1
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Hold K, Lord E, Brealey JC, Le Moullec M, Bieker VC, Ellegaard MR, Rasmussen JA, Kellner FL, Guschanski K, Yannic G, Røed KH, Hansen BB, Dalén L, Martin MD, Dussex N. Ancient reindeer mitogenomes reveal island-hopping colonisation of the Arctic archipelagos. Sci Rep 2024; 14:4143. [PMID: 38374421 PMCID: PMC10876933 DOI: 10.1038/s41598-024-54296-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2023] [Accepted: 02/11/2024] [Indexed: 02/21/2024] Open
Abstract
Climate warming at the end of the last glacial period had profound effects on the distribution of cold-adapted species. As their range shifted towards northern latitudes, they were able to colonise previously glaciated areas, including remote Arctic islands. However, there is still uncertainty about the routes and timing of colonisation. At the end of the last ice age, reindeer/caribou (Rangifer tarandus) expanded to the Holarctic region and colonised the archipelagos of Svalbard and Franz Josef Land. Earlier studies have proposed two possible colonisation routes, either from the Eurasian mainland or from Canada via Greenland. Here, we used 174 ancient, historical and modern mitogenomes to reconstruct the phylogeny of reindeer across its whole range and to infer the colonisation route of the Arctic islands. Our data shows a close affinity among Svalbard, Franz Josef Land and Novaya Zemlya reindeer. We also found tentative evidence for positive selection in the mitochondrial gene ND4, which is possibly associated with increased heat production. Our results thus support a colonisation of the Eurasian Arctic archipelagos from the Eurasian mainland and provide some insights into the evolutionary history and adaptation of the species to its High Arctic habitat.
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Affiliation(s)
- Katharina Hold
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Erling Skakkes Gate 47B, 7012, Trondheim, Norway.
| | - Edana Lord
- Centre for Palaeogenetics, Svante Arrhenius väg 20C, 10691, Stockholm, Sweden
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, 10405, Stockholm, Sweden
- Department of Zoology, Stockholm University, 10691, Stockholm, Sweden
| | - Jaelle C Brealey
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Erling Skakkes Gate 47B, 7012, Trondheim, Norway
- Department of Terrestrial Ecology, Norwegian Institute of Nature Research (NINA), Høgskoleringen 9, 7034, Trondheim, Norway
| | - Mathilde Le Moullec
- Gjærevoll Centre for Biodiversity Foresight Analyses, Norwegian University of Science and Technology (NTNU), 7491, Trondheim, Norway
- Department of Mammals and Birds, Greenland, Institute of Natural Resources, Kivioq 2, 3900, Nuuk, Greenland
| | - Vanessa C Bieker
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Erling Skakkes Gate 47B, 7012, Trondheim, Norway
| | - Martin R Ellegaard
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Erling Skakkes Gate 47B, 7012, Trondheim, Norway
| | - Jacob A Rasmussen
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Erling Skakkes Gate 47B, 7012, Trondheim, Norway
- Globe Institute, University of Copenhagen, Øster Voldgade 5-7, 1350, Copenhagen, Denmark
| | - Fabian L Kellner
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Erling Skakkes Gate 47B, 7012, Trondheim, Norway
| | - Katerina Guschanski
- Animal Ecology, Department of Ecology and Genetics, Evolutionary Biology Centre, Uppsala University, Norbyvägen 18D, 75236, Uppsala, Sweden
- Institute of Ecology and Evolution, School of Biological Sciences, University of Edinburgh, Edinburgh, UK
| | - Glenn Yannic
- Univ. Savoie Mont Blanc, CNRS, LECA, Laboratoire d'Ecologie Alpine, Univ. Grenoble Alpes, 38000, Grenoble, France
| | - Knut H Røed
- Department of Preclinical Sciences and Pathology, Norwegian University of Life Sciences, P.O. Box 5003, 1432, Ås, Norway
| | - Brage B Hansen
- Gjærevoll Centre for Biodiversity Foresight Analyses, Norwegian University of Science and Technology (NTNU), 7491, Trondheim, Norway
- Department of Terrestrial Ecology, Norwegian Institute of Nature Research (NINA), Høgskoleringen 9, 7034, Trondheim, Norway
| | - Love Dalén
- Centre for Palaeogenetics, Svante Arrhenius väg 20C, 10691, Stockholm, Sweden
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, 10405, Stockholm, Sweden
- Department of Zoology, Stockholm University, 10691, Stockholm, Sweden
| | - Michael D Martin
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Erling Skakkes Gate 47B, 7012, Trondheim, Norway.
| | - Nicolas Dussex
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Erling Skakkes Gate 47B, 7012, Trondheim, Norway.
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2
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Carvalho J, Morales HE, Faria R, Butlin RK, Sousa VC. Integrating Pool-seq uncertainties into demographic inference. Mol Ecol Resour 2023; 23:1737-1755. [PMID: 37475177 DOI: 10.1111/1755-0998.13834] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2022] [Revised: 06/16/2023] [Accepted: 06/30/2023] [Indexed: 07/22/2023]
Abstract
Next-generation sequencing of pooled samples (Pool-seq) is a popular method to assess genome-wide diversity patterns in natural and experimental populations. However, Pool-seq is associated with specific sources of noise, such as unequal individual contributions. Consequently, using Pool-seq for the reconstruction of evolutionary history has remained underexplored. Here we describe a novel Approximate Bayesian Computation (ABC) method to infer demographic history, explicitly modelling Pool-seq sources of error. By jointly modelling Pool-seq data, demographic history and the effects of selection due to barrier loci, we obtain estimates of demographic history parameters accounting for technical errors associated with Pool-seq. Our ABC approach is computationally efficient as it relies on simulating subsets of loci (rather than the whole-genome) and on using relative summary statistics and relative model parameters. Our simulation study results indicate Pool-seq data allows distinction between general scenarios of ecotype formation (single versus parallel origin) and to infer relevant demographic parameters (e.g. effective sizes and split times). We exemplify the application of our method to Pool-seq data from the rocky-shore gastropod Littorina saxatilis, sampled on a narrow geographical scale at two Swedish locations where two ecotypes (Wave and Crab) are found. Our model choice and parameter estimates show that ecotypes formed before colonization of the two locations (i.e. single origin) and are maintained despite gene flow. These results indicate that demographic modelling and inference can be successful based on pool-sequencing using ABC, contributing to the development of suitable null models that allow for a better understanding of the genetic basis of divergent adaptation.
