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Morgan AP, Hughes JJ, Didion JP, Jolley WJ, Campbell KJ, Threadgill DW, Bonhomme F, Searle JB, de Villena FPM. Population structure and inbreeding in wild house mice (Mus musculus) at different geographic scales. Heredity (Edinb) 2022; 129:183-194. [PMID: 35764696 PMCID: PMC9411160 DOI: 10.1038/s41437-022-00551-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2022] [Revised: 06/09/2022] [Accepted: 06/10/2022] [Indexed: 11/08/2022] Open
Abstract
House mice (Mus musculus) have spread globally as a result of their commensal relationship with humans. In the form of laboratory strains, both inbred and outbred, they are also among the most widely used model organisms in biomedical research. Although the general outlines of house mouse dispersal and population structure are well known, details have been obscured by either limited sample size or small numbers of markers. Here we examine ancestry, population structure, and inbreeding using SNP microarray genotypes in a cohort of 814 wild mice spanning five continents and all major subspecies of Mus, with a focus on M. m. domesticus. We find that the major axis of genetic variation in M. m. domesticus is a south-to-north gradient within Europe and the Mediterranean. The dominant ancestry component in North America, Australia, New Zealand, and various small offshore islands are of northern European origin. Next we show that inbreeding is surprisingly pervasive and highly variable, even between nearby populations. By inspecting the length distribution of homozygous segments in individual genomes, we find that inbreeding in commensal populations is mostly due to consanguinity. Our results offer new insight into the natural history of an important model organism for medicine and evolutionary biology.
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Affiliation(s)
- Andrew P Morgan
- Department of Genetics and Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC, USA.
- Department of Medicine, Duke University Hospital, Durham, NC, USA.
| | - Jonathan J Hughes
- Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, NY, USA
| | - John P Didion
- Department of Genetics and Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC, USA
- Independent Scientist, San Diego, CA, USA
| | | | | | - David W Threadgill
- Institute for Genome Sciences and Society, Texas A&M University, College Station, TX, USA
| | - Francois Bonhomme
- Institut des Sciences de l'Évolution Montpellier, Université de Montpellier, Montpellier, France
| | - Jeremy B Searle
- Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, NY, USA
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Fujiwara K, Kawai Y, Takada T, Shiroishi T, Saitou N, Suzuki H, Osada N. Insights into Mus musculus population structure across Eurasia revealed by whole-genome analysis. Genome Biol Evol 2022; 14:6582302. [PMID: 35524942 PMCID: PMC9122283 DOI: 10.1093/gbe/evac068] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 05/03/2022] [Indexed: 11/13/2022] Open
Abstract
For more than 100 years, house mice (Mus musculus) have been used as a key animal model in biomedical research. House mice are genetically diverse, yet their genetic background at the global level has not been fully understood. Previous studies have suggested that they originated in South Asia and diverged into three major subspecies, almost simultaneously, approximately 110,000–500,000 years ago; however, they have spread across the world with the migration of modern humans in prehistoric and historic times (∼10,000 years ago to the present day) and have undergone secondary contact, which has complicated the genetic landscape of wild house mice. In this study, we sequenced the whole-genome sequences of 98 wild house mice collected from Eurasia, particularly East Asia, Southeast Asia, and South Asia. Although wild house mice were found to consist of three major genetic groups corresponding to the three major subspecies, individuals representing admixtures between subspecies were more prevalent in East Asia than has been previously recognized. Furthermore, several samples exhibited an incongruent pattern of genealogies between mitochondrial and autosomal genomes. Using samples that likely retained the original genetic components of subspecies with the least admixture, we estimated the pattern and timing of divergence among the subspecies. The estimated divergence time of the three subspecies was 187,000–226,000 years ago. These results will help us to understand the genetic diversity of wild mice on a global scale, and the findings will be particularly useful in future biomedical and evolutionary studies involving laboratory mice established from such wild mice.
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Affiliation(s)
- Kazumichi Fujiwara
- Graduate School of Information Science and Technology, Hokkaido University, Sapporo, Japan.,Global Station for Big Data and Cybersecurity, GI-CoRE, Hokkaido University, Sapporo, Japan
| | - Yosuke Kawai
- Genome Medical Science Project (Toyama), National Center for Global Health and Medicine (NCGM), Tokyo, Japan
| | - Toyoyuki Takada
- Integrated BioResource Information Division, RIKEN BioResource Research Center, Tsukuba, Japan
| | | | - Naruya Saitou
- Population Genetics Laboratory, National Institute of Genetics, Mishima, Japan.,Faculty of Medicine, University of the Ryukyus, Okinawa, Japan
| | - Hitoshi Suzuki
- Graduate School of Environmental Science, Hokkaido University, Sapporo, Japan
| | - Naoki Osada
- Graduate School of Information Science and Technology, Hokkaido University, Sapporo, Japan.,Global Station for Big Data and Cybersecurity, GI-CoRE, Hokkaido University, Sapporo, Japan
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3
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The introduction and diversity of commensal rodents in 19th century Australasia. Biol Invasions 2022. [DOI: 10.1007/s10530-021-02717-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
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García-Rodríguez O, Hardouin EA, Hambleton E, Monteith J, Randall C, Richards MB, Edwards CJ, Stewart JR. Ancient mitochondrial DNA connects house mice in the British Isles to trade across Europe over three millennia. BMC Ecol Evol 2021; 21:9. [PMID: 33514313 PMCID: PMC7853306 DOI: 10.1186/s12862-021-01746-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2020] [Accepted: 01/13/2021] [Indexed: 12/03/2022] Open
Abstract
Background The earliest records in Britain for the western European house mouse (Mus musculus domesticus) date from the Late Bronze Age. The arrival of this commensal species in Britain is thought to be related to human transport and trade with continental Europe. In order to study this arrival, we collected a total of 16 ancient mouse mandibulae from four early British archaeological sites, ranging from the Late Bronze Age to the Roman period. Results From these, we obtained ancient mitochondrial DNA (mtDNA) house mouse sequences from eight house mice from two of the sites dating from the Late Bronze to Middle Iron Age. We also obtained five ancient mtDNA wood mouse (Apodemus spp.) sequences from all four sites. The ancient house mouse sequences found in this study were from haplogroups E (N = 6) and D (N = 2). Modern British house mouse mtDNA sequences are primarily characterised by haplogroups E and F and, much less commonly, haplogroup D. Conclusions The presence of haplogroups D and E in our samples and the dating of the archaeological sites provide evidence of an early house mouse colonisation that may relate to Late Bronze Age/Iron Age trade and/or human expansion. Our results confirm the hypothesis, based on zooarchaeological evidence and modern mtDNA predictions, that house mice, with haplogroups D and E, were established in Britain by the Iron Age and, in the case of haplogroup E, possibly as early as the Late Bronze Age.
