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Maltsev AN, Kotenkova EV. Phylogeographic Structure of the House Mouse Mus musculus in Eastern Europe and Asia according to Analysis of the Control Region (D-Loop) of mtDNA. BIOL BULL+ 2022. [DOI: 10.1134/s1062359022020133] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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2
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Genomic Analysis Reveals Subdivision of Black Rats (Rattus rattus) in India, Origin of the Worldwide Species Spread. Genes (Basel) 2022; 13:genes13020267. [PMID: 35205312 PMCID: PMC8871742 DOI: 10.3390/genes13020267] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2021] [Revised: 01/21/2022] [Accepted: 01/24/2022] [Indexed: 12/04/2022] Open
Abstract
In contrast to the detailed and globally extensive studies on the spread of the commensal black rat, Rattus rattus, there has been relatively little work on the phylogeography of the species within India, from where this spread originated. Taking a genomic approach, we typed 27 R. rattus samples from Peninsular India using the genotyping-by-sequencing (GBS) method. Filtering and alignment of the FASTQ files yielded 1499 genome-wide SNPs. Phylogenomic tree reconstruction revealed a distinct subdivision in the R. rattus population, manifested as two clusters corresponding to the east and west coasts of India. We also identified signals of admixture between these two subpopulations, separated by an Fst of 0.20. This striking genomic difference between the east and west coast populations mirrors what has previously been described with mitochondrial DNA sequencing. It is notable that the west coast population of R. rattus has been spread globally, reflecting the origins of commensalism of the species in Western India and the subsequent transport by humans worldwide.
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Wilches R, Beluch WH, McConnell E, Tautz D, Chan YF. Independent evolution toward larger body size in the distinctive Faroe Island mice. G3-GENES GENOMES GENETICS 2021; 11:6062402. [PMID: 33561246 PMCID: PMC8022703 DOI: 10.1093/g3journal/jkaa051] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/21/2020] [Accepted: 12/10/2020] [Indexed: 11/29/2022]
Abstract
Most phenotypic traits in nature involve the collective action of many genes. Traits that evolve repeatedly are particularly useful for understanding how selection may act on changing trait values. In mice, large body size has evolved repeatedly on islands and under artificial selection in the laboratory. Identifying the loci and genes involved in this process may shed light on the evolution of complex, polygenic traits. Here, we have mapped the genetic basis of body size variation by making a genetic cross between mice from the Faroe Islands, which are among the largest and most distinctive natural populations of mice in the world, and a laboratory mouse strain selected for small body size, SM/J. Using this F2 intercross of 841 animals, we have identified 111 loci controlling various aspects of body size, weight and growth hormone levels. By comparing against other studies, including the use of a joint meta-analysis, we found that the loci involved in the evolution of large size in the Faroese mice were largely independent from those of a different island population or other laboratory strains. We hypothesize that colonization bottleneck, historical hybridization, or the redundancy between multiple loci have resulted in the Faroese mice achieving an outwardly similar phenotype through a distinct evolutionary path.
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Affiliation(s)
- Ricardo Wilches
- Friedrich Miescher Laboratory of the Max Planck Society, 72076 Tübingen, Germany
| | - William H Beluch
- Friedrich Miescher Laboratory of the Max Planck Society, 72076 Tübingen, Germany
| | - Ellen McConnell
- Max Planck Institute for Evolutionary Biology, Department of Evolutionary Genetics, 24306 Plön, Germany
| | - Diethard Tautz
- Max Planck Institute for Evolutionary Biology, Department of Evolutionary Genetics, 24306 Plön, Germany
| | - Yingguang Frank Chan
- Friedrich Miescher Laboratory of the Max Planck Society, 72076 Tübingen, Germany
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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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Puckett EE, Magnussen E, Khlyap LA, Strand TM, Lundkvist Å, Munshi-South J. Genomic analyses reveal three independent introductions of the invasive brown rat (Rattus norvegicus) to the Faroe Islands. Heredity (Edinb) 2019; 124:15-27. [PMID: 31399718 DOI: 10.1038/s41437-019-0255-6] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2018] [Revised: 07/10/2019] [Accepted: 07/20/2019] [Indexed: 11/09/2022] Open
Abstract
Population genomics offers innovative approaches to test hypotheses related to the source and timing of introduction of invasive species. These approaches are particularly appropriate to study colonization of island ecosystems. The brown rat is a cold-hardy global invasive that has reached most of the world's island ecosystems, including even highly isolated archipelagoes such as the Faroe Islands in the North Atlantic Ocean. Historic records tell of rats rafting to the southern island of Suðuroy in 1768 following a shipwreck off the coast of Scotland, then expanding across the archipelago. We investigated the demographic history of brown rats in the Faroes using 50,174 SNPs. We inferred three independent introductions of rats, including to Suðuroy, the islands of Borðoy and Viðoy, and onto Streymoy from which they expanded to Eysturoy and Vágar. All Faroese populations showed signs of strong bottlenecks and declining effective population size. We inferred that these founder events removed low frequency alleles, the exact data needed to estimate recent demographic histories. Therefore, we were unable to accurately estimate the timing of each invasion. The difficulties with demographic inference may be applicable to other invasive species, particularly those with extreme and recent bottlenecks. We identified three invasions of brown rats to the Faroe Islands that resulted in highly differentiated populations that will be useful for future studies of life history variation and genomic adaptation.
