Freckleton RP. Evolution of large males is associated with female-skewed adult sex ratios in amniotes. Evolution 2021; 75:1636-1649. [PMID: 34021590 DOI: 10.1111/evo.14273] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2020] [Revised: 04/30/2021] [Accepted: 05/05/2021] [Indexed: 12/30/2022]
Abstract
Body size often differs between the sexes (leading to sexual size dimorphism, SSD), as a consequence of differential responses by males and females to selection pressures. Adult sex ratio (ASR, the proportion of males in the adult population) should influence SSD because ASR relates to both the number of competitors and available mates, which shape the intensity of mating competition and thereby promotes SSD evolution. However, whether ASR correlates with SSD variation among species has not been yet tested across a broad range of taxa. Using phylogenetic comparative analyses of 462 amniotes (i.e., reptiles, birds, and mammals), we fill this knowledge gap by showing that male bias in SSD increases with increasingly female-skewed ASRs in both mammals and birds. This relationship is not explained by the higher mortality of the larger sex because SSD is not associated with sex differences in either juvenile or adult mortality. Phylogenetic path analysis indicates that higher mortality in one sex leads to skewed ASR, which in turn may generate selection for SSD biased toward the rare sex. Taken together, our findings provide evidence that skewed ASRs in amniote populations can result in the rarer sex evolving large size to capitalize on enhanced mating opportunities.
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Affiliation(s)
- András Liker
- MTA-PE Evolutionary Ecology Research Group, University of Pannonia, Veszprém, H-8210, Hungary.,Behavioral Ecology Research Group, Center for Natural Sciences, University of Pannonia, Veszprém, H-8210, Hungary
| | - Veronika Bókony
- Lendület Evolutionary Ecology Research Group, Plant Protection Institute, Centre for Agricultural Research, Eötvös Loránd Research Network, Budapest, H-1022, Hungary
| | - Ivett Pipoly
- MTA-PE Evolutionary Ecology Research Group, University of Pannonia, Veszprém, H-8210, Hungary.,Behavioral Ecology Research Group, Center for Natural Sciences, University of Pannonia, Veszprém, H-8210, Hungary
| | - Jean-Francois Lemaître
- Université Lyon 1, CNRS, Laboratoire de Biométrie et Biologie Évolutive UMR 5558, Villeurbanne, F-69622, France
| | - Jean-Michel Gaillard
- Université Lyon 1, CNRS, Laboratoire de Biométrie et Biologie Évolutive UMR 5558, Villeurbanne, F-69622, France
| | - Tamás Székely
- Milner Centre for Evolution, Department of Biology and Biochemistry, University of Bath, Bath, BA2 7AY, United Kingdom.,Department of Evolutionary Zoology and Human Biology, University of Debrecen, Debrecen, H-4032, Hungary
| | - Robert P Freckleton
- Department of Animal and Plant Sciences, Alfred Denny Building, University of Sheffield, Sheffield, S10 2TN, United Kingdom
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6
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Ebert C, Sandrini J, Welter B, Thiele B, Hohmann U. Estimating red deer (Cervus elaphus) population size based on non-invasive genetic sampling. EUR J WILDLIFE RES 2021. [DOI: 10.1007/s10344-021-01456-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
AbstractSome deer species are of conservation concern; others are officially managed as a food source or for their trophies, whereas in many regions, deer are regarded as overabundant or even as a nuisance causing damages. Regardless of local management issues, in most cases, reliable data on deer population sizes and sex ratios are lacking. Non-invasive genetic approaches are promising tools for the estimation of population size and structure. We developed and tested a non-invasive genetic approach for red deer (Cervus elaphus) population size and density estimation based on faeces collected from three free-ranging red deer populations in south-western Germany. Altogether, we genotyped 2762 faecal samples, representing 1431 different individuals. We estimated population density for both sexes separately using two different approaches: spatially explicit capture-recapture (SECR) approach and a single-session urn model (CAPWIRE). The estimated densities of both approaches were similar for all three study areas, ranging between total densities of 3.3 (2.5–4.4) and 8.5 (6.4–11.3) red deer/km2. The estimated sex ratios differed significantly between the studied populations (ranging between 1:1.1 and 1:1.7), resulting in considerable consequences for management. In further research, the issues of population closure and approximation of the effectively sampled area for density estimation should be addressed. The presented approach can serve as a valuable tool for the management of deer populations, and to our knowledge, it represents the only sex-specific approach for estimation of red deer population size and density.