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Affiliation(s)
- João Carvalho
- cE3c - Centre for Ecology, Evolution and Environmental Changes & CHANGE - Global Change and Sustainability Institute, Departamento de Biologia Animal, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, Portugal
| | - Hernán E Morales
- Section for Hologenomics, Globe Institute, University of Copenhagen, Copenhagen, Denmark
| | - Rui Faria
- CIBIO - Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO, Laboratório Associado, Universidade do Porto, Vairão, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Vairão, Portugal
| | - Roger K Butlin
- Ecology and Evolutionary Biology, School of Biosciences, University of Sheffield, Sheffield, UK
- Department of Marine Sciences, University of Gothenburg, Gothenburg, Sweden
| | - Vítor C Sousa
- cE3c - Centre for Ecology, Evolution and Environmental Changes & CHANGE - Global Change and Sustainability Institute, Departamento de Biologia Animal, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, Portugal
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3
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Solmundson K, Bowman J, Manseau M, Taylor RS, Keobouasone S, Wilson PJ. Genomic population structure and inbreeding history of Lake Superior caribou. Ecol Evol 2023; 13:e10278. [PMID: 37424935 PMCID: PMC10326607 DOI: 10.1002/ece3.10278] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2023] [Revised: 06/19/2023] [Accepted: 06/23/2023] [Indexed: 07/11/2023] Open
Abstract
Caribou (Rangifer tarandus) have experienced dramatic declines in both range and population size across Canada over the past century. Boreal caribou (R. t. caribou), 1 of the 12 Designatable Units, has lost approximately half of its historic range in the last 150 years, particularly along the southern edge of its distribution. Despite this overall northward contraction, some populations have persisted at the trailing range edge, over 150 km south of the continuous boreal caribou range in Ontario, along the coast and nearshore islands of Lake Superior. The population history of caribou along Lake Superior remains unclear. It appears that these caribou likely represent a remnant distribution at the trailing edge of the receding population of boreal caribou, but they may also exhibit local adaptation to the coastal environment. A better understanding of the population structure and history of caribou along Lake Superior is important for their conservation and management. Here, we use high-coverage whole genomes (N = 20) from boreal, eastern migratory, and barren-ground caribou sampled in Manitoba, Ontario, and Quebec to investigate population structure and inbreeding histories. We discovered that caribou from the Lake Superior range form a distinct group but also found some evidence of gene flow with the continuous boreal caribou range. Notably, caribou along Lake Superior demonstrated relatively high levels of inbreeding (measured as runs of homozygosity; ROH) and genetic drift, which may contribute to the differentiation observed between ranges. Despite inbreeding, caribou along Lake Superior retained high heterozygosity, particularly in genomic regions without ROH. These results suggest that they present distinct genomic characteristics but also some level of gene flow with the continuous range. Our study provides key insights into the genomics of the southernmost range of caribou in Ontario, beginning to unravel the evolutionary history of these small, isolated caribou populations.
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Affiliation(s)
- Kirsten Solmundson
- Environmental & Life Sciences Graduate ProgramTrent UniversityPeterboroughOntarioCanada
| | - Jeff Bowman
- Environmental & Life Sciences Graduate ProgramTrent UniversityPeterboroughOntarioCanada
- Wildlife Research and Monitoring Section, Ontario Ministry of Natural Resources and ForestryTrent UniversityPeterboroughOntarioCanada
| | - Micheline Manseau
- Environmental & Life Sciences Graduate ProgramTrent UniversityPeterboroughOntarioCanada
- Landscape Science and Technology DivisionEnvironment and Climate Change CanadaOttawaOntarioCanada
| | - Rebecca S. Taylor
- Landscape Science and Technology DivisionEnvironment and Climate Change CanadaOttawaOntarioCanada
| | - Sonesinh Keobouasone
- Landscape Science and Technology DivisionEnvironment and Climate Change CanadaOttawaOntarioCanada
| | - Paul J. Wilson
- Biology DepartmentTrent UniversityPeterboroughOntarioCanada
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4
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Maier PA, Vandergast AG, Bohonak AJ. Using landscape genomics to delineate future adaptive potential for climate change in the Yosemite toad ( Anaxyrus canorus). Evol Appl 2023; 16:74-97. [PMID: 36699123 PMCID: PMC9850018 DOI: 10.1111/eva.13511] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2022] [Revised: 11/05/2022] [Accepted: 11/14/2022] [Indexed: 12/12/2022] Open
Abstract
An essential goal in conservation biology is delineating population units that maximize the probability of species persisting into the future and adapting to future environmental change. However, future-facing conservation concerns are often addressed using retrospective patterns that could be irrelevant. We recommend a novel landscape genomics framework for delineating future "Geminate Evolutionary Units" (GEUs) in a focal species: (1) identify loci under environmental selection, (2) model and map adaptive conservation units that may spawn future lineages, (3) forecast relative selection pressures on each future lineage, and (4) estimate their fitness and likelihood of persistence using geo-genomic simulations. Using this process, we delineated conservation units for the Yosemite toad (Anaxyrus canorus), a U.S. federally threatened species that is highly vulnerable to climate change. We used a genome-wide dataset, redundancy analysis, and Bayesian association methods to identify 24 candidate loci responding to climatic selection (R 2 ranging from 0.09 to 0.52), after controlling for demographic structure. Candidate loci included genes such as MAP3K5, involved in cellular response to environmental change. We then forecasted future genomic response to climate change using the multivariate machine learning algorithm Gradient Forests. Based on all available evidence, we found three GEUs in Yosemite National Park, reflecting contrasting adaptive optima: YF-North (high winter snowpack with moderate summer rainfall), YF-East (low to moderate snowpack with high summer rainfall), and YF-Low-Elevation (low snowpack and rainfall). Simulations under the RCP 8.5 climate change scenario suggest that the species will decline by 29% over 90 years, but the highly diverse YF-East lineage will be least impacted for two reasons: (1) geographically it will be sheltered from the largest climatic selection pressures, and (2) its standing genetic diversity will promote a faster adaptive response. Our approach provides a comprehensive strategy for protecting imperiled non-model species with genomic data alone and has wide applicability to other declining species.