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Affiliation(s)
- Emily E Puckett
- Department of Biological Sciences, University of Memphis, Memphis, TN, USA. .,Louis Calder Center- Biological Field Station, Fordham University, Armonk, NY, USA.
| | - Eyðfinn Magnussen
- Faculty of Science and Technology, University of the Faroe Islands, Tórshavn, Faroe Islands
| | - Liudmila A Khlyap
- Severtsov Institute of Ecology and Evolution, Russian Academy of Sciences, Moscow, Russia
| | - Tanja M Strand
- Department of Medical Biochemistry and Microbiology, Zoonosis Science Center, Uppsala University, Uppsala, Sweden.,National Veterinary Institute (SVA), Department of Microbiology, Uppsala, Sweden
| | - Åke Lundkvist
- Department of Medical Biochemistry and Microbiology, Zoonosis Science Center, Uppsala University, Uppsala, Sweden
| | - Jason Munshi-South
- Louis Calder Center- Biological Field Station, Fordham University, Armonk, NY, USA
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Medlock JM, Hansford K, Vaux AG, Simonsen W, Jensen JK, Joensen C, Versteirt V, Hansen LJ. Surveillance for Ixodes ricinus ticks ( Acari , Ixodidae ) on the Faroe Islands. Ticks Tick Borne Dis 2017; 8:190-195. [DOI: 10.1016/j.ttbdis.2016.11.001] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2016] [Revised: 11/01/2016] [Accepted: 11/02/2016] [Indexed: 12/01/2022]
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Phylogeography of Rattus norvegicus in the South Atlantic Ocean. DIVERSITY-BASEL 2016. [DOI: 10.3390/d8040032] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Babiker H, Tautz D. Molecular and phenotypic distinction of the very recently evolved insular subspecies Mus musculus helgolandicus ZIMMERMANN, 1953. BMC Evol Biol 2015; 15:160. [PMID: 26268354 PMCID: PMC4535776 DOI: 10.1186/s12862-015-0439-5] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2015] [Accepted: 07/29/2015] [Indexed: 11/10/2022] Open
Abstract
Background Populations and subspecies of the house mouse Mus musculus were able to invade new regions worldwide in the wake of human expansion. Here we investigate the origin and colonization history of the house mouse inhabiting the small island of Heligoland on the German Bight - Mus musculus helgolandicus. It was first described by Zimmermann in 1953, based on morphological descriptions which were considered to be a mosaic between the subspecies M. m. domesticus and M. m. musculus. Since mice on islands are excellent evolutionary model systems, we have focused here on a molecular characterization and an extended phenotype analysis. Results The molecular data show that the mice from Heligoland are derived from M. m. domesticus based on mitochondrial D-loop sequences as well as on four nuclear diagnostic markers, including one each from the sex-chromosomes. STRUCTURE analysis based on 21 microsatellite markers assigns Heligoland mice to a distinct population and D-loop network analysis suggests that they are derived from a single colonization event. In spite of mice from the mainland arriving by ships, they are apparently genetically refractory against further immigration. Mutation frequencies in complete mitochondrial genome sequences date the colonization age to approximately 400 years ago. Complete genome sequences from three animals revealed a genomic admixture with M. m. musculus genomic regions with at least 6.5 % of the genome affected. Geometric morphometric analysis of mandible shapes including skull samples from two time points during the last century suggest specific adaptations to a more carnivorous diet. Conclusions The molecular and morphological analyses confirm that M. m. helgolandicus consists of a distinct evolutionary lineage with specific adaptations. It shows a remarkable resilience against genetic mixture with mainland populations of M. m. domesticus despite major disturbances in the past century and a high ship traffic. The genomic admixture with M. m. musculus genetic material may have contributed to the genomic distinction of the Heligoland mice. In spite of its young age, M. m. helgolandicus may thus be considered as a true subspecies of Mus, whose evolution was triggered through fast divergence on a small island. Electronic supplementary material The online version of this article (doi:10.1186/s12862-015-0439-5) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Hiba Babiker
- Max Planck Institute for Evolutionary Biology, August-Thienemann Str. 2, 24306, Plön, Germany.
| | - Diethard Tautz
- Max Planck Institute for Evolutionary Biology, August-Thienemann Str. 2, 24306, Plön, Germany.