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7
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Brand CM, Johnson MB, Parker LD, Maldonado JE, Korte L, Vanthomme H, Alonso A, Ruiz-Lopez MJ, Wells CP, Ting N. Abundance, density, and social structure of African forest elephants (Loxodonta cyclotis) in a human-modified landscape in southwestern Gabon. PLoS One 2020; 15:e0231832. [PMID: 32348354 PMCID: PMC7190099 DOI: 10.1371/journal.pone.0231832] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2019] [Accepted: 04/01/2020] [Indexed: 11/28/2022] Open
Abstract
Population monitoring is critical to effective conservation, but forest living taxa can be difficult to directly observe. This has been true of African forest elephants (Loxodonta cyclotis), for which we have limited information regarding population size and social behavior despite their threatened conservation status. In this study, we estimated demographic parameters using genetic capture-recapture of forest elephants in the southern Industrial Corridor of the Gamba Complex of Protected Areas in southwestern Gabon, which is considered a global stronghold for forest elephants. Additionally, we examined social networks, predicting that we would find matrilineal structure seen in both savanna and forest elephants. Given 95% confidence intervals, we estimate population size in the sampled area to be between 754 and 1,502 individuals and our best density estimate ranges from 0.47 to 0.80 elephants per km2. When extrapolated across the entire Industrial Corridor, this estimate suggests an elephant population size of 3,033 to 6,043 based on abundance or 1,684 to 2,832 based on density, approximately 40–80% smaller than previously suggested. Our social network analysis revealed approximately half of network components included females with different mitochondrial haplotypes suggesting a wider range of variation in forest elephant sociality than previously thought. This study emphasizes the threatened status of forest elephants and demonstrates the need to further refine baseline estimates of population size and knowledge on social behavior in this taxon, both of which will aid in determining how population dynamics in this keystone species may be changing through time in relation to increasing conservation threats.
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Affiliation(s)
- Colin M. Brand
- Department of Anthropology, University of Oregon, Eugene, OR, United States of America
| | - Mireille B. Johnson
- Gabon Biodiversity Program, Smithsonian Conservation Biology Institute, Gamba, Gabon
| | - Lillian D. Parker
- Department of Biosciences, School of Systems Biology, George Mason University, Fairfax, VA, United States of America
- Center for Conservation Genomics, Smithsonian Conservation Biology Institute, National Zoological Park, Washington, DC, United States of America
| | - Jesús E. Maldonado
- Department of Biosciences, School of Systems Biology, George Mason University, Fairfax, VA, United States of America
- Center for Conservation Genomics, Smithsonian Conservation Biology Institute, National Zoological Park, Washington, DC, United States of America
| | - Lisa Korte
- Gabon Biodiversity Program, Smithsonian Conservation Biology Institute, Gamba, Gabon
| | - Hadrien Vanthomme
- Center for Conservation and Sustainability, Smithsonian Conservation Biology Institute, National Zoological Park, Washington, DC, United States of America
| | - Alfonso Alonso
- Center for Conservation and Sustainability, Smithsonian Conservation Biology Institute, National Zoological Park, Washington, DC, United States of America
| | | | - Caitlin P. Wells
- Department of Fish, Wildlife, and Conservation Biology, Colorado State University, Fort Collins, CO, United States of America
- Institute of Ecology and Evolution, University of Oregon, Eugene, OR, United States of America
| | - Nelson Ting
- Department of Anthropology, University of Oregon, Eugene, OR, United States of America
- Institute of Ecology and Evolution, University of Oregon, Eugene, OR, United States of America
- * E-mail:
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8
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Bischof R, Dupont P, Milleret C, Chipperfield J, Royle JA. Consequences of ignoring group association in spatial capture–recapture analysis. WILDLIFE BIOLOGY 2020. [DOI: 10.2981/wlb.00649] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Affiliation(s)
- Richard Bischof
- R. Bischof ✉ , P. Dupont and C. Milleret, Faculty of Environmental Sciences and Natural Resource Management, Norwegian Univ. of Life Sciences, NO-1432 Aas, Norway