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Affiliation(s)
- Paul A. Maier
- Department of BiologySan Diego State UniversitySan DiegoCaliforniaUSA
- FamilyTreeDNAGene by GeneHoustonTexasUSA
| | - Amy G. Vandergast
- Western Ecological Research CenterU.S. Geological SurveySan DiegoCaliforniaUSA
| | - Andrew J. Bohonak
- Department of BiologySan Diego State UniversitySan DiegoCaliforniaUSA
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5
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Harding LE. Available names for Rangifer (Mammalia, Artiodactyla, Cervidae) species and subspecies. Zookeys 2022; 1119:117-151. [PMID: 36762356 PMCID: PMC9848878 DOI: 10.3897/zookeys.1119.80233] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2022] [Accepted: 07/19/2022] [Indexed: 11/12/2022] Open
Abstract
Advancements in molecular and phylogenetic analysis have revealed the need for greater taxonomic resolution since Rangifer (Reindeer and caribou: Cervidae) was last revised in 1961. Recent literature shows that many of the subspecies and several species synonymised out of existence are, in fact, valid, some names have been misapplied, and new subspecies-level clades are in need of description. This paper reviews available names for recently defined ecotypes of reindeer and caribou in compliance with ICZN rules for zoological nomenclature.
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Affiliation(s)
- Lee E. Harding
- 2339 Sumpter Drive, Coquitlam, BC, V3J 6Y3, Coquitlam, CanadaunaffiliatedCoquitlamCanada
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6
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Stronen AV, Norman AJ, Vander Wal E, Paquet PC. The relevance of genetic structure in ecotype designation and conservation management. Evol Appl 2022; 15:185-202. [PMID: 35233242 PMCID: PMC8867706 DOI: 10.1111/eva.13339] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2020] [Revised: 12/02/2021] [Accepted: 12/20/2021] [Indexed: 11/28/2022] Open
Abstract
The concept of ecotypes is complex, partly because of its interdisciplinary nature, but the idea is intrinsically valuable for evolutionary biology and applied conservation. The complex nature of ecotypes has spurred some confusion and inconsistencies in the literature, thereby limiting broader theoretical development and practical application. We provide suggestions for how incorporating genetic analyses can ease confusion and help define ecotypes. We approach this by systematically reviewing 112 publications across taxa that simultaneously mention the terms ecotype, conservation and management, to examine the current use of the term in the context of conservation and management. We found that most ecotype studies involve fish, mammals and plants with a focus on habitat use, which at 60% was the most common criterion used for categorization of ecotypes. Only 53% of the studies incorporated genetic analyses, and major discrepancies in available genomic resources among taxa could have contributed to confusion about the role of genetic structure in delineating ecotypes. Our results show that the rapid advances in genetic methods, also for nonmodel organisms, can help clarify the spatiotemporal distribution of adaptive and neutral genetic variation and their relevance to ecotype designations. Genetic analyses can offer empirical support for the ecotype concept and provide a timely measure of evolutionary potential, especially in changing environmental conditions. Genetic variation that is often difficult to detect, including polygenic traits influenced by small contributions from several genes, can be vital for adaptation to rapidly changing environments. Emerging ecotypes may signal speciation in progress, and findings from genome‐enabled organisms can help clarify important selective factors driving ecotype development and persistence, and thereby improve preservation of interspecific genetic diversity. Incorporation of genetic analyses in ecotype studies will help connect evolutionary biology and applied conservation, including that of problematic groups such as natural hybrid organisms and urban or anthropogenic ecotypes.