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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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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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McCormick H, Cursons R, Wilkins RJ, King CM. Location of a contact zone between Mus musculus domesticus and M. m. domesticus with M. m. castaneus mtDNA in southern New Zealand. Mamm Biol 2014. [DOI: 10.1016/j.mambio.2014.05.006] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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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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Lister AM, Hall C. Variation in Body and Tooth Size with Island Area in Small Mammals: A Study of Scottish and Faroese House Mice (Mus musculus). ANN ZOOL FENN 2014. [DOI: 10.5735/086.051.0211] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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Kváč M, McEvoy J, Loudová M, Stenger B, Sak B, Květoňová D, Ditrich O, Rašková V, Moriarty E, Rost M, Macholán M, Piálek J. Coevolution of Cryptosporidium tyzzeri and the house mouse (Mus musculus). Int J Parasitol 2013; 43:805-17. [PMID: 23791796 DOI: 10.1016/j.ijpara.2013.04.007] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2013] [Revised: 04/22/2013] [Accepted: 04/25/2013] [Indexed: 11/30/2022]
Abstract
Two house mouse subspecies occur in Europe, eastern and northern Mus musculus musculus (Mmm) and western and southern Mus musculus domesticus (Mmd). A secondary hybrid zone occurs where their ranges meet, running from Scandinavia to the Black Sea. In this paper, we tested a hypothesis that the apicomplexan protozoan species Cryptosporidium tyzzeri has coevolved with the house mouse. More specifically, we assessed to what extent the evolution of this parasite mirrors divergence of the two subspecies. In order to test this hypothesis, we analysed sequence variation at five genes (ssrRNA, Cryptosporidium oocyst wall protein (COWP), thrombospondin-related adhesive protein of Cryptosporidium 1 (TRAP-C1), actin and gp60) in C. tyzzeri isolates from Mmd and Mmm sampled along a transect across the hybrid zone from the Czech Republic to Germany. Mmd samples were supplemented with mice from New Zealand. We found two distinct isolates of C. tyzzeri, each occurring exclusively in one of the mouse subspecies (C. tyzzeri-Mmm and C. tyzzeri-Mmd). In addition to genetic differentiation, oocysts of the C. tyzzeri-Mmd subtype (mean: 4.24×3.69μm) were significantly smaller than oocysts of C. tyzzeri-Mmm (mean: 4.49×3.90 μm). Mmm and Mmd were susceptible to experimental infection with both C. tyzzeri subtypes; however, the subtypes were not infective for the rodent species Meriones unguiculatus, Mastomys coucha, Apodemus flavicollis or Cavia porcellus. Overall, our results support the hypothesis that C. tyzzeri is coevolving with Mmm and Mmd.
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Affiliation(s)
- Martin Kváč
- Institute of Parasitology, Biology Centre of the Academy of Sciences of the Czech Republic, České Budějovice, Czech Republic
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Didion JP, de Villena FPM. Deconstructing Mus gemischus: advances in understanding ancestry, structure, and variation in the genome of the laboratory mouse. Mamm Genome 2013; 24:1-20. [PMID: 23223940 PMCID: PMC4034049 DOI: 10.1007/s00335-012-9441-z] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2012] [Accepted: 11/05/2012] [Indexed: 01/26/2023]
Abstract
The laboratory mouse is an artificial construct with a complex relationship to its natural ancestors. In 2002, the mouse became the first mammalian model organism with a reference genome. Importantly, the mouse genome sequence was assembled from data on a single inbred laboratory strain, C57BL/6. Several large-scale genetic variant discovery efforts have been conducted, resulting in a catalog of tens of millions of SNPs and structural variants. High-density genotyping arrays covering a subset of those variants have been used to produce hundreds of millions of genotypes in laboratory stocks and a small number of wild mice. These landmark resources now enable us to determine relationships among laboratory mice, assign local ancestry at fine scale, resolve important controversies, and identify a new set of challenges-most importantly, the troubling scarcity of genetic data on the very natural populations from which the laboratory mouse was derived. Our aim with this review is to provide the reader with an historical context for the mouse as a model organism and to explain how practical decisions made in the past have influenced both the architecture of the laboratory mouse genome and the design and execution of current large-scale resources. We also provide examples on how the accomplishments of the past decade can be used by researchers to streamline the use of mice in their experiments and correctly interpret results. Finally, we propose future steps that will enable the mouse community to extend its successes in the decade to come.
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Affiliation(s)
- John P. Didion
- Department of Genetics, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Carolina Center for Genome Science, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Fernando Pardo-Manuel de Villena
- Department of Genetics, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Carolina Center for Genome Science, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
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Gabriel SI, Mathias MDL, Searle JB. Genetic structure of house mouse (Mus musculusLinnaeus 1758) populations in the Atlantic archipelago of the Azores: colonization and dispersal. Biol J Linn Soc Lond 2013. [DOI: 10.1111/bij.12015] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
| | - Maria Da Luz Mathias
- Departamento de Biologia Animal; Faculdade de Ciências da Universidade de Lisboa; CESAM - Centre for Environmental and Marine Studies; 1749-016; Lisbon; Portugal
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18
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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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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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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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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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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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