| | - Pierre Dupont
- R. Bischof ✉ , P. Dupont and C. Milleret, Faculty of Environmental Sciences and Natural Resource Management, Norwegian Univ. of Life Sciences, NO-1432 Aas, Norway
| | - Cyril Milleret
- R. Bischof ✉ , P. Dupont and C. Milleret, Faculty of Environmental Sciences and Natural Resource Management, Norwegian Univ. of Life Sciences, NO-1432 Aas, Norway
| | - Joseph Chipperfield
- J. Chipperfield, Norwegian Inst. for Nature, Res., Bergen, Norway. – J. A. Royle, USGS Patuxent Wildlife Research Center, Laurel, MD, USA
| | - J. Andrew Royle
- R. Bischof ✉ , P. Dupont and C. Milleret, Faculty of Environmental Sciences and Natural Resource Management, Norwegian Univ. of Life Sciences, NO-1432 Aas, Norway
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9
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Granjon A, Robbins MM, Arinaitwe J, Cranfield MR, Eckardt W, Mburanumwe I, Musana A, Robbins AM, Roy J, Sollmann R, Vigilant L, Hickey JR. Estimating abundance and growth rates in a wild mountain gorilla population. Anim Conserv 2020. [DOI: 10.1111/acv.12559] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Affiliation(s)
- A.‐C. Granjon
- Department of Primatology Max Planck Institute for Evolutionary Anthropology Leipzig Germany
| | - M. M. Robbins
- Department of Primatology Max Planck Institute for Evolutionary Anthropology Leipzig Germany
| | - J. Arinaitwe
- Bwindi Mgahinga Conservation Area Uganda Wildlife Authority Kampala Uganda
| | - M. R. Cranfield
- Mountain Gorilla Veterinary Project School of Veterinary Medicine University of California Davis Davis CA USA
| | - W. Eckardt
- The Dian Fossey Gorilla Fund International Musanze Rwanda
| | - I. Mburanumwe
- Parc National des Virunga‐sud Institut Congolais pour la Conservation de la Nature Gisenyi Rwanda
| | - A. Musana
- Parc National des Volcans Rwanda Development Board Kigali Rwanda
| | - A. M. Robbins
- Department of Primatology Max Planck Institute for Evolutionary Anthropology Leipzig Germany
| | - J. Roy
- Department of Primatology Max Planck Institute for Evolutionary Anthropology Leipzig Germany
| | - R. Sollmann
- Department of Wildlife, Fish, and Conservation Biology University of California Davis Davis CA USA
| | - L. Vigilant
- Department of Primatology Max Planck Institute for Evolutionary Anthropology Leipzig Germany
| | - J. R. Hickey
- International Gorilla Conservation Programme Kigali Rwanda
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10
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Maibach V, Langergraber K, Leendertz FH, Wittig RM, Vigilant L. Differences in MHC-B diversity and KIR epitopes in two populations of wild chimpanzees. Immunogenetics 2019; 71:617-633. [PMID: 31797008 PMCID: PMC6900261 DOI: 10.1007/s00251-019-01148-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2019] [Accepted: 11/17/2019] [Indexed: 11/26/2022]
Abstract
The major histocompatibility complex (MHC) class I genes play a critical role within the immune system, both by the presentation of antigens from intracellular pathogens to immunocompetent cells and by the interaction with killer cell immunoglobulin-like receptors (KIR) on natural killer cells (NK cells). Genes of the MHC are highly diverse, and MHC variation can have effects on the immune functionality of individuals; hence, comparisons of MHC diversity among closely related phylogenetic taxa may give insight into the factors responsible for the shaping of its diversity. The four geographically separated chimpanzee subspecies differ in their overall genetic diversity, have different population histories, and are confronted with different pathogens in their natural habitat, all of which may affect MHC class I DNA sequence diversity. Here, we compare the MHC-B exon two DNA sequence diversity from 24 wild western and 46 wild eastern chimpanzees using necropsy and noninvasively collected fecal samples, respectively. We found a higher MHC-B exon two nucleotide diversity, in our western than eastern chimpanzees. The inclusion of previously published MHC-B exon two data from other western and eastern chimpanzees supported this finding. In addition, our results confirm and extend the finding of a very low C1 epitope frequency at eastern chimpanzee MHC-B molecules, which likely affects the ability of these molecules to interact with NK cells. While the understanding of the differing pathogen environments encountered by disparate populations of a species is a challenging endeavor, these findings highlight the potential for these pathogens to selectively shape immune system variation.