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Affiliation(s)
- Oxala García-Rodríguez
- Faculty of Science and Technology, Bournemouth University, Christchurch House, Talbot Campus, Poole, BH12 5BB, Dorset, UK.
| | - Emilie A Hardouin
- Faculty of Science and Technology, Bournemouth University, Christchurch House, Talbot Campus, Poole, BH12 5BB, Dorset, UK
| | - Ellen Hambleton
- Faculty of Science and Technology, Bournemouth University, Christchurch House, Talbot Campus, Poole, BH12 5BB, Dorset, UK
| | - Jonathan Monteith
- Faculty of Science and Technology, Bournemouth University, Christchurch House, Talbot Campus, Poole, BH12 5BB, Dorset, UK
| | - Clare Randall
- Faculty of Science and Technology, Bournemouth University, Christchurch House, Talbot Campus, Poole, BH12 5BB, Dorset, UK
| | - Martin B Richards
- Department of Biological and Geographical Sciences, School of Applied Sciences, University of Huddersfield, Huddersfield, UK
| | - Ceiridwen J Edwards
- Department of Biological and Geographical Sciences, School of Applied Sciences, University of Huddersfield, Huddersfield, UK
| | - John R Stewart
- Faculty of Science and Technology, Bournemouth University, Christchurch House, Talbot Campus, Poole, BH12 5BB, Dorset, UK
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Chevret P, Hautier L, Ganem G, Herman J, Agret S, Auffray JC, Renaud S. Genetic structure in Orkney island mice: isolation promotes morphological diversification. Heredity (Edinb) 2020; 126:266-278. [PMID: 32980864 DOI: 10.1038/s41437-020-00368-8] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2020] [Revised: 09/04/2020] [Accepted: 09/04/2020] [Indexed: 11/09/2022] Open
Abstract
Following human occupation, the house mouse has colonised numerous islands, exposing the species to a wide variety of environments. Such a colonisation process, involving successive founder events and bottlenecks, may either promote random evolution or facilitate adaptation, making the relative importance of adaptive and stochastic processes in insular evolution difficult to assess. Here, we jointly analyse genetic and morphometric variation in the house mice (Mus musculus domesticus) from the Orkney archipelago. Genetic analyses, based on mitochondrial DNA and microsatellites, revealed considerable genetic structure within the archipelago, suggestive of a high degree of isolation and long-lasting stability of the insular populations. Morphometric analyses, based on a quantification of the shape of the first upper molar, revealed considerable differentiation compared to Western European populations, and significant geographic structure in Orkney, largely congruent with the pattern of genetic divergence. Morphological diversification in Orkney followed a Brownian motion model of evolution, suggesting a primary role for random drift over adaptation to local environments. Substantial structuring of human populations in Orkney has recently been demonstrated, mirroring the situation found here in house mice. This synanthropic species may thus constitute a bioproxy of human structure and practices even at a very local scale.
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Affiliation(s)
- Pascale Chevret
- Laboratoire de Biométrie et Biologie Evolutive, UMR 5558 CNRS Université Lyon 1, Université de Lyon, Campus de la Doua, 69100, Villeurbanne, France.
| | - Lionel Hautier
- Institut des Sciences de l'Evolution de Montpellier (ISEM), UMR 5554, Université de Montpellier, CNRS, EPHE, IRD, Montpellier, France
| | - Guila Ganem
- Institut des Sciences de l'Evolution de Montpellier (ISEM), UMR 5554, Université de Montpellier, CNRS, EPHE, IRD, Montpellier, France
| | - Jeremy Herman
- Department of Natural Sciences, National Museums Scotland, Chambers Street, Edinburgh, EH1 1JF, UK
| | - Sylvie Agret
- Institut des Sciences de l'Evolution de Montpellier (ISEM), UMR 5554, Université de Montpellier, CNRS, EPHE, IRD, Montpellier, France
| | - Jean-Christophe Auffray
- Institut des Sciences de l'Evolution de Montpellier (ISEM), UMR 5554, Université de Montpellier, CNRS, EPHE, IRD, Montpellier, France
| | - Sabrina Renaud
- Laboratoire de Biométrie et Biologie Evolutive, UMR 5558 CNRS Université Lyon 1, Université de Lyon, Campus de la Doua, 69100, Villeurbanne, France
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Mus musculus populations in Western Australia lack VKORC1 mutations conferring resistance to first generation anticoagulant rodenticides: Implications for conservation and biosecurity. PLoS One 2020; 15:e0236234. [PMID: 32970676 PMCID: PMC7513997 DOI: 10.1371/journal.pone.0236234] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2020] [Accepted: 08/18/2020] [Indexed: 11/28/2022] Open
Abstract
Background Humans routinely attempt to manage pest rodent populations with anticoagulant rodenticides (ARs). We require information on resistance to ARs within rodent populations to have effective eradication programs that minimise exposure in non-target species. Mutations to the VKORC1 gene have been shown to confer resistance in rodents with high proportions of resistance in mice found in all European populations tested. We screened mutations in Mus musculus within Western Australia, by sampling populations from the capital city (Perth) and a remote island (Browse Island). These are the first Australian mouse populations screened for resistance using this method. Additionally, the mitochondrial D-loop of house mice was sequenced to explore population genetic structure, identify the origin of Western Australian mice, and to elucidate whether resistance was linked to certain haplotypes. Results No resistance-related VKORC1 mutations were detected in either house mouse population. A genetic introgression in the intronic sequence of the VKORC1 gene of Browse Island house mouse was detected which is thought to have originated through hybridisation with the Algerian mouse (Mus spretus). Analysis of the mitochondrial D-loop reported two haplotypes in the house mouse population of Perth, and two haplotypes in the population of Browse Island. Conclusions Both house mouse populations exhibited no genetic resistance to ARs, in spite of free use of ARs in Western Australia. Therefore weaker anticoagulant rodenticides can be employed in pest control and eradication attempts, which will result in reduced negative impacts on non-target species. Biosecurity measures must be in place to avoid introduction of resistant house mice, and new house mouse subspecies to Western Australia.