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Affiliation(s)
- Astrid V. Stronen
- Department of Biology Biotechnical Faculty University of Ljubljana Ljubljana Slovenia
- Department of Biotechnology and Life Sciences Insubria University Varese Italy
- Department of Chemistry and Bioscience Aalborg University Aalborg Denmark
| | - Anita J. Norman
- Department of Fish, Wildlife and Environmental Studies Swedish University of Agricultural Sciences Umeå Sweden
| | - Eric Vander Wal
- Department of Biology Memorial University of Newfoundland St. John’s NL Canada
| | - Paul C. Paquet
- Department of Geography University of Victoria Victoria BC Canada
- Raincoast Conservation Foundation Sidney BC Canada
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7
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Mitchell G, Wilson PJ, Manseau M, Redquest B, Patterson BR, Rutledge LY. DNA metabarcoding of faecal pellets reveals high consumption of yew ( Taxus spp.) by caribou ( Rangifer tarandus) in a lichen-poor environment. Facets (Ott) 2022. [DOI: 10.1139/facets-2021-0071] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
Woodland caribou ( Rangifer tarandus caribou) are threatened in Canada because of the drastic decline in population size caused primarily by human-induced landscape changes that decrease habitat and increase predation risk. Conservation efforts have largely focused on reducing predators and protecting critical habitat, whereas research on dietary niches and the role of potential food constraints in lichen-poor environments is limited. To improve our understanding of dietary niche variability, we used a next-generation sequencing approach with metabarcoding of DNA extracted from faecal pellets of woodland caribou located on Lake Superior in lichen-rich (mainland) and lichen-poor (island) environments. Amplicon sequencing of fungal ITS2 region revealed lichen-associated fungi as predominant in samples from both populations, but amplification at the chloroplast trnL region, which was only successful on island samples, revealed primary consumption of yew ( Taxus spp.) based on relative read abundance (83.68%) with dogwood ( Cornus spp.; 9.67%) and maple ( Acer spp.; 4.10%) also prevalent. These results suggest that conservation efforts for caribou need to consider the availability of food resources beyond lichen to ensure successful outcomes. More broadly, we provide a reliable methodology for assessing ungulate diet from archived faecal pellets that could reveal important dietary shifts over time in response to climate change.
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Affiliation(s)
- Greniqueca Mitchell
- Biology Department, Trent University, Life and Health Sciences Building, 2089 East Bank Drive, Peterborough, ON K9L 1Z8, Canada
| | - Paul J. Wilson
- Biology Department, Trent University, Life and Health Sciences Building, 2089 East Bank Drive, Peterborough, ON K9L 1Z8, Canada
| | - Micheline Manseau
- Biology Department, Trent University, Life and Health Sciences Building, 2089 East Bank Drive, Peterborough, ON K9L 1Z8, Canada
- Landscape Science and Technology Division, Environment and Climate Change Canada, 1125 Colonel By Drive, Ottawa, ON K1S 5R1, Canada
| | - Bridgett Redquest
- Biology Department, Trent University, Life and Health Sciences Building, 2089 East Bank Drive, Peterborough, ON K9L 1Z8, Canada
| | - Brent R. Patterson
- Ontario Ministry of Natural Resources and Forestry, Trent University, DNA Building, Peterborough, ON K9L 1Z8, Canada
| | - Linda Y. Rutledge
- Biology Department, Trent University, Life and Health Sciences Building, 2089 East Bank Drive, Peterborough, ON K9L 1Z8, Canada
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8
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Whole genome sequences from non-invasively collected caribou faecal samples. CONSERV GENET RESOUR 2021. [DOI: 10.1007/s12686-021-01235-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
AbstractConservation genomics is an important tool to manage threatened species under current biodiversity loss. Recent advances in sequencing technology mean that we can now use whole genomes to investigate demographic history, local adaptation, inbreeding, and more in unprecedented detail. However, for many rare and elusive species only non-invasive samples such as faeces can be obtained, making it difficult to take advantage of whole genome data. We present a method to extract DNA from the mucosal layer of faecal samples to re-sequence high coverage whole genomes using standard laboratory techniques. We use wild collected faecal pellets collected from caribou (Rangifer tarandus), a species undergoing declines in many parts of its range in Canada and subject to comprehensive conservation and population monitoring measures. We compare four faecal genomes to two tissue genomes sequenced in the same run. Quality metrics were similar between faecal and tissue samples with the main difference being the alignment success of raw reads to the reference genome due to differences in low quality and endogenous DNA content, affecting overall coverage. One of our faecal genomes was only re-sequenced at low coverage (1.6 ×), however the other three obtained between 7 and 15 ×, compared to 19 and 25 × for the tissue samples. We successfully re-sequenced high-quality whole genomes from faecal DNA and are one of the first to obtain genome-wide data from wildlife faecal DNA in a non-primate species. Our work represents an important advancement for non-invasive conservation genomics.
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9
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Taylor RS, Manseau M, Klütsch CFC, Polfus JL, Steedman A, Hervieux D, Kelly A, Larter NC, Gamberg M, Schwantje H, Wilson PJ. Population dynamics of caribou shaped by glacial cycles before the last glacial maximum. Mol Ecol 2021; 30:6121-6143. [PMID: 34482596 PMCID: PMC9293238 DOI: 10.1111/mec.16166] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2020] [Revised: 08/18/2021] [Accepted: 08/23/2021] [Indexed: 12/04/2022]
Abstract
Pleistocene glacial cycles influenced the diversification of high‐latitude wildlife species through recurrent periods of range contraction, isolation, divergence, and expansion from refugia and subsequent admixture of refugial populations. We investigate population size changes and the introgressive history of caribou (Rangifer tarandus) in western Canada using 33 whole genome sequences coupled with larger‐scale mitochondrial data. We found that a major population expansion of caribou occurred starting around 110,000 years ago (kya), the start of the last glacial period. Additionally, we found effective population sizes of some caribou reaching ~700,000 to 1,000,000 individuals, one of the highest recorded historical effective population sizes for any mammal species thus far. Mitochondrial analyses dated introgression events prior to the LGM dating to 20–30 kya and even more ancient at 60 kya, coinciding with colder periods with extensive ice coverage, further demonstrating the importance of glacial cycles and events prior to the LGM in shaping demographic history. Reconstructing the origins and differential introgressive history has implications for predictions on species responses under climate change. Our results have implications for other whole genome analyses using pairwise sequentially Markovian coalescent (PSMC) analyses, as well as highlighting the need to investigate pre‐LGM demographic patterns to fully reconstruct the origin of species diversity, especially for high‐latitude species.