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Affiliation(s)
- Vincent Maibach
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, 04103, Leipzig, Germany.
| | - Kevin Langergraber
- School of Human Evolution and Social Change, Arizona State University, Tempe, AZ, 85281, USA
- Institute of Human Origins, Arizona State University, Tempe, AZ, 85281, USA
| | | | - Roman M Wittig
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, 04103, Leipzig, Germany
- Taï Chimpanzee Project, CSRS, Abidjan, 01, Côte d'Ivoire
| | - Linda Vigilant
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, 04103, Leipzig, Germany
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11
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Hagemann L, Arandjelovic M, Robbins MM, Deschner T, Lewis M, Froese G, Boesch C, Vigilant L. Long-term inference of population size and habitat use in a socially dynamic population of wild western lowland gorillas. CONSERV GENET 2019. [DOI: 10.1007/s10592-019-01209-w] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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12
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White LC, Fontsere C, Lizano E, Hughes DA, Angedakin S, Arandjelovic M, Granjon AC, Hans JB, Lester JD, Rabanus-Wallace MT, Rowney C, Städele V, Marques-Bonet T, Langergraber KE, Vigilant L. A roadmap for high-throughput sequencing studies of wild animal populations using noninvasive samples and hybridization capture. Mol Ecol Resour 2019; 19:609-622. [PMID: 30637963 DOI: 10.1111/1755-0998.12993] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2018] [Revised: 12/14/2018] [Accepted: 01/08/2019] [Indexed: 11/30/2022]
Abstract
Large-scale genomic studies of wild animal populations are often limited by access to high-quality DNA. Although noninvasive samples, such as faeces, can be readily collected, DNA from the sample producers is usually present in low quantities, fragmented, and contaminated by microorganism and dietary DNAs. Hybridization capture can help to overcome these impediments by increasing the proportion of subject DNA prior to high-throughput sequencing. Here we evaluate a key design variable for hybridization capture, the number of rounds of capture, by testing whether one or two rounds are most appropriate, given varying sample quality (as measured by the ratios of subject to total DNA). We used a set of 1,780 quality-assessed wild chimpanzee (Pan troglodytes schweinfurthii) faecal samples and chose 110 samples of varying quality for exome capture and sequencing. We used multiple regression to assess the effects of the ratio of subject to total DNA (sample quality), rounds of capture and sequencing effort on the number of unique exome reads sequenced. We not only show that one round of capture is preferable when the proportion of subject DNA in a sample is above ~2%-3%, but also explore various types of bias introduced by capture, and develop a model that predicts the sequencing effort necessary for a desired data yield from samples of a given quality. Thus, our results provide a useful guide and pave a methodological way forward for researchers wishing to plan similar hybridization capture studies.
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Affiliation(s)
- Lauren C White
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Claudia Fontsere
- Institut de Biologia Evolutiva (Consejo Superior de Investigaciones Científicas-Universitat Pompeu Fabra), Barcelona Biomedical Research Park, Barcelona, Spain
| | - Esther Lizano
- Institut de Biologia Evolutiva (Consejo Superior de Investigaciones Científicas-Universitat Pompeu Fabra), Barcelona Biomedical Research Park, Barcelona, Spain
| | - David A Hughes
- MRC Integrative Epidemiology Unit at University of Bristol, Bristol, UK.,Population Health Sciences, Bristol Medical School, University of Bristol, Bristol, UK
| | - Samuel Angedakin
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Mimi Arandjelovic
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Anne-Céline Granjon
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Jörg B Hans
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Jack D Lester
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | | | - Carolyn Rowney
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Veronika Städele
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Tomas Marques-Bonet
- Institut de Biologia Evolutiva (Consejo Superior de Investigaciones Científicas-Universitat Pompeu Fabra), Barcelona Biomedical Research Park, Barcelona, Spain.,Catalan Institution of Research and Advanced Studies (ICREA), Barcelona, Spain.,CNAG-CRG, Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology (BIST), Barcelona, Spain.,Institut Català de Paleontologia Miquel Crusafont, Universitat Autònoma de Barcelona, Barcelona, Spain
| | - Kevin E Langergraber