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Souquet L, Chevret P, Ganem G, Auffray JC, Ledevin R, Agret S, Hautier L, Renaud S. Back to the wild: does feralization affect the mandible of non-commensal house mice (Mus musculus domesticus)? Biol J Linn Soc Lond 2019. [DOI: 10.1093/biolinnean/bly218] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Affiliation(s)
- Louise Souquet
- Laboratoire de Biométrie et Biologie Evolutive, UMR 5558, Université Claude Bernard Lyon, CNRS, Villeurbanne cedex, France
| | - Pascale Chevret
- Laboratoire de Biométrie et Biologie Evolutive, UMR 5558, Université Claude Bernard Lyon, CNRS, Villeurbanne cedex, France
| | - Guila Ganem
- Institut des Sciences de l’Evolution, Université de Montpellier, UMR 5554 CNRS, IRD, EPHE, Place Eugène Bataillon, Montpellier cedex, France
| | - Jean-Christophe Auffray
- Institut des Sciences de l’Evolution, Université de Montpellier, UMR 5554 CNRS, IRD, EPHE, Place Eugène Bataillon, Montpellier cedex, France
| | - Ronan Ledevin
- Laboratoire de Biométrie et Biologie Evolutive, UMR 5558, Université Claude Bernard Lyon, CNRS, Villeurbanne cedex, France
| | - Sylvie Agret
- Institut des Sciences de l’Evolution, Université de Montpellier, UMR 5554 CNRS, IRD, EPHE, Place Eugène Bataillon, Montpellier cedex, France
| | - Lionel Hautier
- Institut des Sciences de l’Evolution, Université de Montpellier, UMR 5554 CNRS, IRD, EPHE, Place Eugène Bataillon, Montpellier cedex, France
| | - Sabrina Renaud
- Laboratoire de Biométrie et Biologie Evolutive, UMR 5558, Université Claude Bernard Lyon, CNRS, Villeurbanne cedex, France
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Sargison N, Herman J, Pilkington J, Buckland P, Watt K, Chambers A, Chaudhry U. Molecular confirmation of Hymenolepis hibernia in field mice ( Apodemus sylvaticus) from St Kilda has potential to resolve a host-parasite relationship. INTERNATIONAL JOURNAL FOR PARASITOLOGY-PARASITES AND WILDLIFE 2018; 7:364-368. [PMID: 30302311 PMCID: PMC6174266 DOI: 10.1016/j.ijppaw.2018.09.007] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/18/2018] [Revised: 09/22/2018] [Accepted: 09/28/2018] [Indexed: 12/02/2022]
Abstract
Insular wildlife populations provide opportunities to examine biological questions in systems that are relatively closed and potentially tractable, striking examples being the long-term studies of ecology and evolution in the red deer and feral sheep populations on the Hebridean islands of Rum and St Kilda. In the case of parasitology, Understanding of parasitic infections insular wildlife populations in conjunction with knowledge of their origins has the potential to add a fresh perspective to disease control in humans and domestic animals. In the case of parasitology, understanding infections of insular wildlife populations, in conjunction with knowledge of their origins, has the potential to add a fresh perspective to disease control in humans and domestic animals. With this in mind, gross and molecular examination for the presence of cyclophyllidean tapeworms was performed on the viscera and rectal contents of 17 preserved specimens of Apodemus sylvaticus field mice and on the naturally voided faeces of a further four mice on the remote archipelago of St Kilda. Molecular speciation of hexacanth embryos extracted from the faeces of two mice, using nucleotide sequence analysis of the ribosomal cytochrome c-oxidase subunit-1, confirmed infection with Hymenolepis hibernia. Phylogenetic analysis showed that these were genetically distinct from Hymenolepis diminuta, previously reported in the insular A. sylvaticus mice, and from other published H. hibernia haplotypes. There was insufficient hymenolepidid tapeworm phylogeographic variation to resolve the origins of the co-evolved St Kilda mice, primarily due to a lack of published H. hibernia Cox-1 sequence data across the parasite's geographical range. Nevertheless, the Maximum Likelihood haplotype tree shows the potential for molecular parasitology to resolve a host-parasite relationship once more data become available. Morphological diagnostic features of zoonotic H. hibernia eggs are also described. First identification of Hymenolepis hibernia in Apodemus sylvaticus hirtensis mice. Molecular speciation of hexocanth eggs. Morphological description of Hymenolepis hibernia eggs. Maximum likelihood hymenolepidid tapeworm haplotype tree. Consideration of parasite origins and those of co-evolved hosts.
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Affiliation(s)
- Neil Sargison
- University of Edinburgh, Royal (Dick) School of Veterinary Studies and Roslin Institute, Easter Bush Veterinary Centre, Roslin, Midlothian, EH25 9RG, UK
| | - Jeremy Herman
- National Museums of Scotland, Natural Sciences Department, Chambers Street, Edinburgh, EH1 1JF, UK
| | - Jill Pilkington
- University of Edinburgh, Institute of Evolutionary Biology, Ashworth Laboratories, Kings Buildings, West Mains Road, Edinburgh, EH9 3JT, UK
| | - Peter Buckland
- University of Edinburgh, Royal (Dick) School of Veterinary Studies and Roslin Institute, Easter Bush Veterinary Centre, Roslin, Midlothian, EH25 9RG, UK
| | - Kathryn Watt
- University of Edinburgh, Institute of Evolutionary Biology, Ashworth Laboratories, Kings Buildings, West Mains Road, Edinburgh, EH9 3JT, UK
| | - Alex Chambers
- University of Edinburgh, Royal (Dick) School of Veterinary Studies and Roslin Institute, Easter Bush Veterinary Centre, Roslin, Midlothian, EH25 9RG, UK.,University of Edinburgh, Institute of Evolutionary Biology, Ashworth Laboratories, Kings Buildings, West Mains Road, Edinburgh, EH9 3JT, UK
| | - Umer Chaudhry
- University of Edinburgh, Royal (Dick) School of Veterinary Studies and Roslin Institute, Easter Bush Veterinary Centre, Roslin, Midlothian, EH25 9RG, UK
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Veale AJ, Russell JC, King CM. The genomic ancestry, landscape genetics and invasion history of introduced mice in New Zealand. ROYAL SOCIETY OPEN SCIENCE 2018; 5:170879. [PMID: 29410804 PMCID: PMC5792881 DOI: 10.1098/rsos.170879] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/11/2017] [Accepted: 12/15/2017] [Indexed: 06/07/2023]
Abstract
The house mouse (Mus musculus) provides a fascinating system for studying both the genomic basis of reproductive isolation, and the patterns of human-mediated dispersal. New Zealand has a complex history of mouse invasions, and the living descendants of these invaders have genetic ancestry from all three subspecies, although most are primarily descended from M. m. domesticus. We used the GigaMUGA genotyping array (approximately 135 000 loci) to describe the genomic ancestry of 161 mice, sampled from 34 locations from across New Zealand (and one Australian city-Sydney). Of these, two populations, one in the south of the South Island, and one on Chatham Island, showed complete mitochondrial lineage capture, featuring two different lineages of M. m. castaneus mitochondrial DNA but with only M. m. domesticus nuclear ancestry detectable. Mice in the northern and southern parts of the North Island had small traces (approx. 2-3%) of M. m. castaneus nuclear ancestry, and mice in the upper South Island had approximately 7-8% M. m. musculus nuclear ancestry including some Y-chromosomal ancestry-though no detectable M. m. musculus mitochondrial ancestry. This is the most thorough genomic study of introduced populations of house mice yet conducted, and will have relevance to studies of the isolation mechanisms separating subspecies of mice.