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Affiliation(s)
- Rebecca S Taylor
- Biology Department, Trent University, Peterborough, Ontario, Canada
| | - Micheline Manseau
- Biology Department, Trent University, Peterborough, Ontario, Canada.,Landscape Science and Technology, Environment and Climate Change Canada, Ottawa, Ontario, Canada
| | | | - Jean L Polfus
- Biology Department, Trent University, Peterborough, Ontario, Canada
| | - Audrey Steedman
- Parks Canada, Government of Canada, Winnipeg, Manitoba, Canada
| | - Dave Hervieux
- Department of Environment and Parks, Government of Alberta, Grande Prairie, Alberta, Canada
| | - Allicia Kelly
- Department of Environment and Natural Resources, Government of the Northwest Territories, Fort Smith, Northwest Territories, Canada
| | - Nicholas C Larter
- Department of Environment and Natural Resources, Government of the Northwest Territories, Fort Simpson, Northwest Territories, Canada
| | | | - Helen Schwantje
- BC Ministry of Forest, Lands, Natural Resource Operations, and Rural Development, Nanaimo, British Columbia, Canada
| | - Paul J Wilson
- Biology Department, Trent University, Peterborough, Ontario, Canada
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10
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Røed KH, Kvie KS, Bårdsen B, Laaksonen S, Lohi H, Kumpula J, Aronsson K, Åhman B, Våge J, Holand Ø. Historical and social–cultural processes as drivers for genetic structure in Nordic domestic reindeer. Ecol Evol 2021. [DOI: 10.1002/ece3.7728] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023] Open
Affiliation(s)
- Knut H. Røed
- Norwegian University of Life Sciences Oslo Norway
| | | | | | | | | | - Jouko Kumpula
- Natural Research Institute Finland Rovaniemi Finland
| | | | - Birgitta Åhman
- Swedish University of Agricultural Sciences Uppsala Sweden
| | - Jørn Våge
- Norwegian Veterinary Institute Oslo Norway
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11
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Taylor RS, Manseau M, Horn RL, Keobouasone S, Golding GB, Wilson PJ. The role of introgression and ecotypic parallelism in delineating intraspecific conservation units. Mol Ecol 2020; 29:2793-2809. [PMID: 32567754 PMCID: PMC7496186 DOI: 10.1111/mec.15522] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2020] [Revised: 06/04/2020] [Accepted: 06/15/2020] [Indexed: 01/03/2023]
Abstract
Parallel evolution can occur through selection on novel mutations, standing genetic variation or adaptive introgression. Uncovering parallelism and introgressed populations can complicate management of threatened species as parallelism may have influenced conservation unit designations and admixed populations are not generally considered under legislations. We examined high coverage whole-genome sequences of 30 caribou (Rangifer tarandus) from across North America and Greenland, representing divergent intraspecific lineages, to investigate parallelism and levels of introgression contributing to the formation of ecotypes. Caribou are split into four subspecies and 11 extant conservation units, known as designatable units (DUs), in Canada. Using genomes from all four subspecies and six DUs, we undertake demographic reconstruction and confirm two previously inferred instances of parallel evolution in the woodland subspecies and uncover an additional instance of parallelism of the eastern migratory ecotype. Detailed investigations reveal introgression in the woodland subspecies, with introgressed regions found spread throughout the genomes encompassing both neutral and functional sites. Our investigations using whole genomes highlight the difficulties in unequivocally demonstrating parallelism through adaptive introgression in nonmodel species with complex demographic histories, with standing variation and introgression both potentially involved. Additionally, the impact of parallelism and introgression on conservation policy for management units needs to be considered in general, and the caribou designations will need amending in light of our results. Uncovering and decoupling parallelism and differential patterns of introgression will become prevalent with the availability of comprehensive genomic data from nonmodel species, and we highlight the need to incorporate this into conservation unit designations.
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Affiliation(s)
| | - Micheline Manseau
- Biology DepartmentTrent UniversityPeterboroughONCanada
- Landscape Science and Technology DivisionEnvironment and Climate Change CanadaOttawaONCanada
| | - Rebekah L. Horn
- Biology DepartmentTrent UniversityPeterboroughONCanada
- Columbia River Inter‐Tribal Fish CommissionHagermanIDUSA
| | - Sonesinh Keobouasone
- Landscape Science and Technology DivisionEnvironment and Climate Change CanadaOttawaONCanada
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12
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Verocai GG, Hoberg EP, Simard M, Beckmen KB, Musiani M, Wasser S, Cuyler C, Manseau M, Chaudhry UN, Kashivakura CK, Gilleard JS, Kutz SJ. The biogeography of the caribou lungworm, Varestrongylus eleguneniensis (Nematoda: Protostrongylidae) across northern North America. INTERNATIONAL JOURNAL FOR PARASITOLOGY-PARASITES AND WILDLIFE 2020; 11:93-102. [PMID: 31970056 PMCID: PMC6965202 DOI: 10.1016/j.ijppaw.2020.01.001] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/18/2019] [Revised: 01/01/2020] [Accepted: 01/01/2020] [Indexed: 11/03/2022]
Abstract
Varestrongylus eleguneniensis (Nematoda; Protostrongylidae) is a recently described species of lungworm that infects caribou (Rangifer tarandus), muskoxen (Ovibos moschatus) and moose (Alces americanus) across northern North America. Herein we explore the geographic distribution of V. eleguneniensis through geographically extensive sampling and discuss the biogeography of this multi-host parasite. We analyzed fecal samples of three caribou subspecies (n = 1485), two muskox subspecies (n = 159), and two moose subspecies (n = 264) from across northern North America. Protostrongylid dorsal-spined larvae (DSL) were found in 23.8%, 73.6%, and 4.2% of these ungulates, respectively. A portion of recovered DSL were identified by genetic analyses of the ITS-2 region of the nuclear rDNA or the cytochrome oxidase c subunit I (COI) region of the mtDNA. We found V. eleguneniensis widely distributed among caribou and muskox populations across most of their geographic prange in North America but it was rare in moose. Parelaphostrongylus andersoni was present in caribou and moose and we provide new geographic records for this species. This study provides a substantial expansion of the knowledge defining the current distribution and biogeography of protostrongylid nematodes in northern ungulates. Insights about the host and geographic range of V. eleguneniensis can serve as a geographically extensive baseline for monitoring current distribution and in anticipating future biogeographic scenarios under a regime of accelerating climate and anthropogenic perturbation.