- School of Human Evolution and Social Change, Arizona State University, Tempe, Arizona.,Institute of Human Origins, Arizona State University, Tempe, Arizona
| | - Linda Vigilant
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
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13
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Lonsinger R, Lukacs P, Gese E, Knight R, Waits L. Estimating densities for sympatric kit foxes (Vulpes macrotis) and coyotes (Canis latrans) using noninvasive genetic sampling. CAN J ZOOL 2018. [DOI: 10.1139/cjz-2017-0332] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Kit fox (Vulpes macrotis Merriam, 1888) populations in the Great Basin Desert have declined and are of increasing concern for managers. Increasing coyote (Canis latrans Say, 1823) abundance and subsequent intraguild interactions may be one cause for this decline. Concurrent monitoring of carnivores is challenging and therefore rarely conducted. One possible solution for monitoring elusive carnivores is using noninvasive genetic sampling. We used noninvasive genetic sampling to collect fecal DNA from kit foxes and coyotes and estimate their densities from 2013–2014 in Utah, USA. We identified individuals based on microsatellite genotypes and estimated density with multisession spatially explicit capture–recapture models. Mean kit fox density was 0.02 foxes·km−2, while coyote densities were up to four times greater (0.07–0.08 coyotes·km−2). Kit fox densities were significantly lower than densities in the 1950s but were comparable with estimates from the late 1990s, suggesting that populations may be stabilizing after a precipitous decline. Our kit fox density estimates were among the lowest documented for the species. Our coyote density estimate was the first reported in our region and revealed that despite seemingly high abundance, densities are low compared with other regions. Our results suggested that kit foxes may be able to coexist with coyotes.
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Affiliation(s)
- R.C. Lonsinger
- Department of Natural Resource Management, South Dakota State University, Brookings, SD 57007, U.S.A
| | - P.M. Lukacs
- University of Montana, Wildlife Biology Program, Department of Ecosystems and Conservation Sciences, W.A. Franke College of Forestry and Conservation, Missoula, MT 59812, U.S.A
| | - E.M. Gese
- United States Department of Agriculture, Wildlife Services, National Wildlife Research Center, Department of Wildland Resources, Utah State University, Logan, UT 84322, U.S.A
| | - R.N. Knight
- United States Army Dugway Proving Ground, Natural Resource Program, Dugway, UT 84022, U.S.A
| | - L.P. Waits
- University of Idaho, Department of Fish and Wildlife Sciences, Moscow, ID 83844, U.S.A
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14
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Hagemann L, Boesch C, Robbins MM, Arandjelovic M, Deschner T, Lewis M, Froese G, Vigilant L. Long-term group membership and dynamics in a wild western lowland gorilla population (Gorilla gorilla gorilla) inferred using non-invasive genetics. Am J Primatol 2018; 80:e22898. [PMID: 30024040 DOI: 10.1002/ajp.22898] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2018] [Revised: 06/22/2018] [Accepted: 07/01/2018] [Indexed: 01/07/2023]
Abstract
The social organization of a group-living animal is defined by a balance between group dynamic events such as group formation, group dissolution, and dispersal events and group stability in membership and over time. Understanding these processes, which are relevant for questions ranging from disease transmission patterns to the evolution of polygyny, requires long-term monitoring of multiple social units over time. Because all great ape species are long-lived and elusive, the number of studies on these key aspects of social organization are limited, especially for western lowland gorillas (Gorilla gorilla gorilla). In this study, we used non-invasive genetic samples collected within an approximately 100 km2 area of Loango National Park, Gabon to reconstruct group compositions and changes in composition over more than a decade. We identified 98 gorillas and 11 mixed sex groups sampled during 2014-2017. Using published data from 85 individuals and 12 groups surveyed between 2005 and 2009 at the same locality, we tracked groups and individuals back in time. The identification of 11 silverbacks via parentage analyses and the genetic tracking of 39 individuals across studies allowed us to infer six group formations, five group dissolutions, and 40 dispersal events within 12 years. We also observed four groups persisting across the sampling periods with a maximum inferred existence of nearly 17 years and exhibiting variation in membership stability. Our results highlight the variation in composition and stability among groups of western lowland gorillas and illustrate the power of non-invasive genetic sampling for long-term monitoring.
