Invasion genetics of the introduced black rat (Rattus rattus) in Senegal, West Africa

Molecular Ecology

Volumn 22, Issue 2, 2013, Pages 286-300

  Konečný, Adam ^a,b,c   Estoup, Arnaud ^a   Duplantier, Jean Marc ^a   Bryja, Josef ^b   Bâ, Khalilou ^d   Galan, Maxime ^a   Tatard, Caroline ^a   Cosson, Jean Francois ^a  

^a CENTRE DE BIOLOGIE ET DE GESTION DES POPULATIONS   (France)

^b INSTITUTE OF VERTEBRATE BIOLOGY   (Czech Republic)

^c RESEARCH AND INNOVATION CENTRE   (Italy)

^d INSTITUT DE RECHERCHE POUR LE DÉVELOPPEMENT   (Senegal)

Author keywords

approximate Bayesian computation; Bayesian clustering; founder effects; genetic admixture; ioinvasion; microsatellites; multiple introductions

Indexed keywords

MICROSATELLITE DNA;

ANIMAL; ANIMAL DISPERSAL; ARTICLE; BAYES THEOREM; BIOLOGICAL MODEL; CLUSTER ANALYSIS; GENETIC VARIABILITY; GENETICS; INTRODUCED SPECIES; MOLECULAR EVOLUTION; POPULATION GENETICS; RAT; SENEGAL;

ANIMAL DISTRIBUTION; ANIMALS; BAYES THEOREM; CLUSTER ANALYSIS; EVOLUTION, MOLECULAR; GENETIC VARIATION; GENETICS, POPULATION; INTRODUCED SPECIES; MICROSATELLITE REPEATS; MODELS, GENETIC; RATS; SENEGAL;

RATTUS; RATTUS RATTUS; VERTEBRATA;

EID: 84872040839     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/mec.12112     Document Type: Article

References (68)