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Affiliation(s)
- Guilherme G Verocai
- Department of Ecosystem and Public Health, Faculty of Veterinary Medicine, University of Calgary, 3330 Hospital Drive NW, Calgary, Alberta, T2N 4N1, Canada.,Department of Veterinary Pathobiology, College of Veterinary Medicine & Biomedical Sciences, Texas A&M University, TAMU, College Station, TX, 77843, USA
| | - Eric P Hoberg
- Museum of Southwestern Biology, Department of Biology, University of New Mexico, Albuquerque, NM, 87108, USA
| | | | - Kimberlee B Beckmen
- Division of Wildlife Conservation, Alaska Department of Fish and Game, 1300 College Road, Fairbanks, AK, USA
| | - Marco Musiani
- Department of Biological Sciences, Faculty of Science, University of Calgary, AB, Canada
| | - Sam Wasser
- Center for Conservation Biology, University of Washington, Seattle, WA, USA
| | - Christine Cuyler
- Greenland Institute of Natural Resources, Department of Mammals & Birds, DK-3900, Nuuk, Greenland
| | - Micheline Manseau
- Natural Resources Institute, University of Manitoba, Winnipeg, Manitoba, Canada, R3T 2M6
| | - Umer N Chaudhry
- Department of Comparative Biology and Experimental Medicine, Faculty of Veterinary Medicine, University of Calgary, 3330 Hospital Drive NW, Calgary, Alberta, T2N 4N1, Canada
| | - Cyntia K Kashivakura
- Department of Ecosystem and Public Health, Faculty of Veterinary Medicine, University of Calgary, 3330 Hospital Drive NW, Calgary, Alberta, T2N 4N1, Canada
| | - John S Gilleard
- Department of Comparative Biology and Experimental Medicine, Faculty of Veterinary Medicine, University of Calgary, 3330 Hospital Drive NW, Calgary, Alberta, T2N 4N1, Canada
| | - Susan J Kutz
- Department of Ecosystem and Public Health, Faculty of Veterinary Medicine, University of Calgary, 3330 Hospital Drive NW, Calgary, Alberta, T2N 4N1, Canada
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Özkan Gülzari Ş, Jørgensen GHM, Eilertsen SM, Hansen I, Hagen SB, Fløystad I, Palme R. Measuring Faecal Glucocorticoid Metabolites to Assess Adrenocortical Activity in Reindeer. Animals (Basel) 2019; 9:ani9110987. [PMID: 31752137 PMCID: PMC6912703 DOI: 10.3390/ani9110987] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2019] [Revised: 11/12/2019] [Accepted: 11/13/2019] [Indexed: 11/16/2022] Open
Abstract
Several non-invasive methods for assessing stress responses have been developed and validated for many animal species. Due to species-specific differences in metabolism and excretion of stress hormones, methods should be validated for each species. The aim of this study was to conduct a physiological validation of an 11-oxoaetiocholanolone enzyme immunoassay (EIA) for measuring faecal cortisol metabolites (FCMs) in male reindeer by administration of adrenocorticotrophic hormone (ACTH; intramuscular, 0.25 mg per animal). A total of 317 samples were collected from eight male reindeer over a 44 h period at Tverrvatnet in Norway in mid-winter. In addition, 114 samples were collected from a group of reindeer during normal handling and calf marking at Stjernevatn in Norway. Following ACTH injection, FCM levels (median and range) were 568 (268-2415) ng/g after two hours, 2718 (414-8550) ng/g after seven hours and 918 (500-6931) ng/g after 24 h. Levels were significantly higher from seven hours onwards compared to earlier hours (p < 0.001). The FCM levels at Stjernevatn were significantly (p < 0.001) different before (samples collected zero to two hours; median: 479 ng/g) and after calf marking (eight to ten hours; median: 1469 ng/g). Identification of the faecal samples belonging to individual animals was conducted using DNA analysis across time. This study reports a successful validation of a non-invasive technique for measuring stress in reindeer, which can be applied in future studies in the fields of biology, ethology, ecology, animal conservation and welfare.
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Affiliation(s)
- Şeyda Özkan Gülzari
- Norwegian Institute of Bioeconomy Research, P.O. Box 115, 1431 Ås, Norway; (Ş.Ö.G.); (S.M.E.); (I.H.); (S.B.H.); (I.F.)
| | - Grete Helen Meisfjord Jørgensen
- Norwegian Institute of Bioeconomy Research, P.O. Box 115, 1431 Ås, Norway; (Ş.Ö.G.); (S.M.E.); (I.H.); (S.B.H.); (I.F.)