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Affiliation(s)
- Laura Hagemann
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Christophe Boesch
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Martha M Robbins
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Mimi Arandjelovic
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Tobias Deschner
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Matthew Lewis
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Graden Froese
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Linda Vigilant
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
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15
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Abstract
AbstractWe synthesize information on parameters useful for managing the hunting of two common mammal species that are important for local people in the Neotropics and Africa: Cuniculus paca and Philantomba monticola, respectively. We highlight the scarcity of data available on the parameters needed to manage these two species sustainably. As most of the studies were conducted > 40 years ago, we stress the need to supplement the information available using methodological and technical innovations. In particular, we call for new assessments covering the possible variations in parameter values across the species’ distribution ranges, and covering various anthropogenic contexts, to test density-dependent and compensatory processes that may explain the resilience of these species to hunting.
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16
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Arandjelovic M, Vigilant L. Non-invasive genetic censusing and monitoring of primate populations. Am J Primatol 2018; 80:e22743. [PMID: 29457631 DOI: 10.1002/ajp.22743] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2017] [Revised: 12/16/2017] [Accepted: 01/14/2018] [Indexed: 02/06/2023]
Abstract
Knowing the density or abundance of primate populations is essential for their conservation management and contextualizing socio-demographic and behavioral observations. When direct counts of animals are not possible, genetic analysis of non-invasive samples collected from wildlife populations allows estimates of population size with higher accuracy and precision than is possible using indirect signs. Furthermore, in contrast to traditional indirect survey methods, prolonged or periodic genetic sampling across months or years enables inference of group membership, movement, dynamics, and some kin relationships. Data may also be used to estimate sex ratios, sex differences in dispersal distances, and detect gene flow among locations. Recent advances in capture-recapture models have further improved the precision of population estimates derived from non-invasive samples. Simulations using these methods have shown that the confidence interval of point estimates includes the true population size when assumptions of the models are met, and therefore this range of population size minima and maxima should be emphasized in population monitoring studies. Innovations such as the use of sniffer dogs or anti-poaching patrols for sample collection are important to ensure adequate sampling, and the expected development of efficient and cost-effective genotyping by sequencing methods for DNAs derived from non-invasive samples will automate and speed analyses.
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Affiliation(s)
- Mimi Arandjelovic
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Linda Vigilant
- Department of Primatology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
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17
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Després-Einspenner ML, Howe EJ, Drapeau P, Kühl HS. An empirical evaluation of camera trapping and spatially explicit capture-recapture models for estimating chimpanzee density. Am J Primatol 2017; 79. [PMID: 28267880 DOI: 10.1002/ajp.22647] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2016] [Revised: 01/27/2017] [Accepted: 01/29/2017] [Indexed: 11/12/2022]
Abstract
Empirical validations of survey methods for estimating animal densities are rare, despite the fact that only an application to a population of known density can demonstrate their reliability under field conditions and constraints. Here, we present a field validation of camera trapping in combination with spatially explicit capture-recapture (SECR) methods for enumerating chimpanzee populations. We used 83 camera traps to sample a habituated community of western chimpanzees (Pan troglodytes verus) of known community and territory size in Taï National Park, Ivory Coast, and estimated community size and density using spatially explicit capture-recapture models. We aimed to: (1) validate camera trapping as a means to collect capture-recapture data for chimpanzees; (2) validate SECR methods to estimate chimpanzee density from camera trap data; (3) compare the efficacy of targeting locations frequently visited by chimpanzees versus deploying cameras according to a systematic design; (4) evaluate the performance of SECR estimators with reduced sampling effort; and (5) identify sources of heterogeneity in detection probabilities. Ten months of camera trapping provided abundant capture-recapture data. All weaned individuals were detected, most of them multiple times, at both an array of targeted locations, and a systematic grid of cameras positioned randomly within the study area, though detection probabilities were higher at targeted locations. SECR abundance estimates were accurate and precise, and analyses of subsets of the data indicated that the majority of individuals in a community could be detected with as few as five traps deployed within their territory. Our results highlight the potential of camera trapping for cost-effective monitoring of chimpanzee populations.
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Affiliation(s)
- Marie-Lyne Després-Einspenner
- Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany.,Centre for Forest Research, Département des Sciences biologiques, Université du Québec à Montréal, Montréal, Québec, Canada
| | - Eric J Howe
- Centre for Research Into Ecological and Environmental Modelling, The Observatory, University of St Andrews, Fife, UK
| | - Pierre Drapeau
- Centre for Forest Research, Département des Sciences biologiques, Université du Québec à Montréal, Montréal, Québec, Canada
| | - Hjalmar S Kühl
- Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany.,German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Leipzig, Germany
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