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Affiliation(s)
- Andrew J. Veale
- Department of Environmental and Animal Sciences, Unitec, 139 Carrington Road, Auckland 1025, New Zealand
| | - James C. Russell
- School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland Mail Centre, Auckland 1142, New Zealand
| | - Carolyn M. King
- Environmental Research Institute, School of Science, University of Waikato, Private Bag 2105, Hamilton 3240, New Zealand
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10
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Vallier M, Abou Chakra M, Hindersin L, Linnenbrink M, Traulsen A, Baines JF. Evaluating the maintenance of disease-associated variation at the blood group-related gene B4galnt2 in house mice. BMC Evol Biol 2017; 17:187. [PMID: 28806915 PMCID: PMC5557512 DOI: 10.1186/s12862-017-1035-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2017] [Accepted: 08/04/2017] [Indexed: 11/16/2022] Open
Abstract
Background B4galnt2 is a blood group-related glycosyltransferase that displays cis-regulatory variation for its tissue-specific expression patterns in house mice. The wild type allele, found e.g. in the C57BL/6 J strain, directs intestinal expression of B4galnt2, which is the pattern observed among vertebrates, including humans. An alternative allele class found in the RIIIS/J strain and other mice instead drives expression in blood vessels, which leads to a phenotype similar to type 1 von Willebrand disease (VWD), a common human bleeding disorder. We previously showed that alternative B4galnt2 alleles are subject to long-term balancing selection in mice and that variation in B4galnt2 expression influences host-microbe interactions in the intestine. This suggests that the costs of prolonged bleeding in RIIIS/J allele-bearing mice might be outweighed by benefits associated with resistance against gastrointestinal pathogens. However, the conditions under which such trade-offs could lead to the long-term maintenance of disease-associated variation at B4galnt2 are unclear. Results To explore the persistence of B4galnt2 alleles in wild populations of house mice, we combined B4galnt2 haplotype frequency data together with a mathematical model based on an evolutionary game framework with a modified Wright-Fisher process. In particular, given the potential for a heterozygote advantage as a possible explanation for balancing selection, we focused on heterozygous mice, which express B4galnt2 in both blood vessels and the gastrointestinal tract. We show that B4galnt2 displays an interesting spatial allelic distribution in Western Europe, likely due to the recent action of natural selection. Moreover, we found that the genotype frequencies observed in nature can be produced by pathogen-driven selection when both heterozygotes and RIIIS/J homozygotes are protected against infection and the fitness cost of bleeding is roughly half that of infection. Conclusion By comparing the results of our models to the patterns of polymorphism at B4galnt2 in natural populations, we are able to recognize the long-term maintenance of the RIIIS/J allele through host-pathogen interactions as a viable hypothesis. Further, our models identify that a putative dominant-, yet unknown protective function of the RIIIS/J allele appears to be more likely than a protective loss of intestinal B4galnt2 expression in RIIIS/J homozygotes. Electronic supplementary material The online version of this article (doi:10.1186/s12862-017-1035-7) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Marie Vallier
- Max Planck Institute for Evolutionary Biology, Evolutionary Genomics, Plön, Germany.,Institute for Experimental Medicine, Section of Evolutionary Medicine, Christian-Albrechts-University of Kiel, Kiel, Germany
| | - Maria Abou Chakra
- Max Planck Institute for Evolutionary Biology, Evolutionary Theory, Plön, Germany.,Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Canada
| | - Laura Hindersin
- Max Planck Institute for Evolutionary Biology, Evolutionary Theory, Plön, Germany
| | - Miriam Linnenbrink
- Max Planck Institute for Evolutionary Biology, Evolutionary Genomics, Plön, Germany
| | - Arne Traulsen
- Max Planck Institute for Evolutionary Biology, Evolutionary Theory, Plön, Germany
| | - John F Baines
- Max Planck Institute for Evolutionary Biology, Evolutionary Genomics, Plön, Germany. .,Institute for Experimental Medicine, Section of Evolutionary Medicine, Christian-Albrechts-University of Kiel, Kiel, Germany.
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Genetic structure and invasion history of the house mouse (Mus musculus domesticus) in Senegal, West Africa: a legacy of colonial and contemporary times. Heredity (Edinb) 2017; 119:64-75. [PMID: 28353686 DOI: 10.1038/hdy.2017.18] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2016] [Revised: 02/24/2017] [Accepted: 02/25/2017] [Indexed: 02/07/2023] Open
Abstract
Knowledge of the genetic make-up and demographic history of invasive populations is critical to understand invasion mechanisms. Commensal rodents are ideal models to study whether complex invasion histories are typical of introductions involving human activities. The house mouse Mus musculus domesticus is a major invasive synanthropic rodent originating from South-West Asia. It has been largely studied in Europe and on several remote islands, but the genetic structure and invasion history of this taxon have been little investigated in several continental areas, including West Africa. In this study, we focussed on invasive populations of M. m. domesticus in Senegal. In this focal area for European settlers, the distribution area and invasion spread of the house mouse is documented by decades of data on commensal rodent communities. Genetic variation at one mitochondrial locus and 16 nuclear microsatellite markers was analysed from individuals sampled in 36 sites distributed across the country. A combination of phylogeographic and population genetics methods showed that there was a single introduction event on the northern coast of Senegal, from an exogenous (probably West European) source, followed by a secondary introduction from northern Senegal into a coastal site further south. The geographic locations of these introduction sites were consistent with the colonial history of Senegal. Overall, the marked microsatellite genetic structure observed in Senegal, even between sites located close together, revealed a complex interplay of different demographic processes occurring during house mouse spatial expansion, including sequential founder effects and stratified dispersal due to human transport along major roads.