- Correspondence:
| | - Svein Morten Eilertsen
- Norwegian Institute of Bioeconomy Research, P.O. Box 115, 1431 Ås, Norway; (Ş.Ö.G.); (S.M.E.); (I.H.); (S.B.H.); (I.F.)
| | - Inger Hansen
- Norwegian Institute of Bioeconomy Research, P.O. Box 115, 1431 Ås, Norway; (Ş.Ö.G.); (S.M.E.); (I.H.); (S.B.H.); (I.F.)
| | - Snorre Bekkevold Hagen
- Norwegian Institute of Bioeconomy Research, P.O. Box 115, 1431 Ås, Norway; (Ş.Ö.G.); (S.M.E.); (I.H.); (S.B.H.); (I.F.)
| | - Ida Fløystad
- Norwegian Institute of Bioeconomy Research, P.O. Box 115, 1431 Ås, Norway; (Ş.Ö.G.); (S.M.E.); (I.H.); (S.B.H.); (I.F.)
| | - Rupert Palme
- Department of Biomedical Sciences, University of Veterinary Medicine, Veterinärplatz 1, A-1210 Vienna, Austria;
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Thompson LM, Klütsch CFC, Manseau M, Wilson PJ. Spatial differences in genetic diversity and northward migration suggest genetic erosion along the boreal caribou southern range limit and continued range retraction. Ecol Evol 2019; 9:7030-7046. [PMID: 31380031 PMCID: PMC6662424 DOI: 10.1002/ece3.5269] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2018] [Revised: 04/24/2019] [Accepted: 04/26/2019] [Indexed: 11/12/2022] Open
Abstract
With increasing human activities and associated landscape changes, distributions of terrestrial mammals become fragmented. These changes in distribution are often associated with reduced population sizes and loss of genetic connectivity and diversity (i.e., genetic erosion) which may further diminish a species' ability to respond to changing environmental conditions and lead to local population extinctions. We studied threatened boreal caribou (Rangifer tarandus caribou) populations across their distribution in Ontario/Manitoba (Canada) to assess changes in genetic diversity and connectivity in areas of high and low anthropogenic activity. Using data from >1,000 caribou and nine microsatellite loci, we assessed population genetic structure, genetic diversity, and recent migration rates using a combination of network and population genetic analyses. We used Bayesian clustering analyses to identify population genetic structure and explored spatial and temporal variation in those patterns by assembling networks based on R ST and F ST as historical and contemporary genetic edge distances, respectively. The Bayesian clustering analyses identified broad-scale patterns of genetic structure and closely aligned with the R ST network. The F ST network revealed substantial contemporary genetic differentiation, particularly in areas presenting contemporary anthropogenic disturbances and habitat fragmentation. In general, relatively lower genetic diversity and greater genetic differentiation were detected along the southern range limit, differing from areas in the northern parts of the distribution. Moreover, estimation of migration rates suggested a northward movement of animals away from the southern range limit. The patterns of genetic erosion revealed in our study suggest ongoing range retraction of boreal caribou in central Canada.
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Affiliation(s)
- Laura M. Thompson
- Natural Resources DNA Profiling and Forensic CentreTrent UniversityPeterboroughOntarioCanada
- Present address:
U.S. Geological SurveyNational Climate Adaptation Science CenterRestonVirginia
| | - Cornelya F. C. Klütsch
- Natural Resources DNA Profiling and Forensic CentreTrent UniversityPeterboroughOntarioCanada
- Present address:
Division of Environmental Research in the Barents RegionNorwegian Institute of Bioeconomy Research (NIBIO)SvanvikNorway
| | - Micheline Manseau
- Natural Resources DNA Profiling and Forensic CentreTrent UniversityPeterboroughOntarioCanada
- Natural Resources InstituteUniversity of ManitobaWinnipegManitobaCanada
- Landscape Science and TechnologyEnvironment and Climate Change CanadaOttawaOntarioCanada
| | - Paul J. Wilson
- Natural Resources DNA Profiling and Forensic CentreTrent UniversityPeterboroughOntarioCanada
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Priadka P, Manseau M, Trottier T, Hervieux D, Galpern P, McLoughlin PD, Wilson PJ. Partitioning drivers of spatial genetic variation for a continuously distributed population of boreal caribou: Implications for management unit delineation. Ecol Evol 2019; 9:141-153. [PMID: 30680102 PMCID: PMC6342118 DOI: 10.1002/ece3.4682] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2018] [Revised: 09/25/2018] [Accepted: 10/14/2018] [Indexed: 12/31/2022] Open
Abstract
Isolation by distance (IBD) is a natural pattern not readily incorporated into theoretical models nor traditional metrics for differentiating populations, although clinal genetic differentiation can be characteristic of many wildlife species. Landscape features can also drive population structure additive to baseline IBD resulting in differentiation through isolation-by-resistance (IBR). We assessed the population genetic structure of boreal caribou across western Canada using nonspatial (STRUCTURE) and spatial (MEMGENE) clustering methods and investigated the relative contribution of IBD and IBR on genetic variation of 1,221 boreal caribou multilocus genotypes across western Canada. We further introduced a novel approach to compare the partitioning of individuals into management units (MU) and assessed levels of genetic connectivity under different MU scenarios. STRUCTURE delineated five genetic clusters while MEMGENE identified finer-scale differentiation across the study area. IBD was significant and did not differ for males and females both across and among detected genetic clusters. MEMGENE landscape analysis further quantified the proportion of genetic variation contributed by IBD and IBR patterns, allowing for the relative importance of spatial drivers, including roads, water bodies, and wildfires, to be assessed and incorporated into the characterization of population structure for the delineation of MUs. Local population units, as currently delineated in the boreal caribou recovery strategy, do not capture the genetic variation and connectivity of the ecotype across the study area. Here, we provide the tools to assess fine-scale spatial patterns of genetic variation, partition drivers of genetic variation, and evaluate the best management options for maintaining genetic connectivity. Our approach is highly relevant to vagile wildlife species that are of management and conservation concern and demonstrate varying degrees of IBD and IBR with clinal spatial genetic structure that challenges the delineation of discrete population boundaries.