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12
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Maltsev AN, Stakheev VV, Kotenkova EV. Role of invasions in formation of phylogeographic structure of house mouse (Mus musculus) in some areas of Russia and the near abroad. RUSSIAN JOURNAL OF BIOLOGICAL INVASIONS 2016. [DOI: 10.1134/s2075111716030061] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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13
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How genetics, history and geography limit potential explanations of invasions by house mice Mus musculus in New Zealand. Biol Invasions 2016. [DOI: 10.1007/s10530-016-1099-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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14
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What can the geographic distribution of mtDNA haplotypes tell us about the invasion of New Zealand by house mice Mus musculus? Biol Invasions 2016. [DOI: 10.1007/s10530-016-1100-y] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Haniza MZH, Adams S, Jones EP, MacNicoll A, Mallon EB, Smith RH, Lambert MS. Large-scale structure of brown rat (Rattus norvegicus) populations in England: effects on rodenticide resistance. PeerJ 2015; 3:e1458. [PMID: 26664802 PMCID: PMC4675108 DOI: 10.7717/peerj.1458] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2013] [Accepted: 11/10/2015] [Indexed: 11/20/2022] Open
Abstract
The brown rat (Rattus norvegicus) is a relatively recent (<300 years) addition to the British fauna, but by association with negative impacts on public health, animal health and agriculture, it is regarded as one of the most important vertebrate pest species. Anticoagulant rodenticides were introduced for brown rat control in the 1950s and are widely used for rat control in the UK, but long-standing resistance has been linked to control failures in some regions. One thus far ignored aspect of resistance biology is the population structure of the brown rat. This paper investigates the role population structure has on the development of anticoagulant resistance. Using mitochondrial and microsatellite DNA, we examined 186 individuals (from 15 counties in England and one location in Wales near the Wales–England border) to investigate the population structure of rural brown rat populations. We also examined individual rats for variations of the VKORC1 gene previously associated with resistance to anticoagulant rodenticides. We show that the populations were structured to some degree, but that this was only apparent in the microsatellite data and not the mtDNA data. We discuss various reasons why this is the case. We show that the population as a whole appears not to be at equilibrium. The relative lack of diversity in the mtDNA sequences examined can be explained by founder effects and a subsequent spatial expansion of a species introduced to the UK relatively recently. We found there was a geographical distribution of resistance mutations, and relatively low rate of gene flow between populations, which has implications for the development and management of anticoagulant resistance.
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Affiliation(s)
- Mohd Z H Haniza
- Faculty of Science and Mathematics, Universiti Pendidikan Sultan Idris , Tanjung Malim Perak , Malaysia
| | - Sally Adams
- School of Life Sciences, University of Warwick , Coventry , United Kingdom
| | | | | | - Eamonn B Mallon
- Department of Genetics, University of Leicester , Leicester , United Kingdom
| | - Robert H Smith
- School of Applied Sciences, University of Huddersfield , Huddersfield , United Kingdom
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Renaud S, Dufour AB, Hardouin EA, Ledevin R, Auffray JC. Once upon Multivariate Analyses: When They Tell Several Stories about Biological Evolution. PLoS One 2015; 10:e0132801. [PMID: 26192946 PMCID: PMC4507858 DOI: 10.1371/journal.pone.0132801] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2014] [Accepted: 06/19/2015] [Indexed: 01/09/2023] Open
Abstract
Geometric morphometrics aims to characterize of the geometry of complex traits. It is therefore by essence multivariate. The most popular methods to investigate patterns of differentiation in this context are (1) the Principal Component Analysis (PCA), which is an eigenvalue decomposition of the total variance-covariance matrix among all specimens; (2) the Canonical Variate Analysis (CVA, a.k.a. linear discriminant analysis (LDA) for more than two groups), which aims at separating the groups by maximizing the between-group to within-group variance ratio; (3) the between-group PCA (bgPCA) which investigates patterns of between-group variation, without standardizing by the within-group variance. Standardizing within-group variance, as performed in the CVA, distorts the relationships among groups, an effect that is particularly strong if the variance is similarly oriented in a comparable way in all groups. Such shared direction of main morphological variance may occur and have a biological meaning, for instance corresponding to the most frequent standing genetic variation in a population. Here we undertake a case study of the evolution of house mouse molar shape across various islands, based on the real dataset and simulations. We investigated how patterns of main variance influence the depiction of among-group differentiation according to the interpretation of the PCA, bgPCA and CVA. Without arguing about a method performing ‘better’ than another, it rather emerges that working on the total or between-group variance (PCA and bgPCA) will tend to put the focus on the role of direction of main variance as line of least resistance to evolution. Standardizing by the within-group variance (CVA), by dampening the expression of this line of least resistance, has the potential to reveal other relevant patterns of differentiation that may otherwise be blurred.
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Affiliation(s)
- Sabrina Renaud
- Laboratoire de Biométrie et Biologie Evolutive, UMR5558, CNRS, University Lyon 1, 69622 Villeurbanne, France
- * E-mail:
| | - Anne-Béatrice Dufour
- Laboratoire de Biométrie et Biologie Evolutive, UMR5558, CNRS, University Lyon 1, 69622 Villeurbanne, France
| | - Emilie A. Hardouin
- Max Planck Institute of Evolutionary Biology, August-Thienemann-Str. 2, Plön, Germany
- Faculty of Science and Technology, Bournemouth University, Christchurch House, Talbot Campus, Poole, Dorset, United Kingdom
| | - Ronan Ledevin
- Laboratoire de Biométrie et Biologie Evolutive, UMR5558, CNRS, University Lyon 1, 69622 Villeurbanne, France
| | - Jean-Christophe Auffray
- Institut des Sciences de l’Evolution de Montpellier, UMR 5554, CNRS, University Montpellier 2, Montpellier, France
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17
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Jones EP, Searle JB. Differing Y chromosome versus mitochondrial DNA ancestry, phylogeography, and introgression in the house mouse. Biol J Linn Soc Lond 2015. [DOI: 10.1111/bij.12522] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Eleanor P. Jones
- Population Biology and Conservation Biology; Evolutionary Biology Centre; University of Uppsala; Uppsala Sweden
- Food and Environment Research Agency; Sand Hutton York YO41 1LZ UK
| | - Jeremy B. Searle
- Department of Ecology and Evolutionary Biology; Cornell University; Ithaca NY 14853 USA
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18
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Hardouin EA, Orth A, Teschke M, Darvish J, Tautz D, Bonhomme F. Eurasian house mouse (Mus musculus L.) differentiation at microsatellite loci identifies the Iranian plateau as a phylogeographic hotspot. BMC Evol Biol 2015; 15:26. [PMID: 25888407 PMCID: PMC4342898 DOI: 10.1186/s12862-015-0306-4] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2014] [Accepted: 02/12/2015] [Indexed: 02/06/2023] Open
Abstract
Background The phylogeography of the house mouse (Mus musculus L.), an emblematic species for genetic and biomedical studies, is only partly understood, essentially because of a sampling bias towards its most peripheral populations in Europe, Asia and the Americas. Moreover, the present-day phylogeographic hypotheses stem mostly from the study of mitochondrial lineages. In this article, we complement the mtDNA studies with a comprehensive survey of nuclear markers (19 microsatellite loci) typed in 963 individuals from 47 population samples, with an emphasis on the putative Middle-Eastern centre of dispersal of the species. Results Based on correspondence analysis, distance and allele-sharing trees, we find a good coherence between geographical origin and genetic make-up of the populations. We thus confirm the clear distinction of the three best described peripheral subspecies, M. m. musculus, M. m. domesticus and M. m. castaneus. A large diversity was found in the Iranian populations, which have had an unclear taxonomic status to date. In addition to samples with clear affiliation to M. m. musculus and M. m. domesticus, we find two genetic groups in Central and South East Iran, which are as distinct from each other as they are from the south-east Asian M. m. castaneus. These groups were previously also found to harbor distinct mitochondrial haplotypes. Conclusion We propose that the Iranian plateau is home to two more taxonomic units displaying complex primary and secondary relationships with their long recognized neighbours. This central region emerges as the area with the highest known diversity of mouse lineages within a restricted geographical area, designating it as the focal place to study the mechanisms of speciation and diversification of this species. Electronic supplementary material The online version of this article (doi:10.1186/s12862-015-0306-4) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Emilie A Hardouin
- Max Planck Institute of Evolutionary Biology, Department of Evolutionary Genetics, August-Thienemann-Str. 2, 24306, Plön, Germany. .,Department of Life and Environmental Sciences, Faculty of Science and Technology, Bournemouth University, Christchurch House, Talbot Campus, Poole, Dorset, BH12 5BB, UK.
| | - Annie Orth
- Institut des Sciences de l'Evolution, CNRS, IRD, EPHE, Université de Montpellier, Pl. E. Bataillon, 34095, Montpellier, France.
| | - Meike Teschke
- Max Planck Institute of Evolutionary Biology, Department of Evolutionary Genetics, August-Thienemann-Str. 2, 24306, Plön, Germany.
| | - Jamshid Darvish
- Rodentology Research group, Ferdowsi University of Mashhad, Mashhad, Iran.
| | - Diethard Tautz
- Max Planck Institute of Evolutionary Biology, Department of Evolutionary Genetics, August-Thienemann-Str. 2, 24306, Plön, Germany.
| | - François Bonhomme
- Institut des Sciences de l'Evolution, CNRS, IRD, EPHE, Université de Montpellier, Pl. E. Bataillon, 34095, Montpellier, France.
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Gabriel SI, Mathias ML, Searle JB. Of mice and the 'Age of Discovery': the complex history of colonization of the Azorean archipelago by the house mouse (Mus musculus) as revealed by mitochondrial DNA variation. J Evol Biol 2014; 28:130-45. [PMID: 25394749 DOI: 10.1111/jeb.12550] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2012] [Revised: 11/02/2014] [Accepted: 11/10/2014] [Indexed: 11/30/2022]
Abstract
Humans have introduced many species onto remote oceanic islands. The house mouse (Mus musculus) is a human commensal and has consequently been transported to oceanic islands around the globe as an accidental stowaway. The history of these introductions can tell us not only about the mice themselves but also about the people that transported them. Following a phylogeographic approach, we used mitochondrial D-loop sequence variation (within an 849- to 864-bp fragment) to study house mouse colonization of the Azores. A total of 239 sequences were obtained from all nine islands, and interpretation was helped by previously published Iberian sequences and 66 newly generated Spanish sequences. A Bayesian analysis revealed presence in the Azores of most of the D-loop clades previously described in the domesticus subspecies of the house mouse, suggesting a complex colonization history of the archipelago as a whole from multiple geographical origins, but much less heterogeneity (often single colonization?) within islands. The expected historical link with mainland Portugal was reflected in the pattern of D-loop variation of some of the islands but not all. A more unexpected association with a distant North European source area was also detected in three islands, possibly reflecting human contact with the Azores prior to the 15th century discovery by Portuguese mariners. Widening the scope to colonization of the Macaronesian islands as a whole, human linkages between the Azores, Madeira, the Canaries, Portugal and Spain were revealed through the sharing of mouse sequences between these areas. From these and other data, we suggest mouse studies may help resolve historical uncertainties relating to the 'Age of Discovery'.
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Affiliation(s)
- S I Gabriel
- CESAM - Centre for Environmental and Marine Studies, Departamento de Biologia Animal, Faculdade de Ciências da Universidade de Lisboa, Lisbon, Portugal; Department of Biology, University of York, York, UK
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20
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Gray MM, Wegmann D, Haasl RJ, White MA, Gabriel SI, Searle JB, Cuthbert RJ, Ryan PG, Payseur BA. Demographic history of a recent invasion of house mice on the isolated Island of Gough. Mol Ecol 2014; 23:1923-39. [PMID: 24617968 PMCID: PMC4086876 DOI: 10.1111/mec.12715] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2013] [Revised: 02/24/2014] [Accepted: 02/26/2014] [Indexed: 02/05/2023]
Abstract
Island populations provide natural laboratories for studying key contributors to evolutionary change, including natural selection, population size and the colonization of new environments. The demographic histories of island populations can be reconstructed from patterns of genetic diversity. House mice (Mus musculus) inhabit islands throughout the globe, making them an attractive system for studying island colonization from a genetic perspective. Gough Island, in the central South Atlantic Ocean, is one of the remotest islands in the world. House mice were introduced to Gough Island by sealers during the 19th century and display unusual phenotypes, including exceptionally large body size and carnivorous feeding behaviour. We describe genetic variation in Gough Island mice using mitochondrial sequences, nuclear sequences and microsatellites. Phylogenetic analysis of mitochondrial sequences suggested that Gough Island mice belong to Mus musculus domesticus, with the maternal lineage possibly originating in England or France. Cluster analyses of microsatellites revealed genetic membership for Gough Island mice in multiple coastal populations in Western Europe, suggesting admixed ancestry. Gough Island mice showed substantial reductions in mitochondrial and nuclear sequence variation and weak reductions in microsatellite diversity compared with Western European populations, consistent with a population bottleneck. Approximate Bayesian computation (ABC) estimated that mice recently colonized Gough Island (~100 years ago) and experienced a 98% reduction in population size followed by a rapid expansion. Our results indicate that the unusual phenotypes of Gough Island mice evolved rapidly, positioning these mice as useful models for understanding rapid phenotypic evolution.