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Affiliation(s)
- Pauline Priadka
- Natural Resources InstituteUniversity of ManitobaWinnipegManitobaCanada
| | - Micheline Manseau
- Natural Resources InstituteUniversity of ManitobaWinnipegManitobaCanada
- Landscape Science and Technology DivisionEnvironment and Climate Change CanadaOttawaOntarioCanada
- Biology DepartmentTrent UniversityPeterboroughOntarioCanada
| | - Tim Trottier
- Ministry of EnvironmentSaskatchewan GovernmentLa RongeSaskatchewanCanada
| | - Dave Hervieux
- Department of Environment and ParksAlberta GovernmentGrande Prairie, AlbertaCanada
| | - Paul Galpern
- Faculty of Environmental Design and Department of Biological SciencesUniversity of CalgaryCalgaryAlbertaCanada
| | | | - Paul J. Wilson
- Natural Resources InstituteUniversity of ManitobaWinnipegManitobaCanada
- Biology DepartmentTrent UniversityPeterboroughOntarioCanada
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16
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Weckworth BV, Hebblewhite M, Mariani S, Musiani M. Lines on a map: conservation units, meta‐population dynamics, and recovery of woodland caribou in Canada. Ecosphere 2018. [DOI: 10.1002/ecs2.2323] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023] Open
Affiliation(s)
- Byron V. Weckworth
- Faculty of Environmental Design University of Calgary 2500 University Dr NW Calgary Alberta T2N 1N4 Canada
| | - Mark Hebblewhite
- Wildlife Biology Program Department of Ecosystem and Conservation Sciences W.A. Franke College of Forestry and Conservation University of Montana 32 Campus drive Missoula Montana 59812 USA
| | - Stefano Mariani
- School of Environment and Life Science University of Salford Salford M5 4WT UK
| | - Marco Musiani
- Faculty of Science, Department of Biological Sciences and Faculty of Veterinary Medicine University of Calgary 2500 University Dr NW Calgary Alberta T2N 1N4 Canada
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17
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Horn RL, Marques AJD, Manseau M, Golding B, Klütsch CFC, Abraham K, Wilson PJ. Parallel evolution of site-specific changes in divergent caribou lineages. Ecol Evol 2018; 8:6053-6064. [PMID: 29988428 PMCID: PMC6024114 DOI: 10.1002/ece3.4154] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2018] [Revised: 04/06/2018] [Accepted: 04/09/2018] [Indexed: 12/15/2022] Open
Abstract
The parallel evolution of phenotypes or traits within or between species provides important insight into the basic mechanisms of evolution. Genetic and genomic advances have allowed investigations into the genetic underpinnings of parallel evolution and the independent evolution of similar traits in sympatric species. Parallel evolution may best be exemplified among species where multiple genetic lineages, descended from a common ancestor, colonized analogous environmental niches, and converged on a genotypic or phenotypic trait. Modern North American caribou (Rangifer tarandus) originated from three ancestral sources separated during the Last Glacial Maximum (LGM): the Beringian-Eurasian lineage (BEL), the North American lineage (NAL), and the High Arctic lineage (HAL). Historical introgression between the NAL and the BEL has been found throughout Ontario and eastern Manitoba. In this study, we first characterized the functional differentiation in the cytochrome-b (cytB) gene by identifying nonsynonymous changes. Second, the caribou lineages were used as a direct means to assess site-specific parallel changes among lineages. There was greater functional diversity within the NAL despite the BEL having greater neutral diversity. The patterns of amino acid substitutions occurring within different lineages supported the parallel evolution of cytB amino acid substitutions suggesting different selective pressures among lineages. This study highlights the independent evolution of identical amino acid substitutions within a wide-ranging mammal species that have diversified from different ancestral haplogroups and where ecological niches can invoke parallel evolution.
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Affiliation(s)
| | | | - Micheline Manseau
- Science and TechnologyEnvironment and Climate Change CanadaOttawaONCanada
- Natural Resources InstituteUniversity of ManitobaWinnipegMBCanada
| | - Brian Golding
- Department of BiologyMcMaster UniversityHamiltonONCanada
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18
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Ju Y, Liu H, Rong M, Zhang R, Dong Y, Zhou Y, Xing X. Genetic diversity and population genetic structure of the only population of Aoluguya Reindeer (Rangifer tarandus) in China. Mitochondrial DNA A DNA Mapp Seq Anal 2018; 30:24-29. [DOI: 10.1080/24701394.2018.1448081] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Affiliation(s)
- Yan Ju
- State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Animal and Plant Sciences of Chinese Academy of Agricultural Sciences, Changchun, China
| | - Huamiao Liu
- State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Animal and Plant Sciences of Chinese Academy of Agricultural Sciences, Changchun, China
| | - Min Rong
- State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Animal and Plant Sciences of Chinese Academy of Agricultural Sciences, Changchun, China
| | - Ranran Zhang
- State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Animal and Plant Sciences of Chinese Academy of Agricultural Sciences, Changchun, China
| | - Yimeng Dong
- State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Animal and Plant Sciences of Chinese Academy of Agricultural Sciences, Changchun, China
| | - Yongna Zhou
- State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Animal and Plant Sciences of Chinese Academy of Agricultural Sciences, Changchun, China
| | - Xiumei Xing
- State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Animal and Plant Sciences of Chinese Academy of Agricultural Sciences, Changchun, China
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