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Affiliation(s)
- Melissa M. Gray
- Laboratory of Genetics, University of Wisconsin, Madison, WI 53706 USA
| | - Daniel Wegmann
- Department of Biology, University of Fribourg, Fribourg, Switzerland
| | - Ryan J. Haasl
- Laboratory of Genetics, University of Wisconsin, Madison, WI 53706 USA
| | - Michael A. White
- Laboratory of Genetics, University of Wisconsin, Madison, WI 53706 USA
- Divisions of Human Biology and Basic Sciences, Fred Hutchinson Cancer Research Center, Seattle, WA 98109 USA
| | - Sofia I. Gabriel
- Centre for Environmental and Marine Studies, Departamento de Biologia Animal, Faculdade de Ciências da Universidade de Lisboa, 1749–016 Lisbon, Portugal
| | - Jeremy B. Searle
- Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, NY 14853-2701 USA
| | - Richard J. Cuthbert
- Royal Society for the Protection of Birds, The Lodge, Sandy, Bedfordshire, UK
| | - Peter G. Ryan
- Percy FitzPatrick Institute of African Ornithology, University of Cape Town, DST/NRF Centre of Excellence, Rondebosch 7701 South Africa
| | - Bret A. Payseur
- Laboratory of Genetics, University of Wisconsin, Madison, WI 53706 USA
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21
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Cucchi T, Kovács ZE, Berthon R, Orth A, Bonhomme F, Evin A, Siahsarvie R, Darvish J, Bakhshaliyev V, Marro C. On the trail of Neolithic mice and men towards Transcaucasia: zooarchaeological clues from Nakhchivan (Azerbaijan). Biol J Linn Soc Lond 2013. [DOI: 10.1111/bij.12004] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
| | - Zsófia Eszter Kovács
- Hungarian National Museum; National Heritage Protection Centre; Budapest; Hungary
| | | | - Annie Orth
- CNRS UMR5554; Institut des Sciences de l'Evolution; Université Montpellier 2; Montpellier; France
| | - François Bonhomme
- CNRS UMR5554; Institut des Sciences de l'Evolution; Université Montpellier 2; Montpellier; France
| | - Allowen Evin
- Archaeology Department; University of Aberdeen; Elphinstone Road, Aberdeen, AB24 3UF; Scotland; UK
| | | | | | - Veli Bakhshaliyev
- Department of Archaeology; National Academy of Science of Azerbaijan; Nakhchivan; Azerbaijan
| | - Catherine Marro
- UMR 5133, Archéorient, Environnements et Sociétés de l'Orient Ancien; Maison de l'Orient et de la Méditerranée; CNRS, Université Lyon 2; Lyon; France
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22
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Jones EP, Eager HM, Gabriel SI, Jóhannesdóttir F, Searle JB. Genetic tracking of mice and other bioproxies to infer human history. Trends Genet 2013; 29:298-308. [PMID: 23290437 DOI: 10.1016/j.tig.2012.11.011] [Citation(s) in RCA: 60] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2012] [Revised: 11/13/2012] [Accepted: 11/29/2012] [Indexed: 10/27/2022]
Abstract
The long-distance movements made by humans through history are quickly erased by time but can be reconstructed by studying the genetic make-up of organisms that travelled with them. The phylogeography of the western house mouse (Mus musculus domesticus), whose current widespread distribution around the world has been caused directly by the movements of (primarily) European people, has proved particularly informative in a series of recent studies. The geographic distributions of genetic lineages in this commensal have been linked to the Iron Age movements within the Mediterranean region and Western Europe, the extensive maritime activities of the Vikings in the 9th to 11th centuries, and the colonisation of distant landmasses and islands by the Western European nations starting in the 15th century. We review here recent insights into human history based on phylogeographic studies of mice and other species that have travelled with humans, and discuss how emerging genomic methodologies will increase the precision of these inferences.
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Affiliation(s)
- Eleanor P Jones
- Mammal Research Institute, Polish Academy of Sciences, 17-230 Białowieża, Poland
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23
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Macholán M, Vyskočilová MM, Bejček V, Šťastný K. Mitochondrial DNA sequence variation and evolution of Old World house mice (Mus musculus). FOLIA ZOOLOGICA 2012. [DOI: 10.25225/fozo.v61.i3.a12.2012] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Affiliation(s)
- Miloš Macholán
- Laboratory of Mammalian Evolutionary Genetics, Institute of Animal Physiology and Genetics, Academy of Sciences of the Czech Republic, v.v.i., Veveří 97, 602 00 Brno, Czech Republic
| | - Martina Mrkvicová Vyskočilová
- Laboratory of Mammalian Evolutionary Genetics, Institute of Animal Physiology and Genetics, Academy of Sciences of the Czech Republic, v.v.i., Veveří 97, 602 00 Brno, Czech Republic
| | - Vladimír Bejček
- Department of Ecology, Faculty of Environmental Sciences, Czech University of Life Sciences, Kamýcká 129, 165 21 Prague, Czech Republic
| | - Karel Šťastný
- Department of Ecology, Faculty of Environmental Sciences, Czech University of Life Sciences, Kamýcká 129, 165 21 Prague, Czech Republic
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24
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Rajabi-Maham H, Orth A, Siahsarvie R, Boursot P, Darvish J, Bonhomme F. The south-eastern house mouse Mus musculus castaneus (Rodentia: Muridae) is a polytypic subspecies. Biol J Linn Soc Lond 2012. [DOI: 10.1111/j.1095-8312.2012.01957.x] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Hassan Rajabi-Maham
- Department of Animal Biology; Faculty of Biological Sciences; Shahid Beheshti University; G.C., velenjak; Tehran; 19839-63113; Iran
| | - Annie Orth
- Institut des Sciences de l'Evolution; ISEM; CNRS UMR 5554, CC 063, Université Montpellier 2, Place E. Bataillon; 34095; Montpellier; France
| | | | - Pierre Boursot
- Institut des Sciences de l'Evolution; ISEM; CNRS UMR 5554, CC 063, Université Montpellier 2, Place E. Bataillon; 34095; Montpellier; France
| | - Jamshid Darvish
- Rodentology Research Department; Ferdowsi University of Mashhad; Mashhad; 91775-1436; Iran
| | - François Bonhomme
- Institut des Sciences de l'Evolution; ISEM; CNRS UMR 5554, CC 063, Université Montpellier 2, Place E. Bataillon; 34095; Montpellier; France
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25
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Chan Y, Jones F, McConnell E, Bryk J, Bünger L, Tautz D. Parallel Selection Mapping Using Artificially Selected Mice Reveals Body Weight Control Loci. Curr Biol 2012; 22:794-800. [DOI: 10.1016/j.cub.2012.03.011] [Citation(s) in RCA: 46] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2012] [Revised: 02/17/2012] [Accepted: 03/05/2012] [Indexed: 12/21/2022]
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26
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Kambe Y, Nakata K, Yasuda SP, Suzuki H. Genetic characterization of Okinawan black rats showing coat color polymorphisms of white spotting and melanism. Genes Genet Syst 2012; 87:29-38. [PMID: 22531792 DOI: 10.1266/ggs.87.29] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
Abstract
We examined pelage color variation in wild populations of black rats (the Rattus rattus species complex) in the Yambaru forest area, northern Okinawa Island, Ryukyu Archipelago, Japan. Our field study revealed that 8.7% (38/438) and 0.2% (4/2500) of rats exhibited two types of coat color: white spotting and melanism, respectively. Using 34 representative animals, the phylogeography of the population was inferred using a nuclear gene marker, i.e., sequences (954 bp) of the melanocortin-1 receptor (Mc1r) gene responsible for the melanistic form in black rats. Four sequences from Okinawa were characterized as R. tanezumi, the Asian strain of black rat. Notably, neither of the phenotypic characters of white spotting or melanism was associated with the Mc1r haplotypes. Analysis of mitochondrial cytochrome b (Cytb) sequences (1140 bp) revealed that four haplotypes recovered from Okinawa clustered with the clade of R. tanezumi and differed by one or more bases from haplotypes at other localities in Japan and Asian countries. Thus, both variants may have arisen in the native rat population of Okinawa without interaction with the lineage of R. rattus, which exhibits a worldwide distribution and displays such coat color variants. The Yambaru population of black rats has thus experienced its own evolutionary history in allopatry for a substantial period of time (e.g., 10,000 years), which has preserved valuable genetic polymorphisms and will be useful for assessing the ecological consequences of genetic variation in natural populations.
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Affiliation(s)
- Yoshikazu Kambe
- Division of Bioscience, Graduate School of Environmental Earth Science, Hokkaido University, Sapporo, Japan
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27
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Jones EP, Skirnisson K, McGovern TH, Gilbert MTP, Willerslev E, Searle JB. Fellow travellers: a concordance of colonization patterns between mice and men in the North Atlantic region. BMC Evol Biol 2012; 12:35. [PMID: 22429664 PMCID: PMC3315747 DOI: 10.1186/1471-2148-12-35] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2011] [Accepted: 03/19/2012] [Indexed: 11/15/2022] Open
Abstract
Background House mice (Mus musculus) are commensals of humans and therefore their phylogeography can reflect human colonization and settlement patterns. Previous studies have linked the distribution of house mouse mitochondrial (mt) DNA clades to areas formerly occupied by the Norwegian Vikings in Norway and the British Isles. Norwegian Viking activity also extended further westwards in the North Atlantic with the settlement of Iceland, short-lived colonies in Greenland and a fleeting colony in Newfoundland in 1000 AD. Here we investigate whether house mouse mtDNA sequences reflect human history in these other regions as well. Results House mice samples from Iceland, whether from archaeological Viking Age material or from modern-day specimens, had an identical mtDNA haplotype to the clade previously linked with Norwegian Vikings. From mtDNA and microsatellite data, the modern-day Icelandic mice also share the low genetic diversity shown by their human hosts on Iceland. Viking Age mice from Greenland had an mtDNA haplotype deriving from the Icelandic haplotype, but the modern-day Greenlandic mice belong to an entirely different mtDNA clade. We found no genetic association between modern Newfoundland mice and the Icelandic/ancient Greenlandic mice (no ancient Newfoundland mice were available). The modern day Icelandic and Newfoundland mice belong to the subspecies M. m. domesticus, the Greenlandic mice to M. m. musculus. Conclusions In the North Atlantic region, human settlement history over a thousand years is reflected remarkably by the mtDNA phylogeny of house mice. In Iceland, the mtDNA data show the arrival and continuity of the house mouse population to the present day, while in Greenland the data suggest the arrival, subsequent extinction and recolonization of house mice - in both places mirroring the history of the European human host populations. If house mice arrived in Newfoundland with the Viking settlers at all, then, like the humans, their presence was also fleeting and left no genetic trace. The continuity of mtDNA haplotype in Iceland over 1000 years illustrates that mtDNA can retain the signature of the ancestral house mouse founders. We also show that, in terms of genetic variability, house mouse populations may also track their host human populations.
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Affiliation(s)
- E P Jones
- Department of Biology, University of York, PO Box 373, York YO10 5YW, UK.
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28
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Gabriel SI, Stevens MI, Mathias MDL, Searle JB. Of mice and 'convicts': origin of the Australian house mouse, Mus musculus. PLoS One 2011; 6:e28622. [PMID: 22174847 PMCID: PMC3236204 DOI: 10.1371/journal.pone.0028622] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2011] [Accepted: 11/11/2011] [Indexed: 11/18/2022] Open
Abstract
The house mouse, Mus musculus, is one of the most ubiquitous invasive species worldwide and in Australia is particularly common and widespread, but where it originally came from is still unknown. Here we investigated this origin through a phylogeographic analysis of mitochondrial DNA sequences (D-loop) comparing mouse populations from Australia with those from the likely regional source area in Western Europe. Our results agree with human historical associations, showing a strong link between Australia and the British Isles. This outcome is of intrinsic and applied interest and helps to validate the colonization history of mice as a proxy for human settlement history.
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Affiliation(s)
- Sofia I. Gabriel
- Department of Biology, University of York, York, United Kingdom
- CESAM–Centre for Environmental and Marine Studies, Departamento de Biologia Animal, Faculdade de Ciências da Universidade de Lisboa, Lisbon, Portugal
| | - Mark I. Stevens
- South Australian Museum, and School of Earth and Environmental Sciences, University of Adelaide, Adelaide, Australia
| | - Maria da Luz Mathias
- CESAM–Centre for Environmental and Marine Studies, Departamento de Biologia Animal, Faculdade de Ciências da Universidade de Lisboa, Lisbon, Portugal
| | - Jeremy B. Searle
- Department of Biology, University of York, York, United Kingdom
- Department of Ecology and Evolutionary Biology, Cornell University, Corson Hall, Ithaca, New York, United States of America
- * E-mail:
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29
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JONES ELEANORP, JENSEN JENSKJELD, MAGNUSSEN EYĐFINN, GREGERSEN NOOMI, HANSEN HEIDIS, SEARLE JEREMYB. A molecular characterization of the charismatic Faroe house mouse. Biol J Linn Soc Lond 2011. [DOI: 10.1111/j.1095-8312.2010.01597.x] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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