1. Abdelkrim J, Pascal M, Samadi S, (2005) Island colonization and founder effects: the invasion of the Guadeloupe islands by ship rats (Rattus rattus). Molecular Ecology, 14, 2923-2931.
2. Abdelkrim J, Pascal M, Samadi S, (2009) Genetic structure and functioning of alien ship rat populations from a Corsican micro-insular complex. Biological Invasions, 11, 473-482.
3. Abdelkrim J, Byrom AE, Gemmell NJ, (2010) Fine-scale genetic structure of mainland invasive Rattus rattus populations: implications for restoration of forested conservation areas in New Zealand. Conservation Genetics, 11, 1953-1964.
4. Aplin KP, Chesser T, Ten Have J, (2003) Evolutionary biology of the genus Rattus: profile of an archetypal rodent pest. In: Rats, Mice and People: Rodent Biology and Management (eds, Singleton GR, Hinds LA, Krebs CJ, Spratt DM,), pp. 487-498. Australian Centre for International Agricultural Research, Canberra.
5. Aplin KP, Suzuki H, Chinen AA, et al,. (2011) Multiple geographic origins of commensalism and complex dispersal history of black rats. PLoS ONE, 6, e26357.
6. Ascunce MS, Yang CC, Oakey J, et al,. (2011) Global invasion history of the fire ant Solenopsis invicta. Science, 331, 1066-1068.
7. Audoin-Rouzeau F, Vigne JD, (1994) The colonization of Europe by the black rat (Rattus rattus). Révue de Paléobiologie, 13, 125-145.
8. Audoin-Rouzeau F, Vigne JD, (1997) The black rat (Rattus rattus) in Roman and Medieval Europe: the commercial roads and the spread of plague. Anthropozoologica, 25-26, 399-404.
9. Austerlitz F, Jung-Muller B, Godelle B, Gouyon PH, (1997) Evolution of coalescence times, genetic diversity and structure during colonization. Theoretical Population Biology, 51, 148-164.
10. Azad AF, Radulovic S, Higgins JA, Noden BH, Troyer JM, (1997) Flea-borne rickettsioses: ecologic considerations. Emerging Infectious Diseases, 3, 319-327.
11. Bâ K, (2002) Systematics, Ecology and Dynamics of Small Rodents Populations Potentially Reservoirs or Hosts of Viruses in Senegal. Mémoire Ecole Pratique des Hautes Etudes, Montpellier, France.
12. Beaumont MA, Zhang W, Balding DJ, (2002) Approximate Bayesian computation in population genetics. Genetics, 162, 2025-2035.
13. Beaumont MA, Nielsen R, Robert C, et al,. (2010) In defence of model-based inference in phylogeography REPLY. Molecular Ecology, 19, 436-446.
14. Belkhir K, Borsa P, Chikhi L, Raufaste N, Bonhomme F, (1996 -2004) GENETIX 4.05, Logiciel sous Windows TM pour la génétique des Populations. Laboratoire Génome, Populations, Interactions, CNRS UMR 5000, Université de Montpellier II, Montpellier, France.
15. Bertorelle G, Benazzo A, Mona S, (2010) ABC as a flexible framework to estimate demography over space and time: some cons, many pros. Molecular Ecology, 19, 2609-2625.
16. Ciosi M, Miller NJ, Kim KS, Giordano R, Estoup A, Guillemaud T, (2008) Invasion of Europe by the western corn rootworm, Diabrotica virgifera virgifera: multiple transatlantic introductions with various reductions of genetic diversity. Molecular Ecology, 17, 3614-3627.
17. Cornuet JM, Santos F, Beaumont MA, et al,. (2008) Inferring population history with DIY ABC: a user-friendly approach to approximate Bayesian computation. Bioinformatics, 24, 2713-2719.
18. Cornuet JM, Ravigné V, Estoup A, (2010) Inference on population history and model checking using DNA sequence and microsatellite data with the software DIYABC (version 1.0). BMC Bioinformatics, 11, 401.
19. Courchamp F, Chapuis JL, Pascal M, (2003) Mammal invaders on islands: impact, control and control impact. Biological Reviews, 78, 347-383.
20. Csilléry K, Blum MGB, Gaggiotti OE, François O, (2010) Approximate Bayesian Computation (ABC) in practice. Trends in Ecology and Evolution, 25, 410-418.
21. Dlugosch KM, Parker IM, (2008) Founding events in species invasions: genetic variation, adaptive evolution, and the role of multiple introductions. Molecular Ecology, 17, 431-449.
22. Dobigny G, Poirier P, Hima K, et al,. (2011) Molecular survey of rodent-borne Trypanosoma in Niger with special emphasis on T. lewisi imported by invasive black rats. Acta Tropica, 117, 183-188.
23. Duplantier JM, Granjon L, Adam F, Bâ K, (1991) Present distribution of the black rat (Rattus rattus) in Senegal: historical and ecological factors. Actes du colloque Le Rongeur et l'Espace, 2, 339-346.
24. Estoup A, Guillemaud T, (2010) Reconstructing routes of invasion using genetic data: why, how and so what? Molecular Ecology, 19, 4113-4130.
25. Evanno G, Regnaut S, Goudet J, (2005) Detecting the number of clusters of individuals using the software structure: a simulation study. Molecular Ecology, 14, 2611-2620.
26. Excoffier L, Foll M, Petit RJ, (2009) Genetic consequences of range expansions. Annual Review of Ecology, Evolution and Systematics, 40, 481-501.
27. Facon B, Genton BJ, Shykoff J, Jarne P, Estoup A, David P, (2006) A general eco-evolutionary framework for understanding bioinvasions. Trends in Ecology and Evolution, 21, 130-135.
28. Facon B, Hufbauer RA, Tayeh A, et al,. (2011) Inbreeding depression is purged in the invasive insect Harmonia axyridis. Current Biology, 21, 424-427.
29. Gilabert A, Loiseau A, Duplantier JM, et al,. (2007) Genetic structure of black rat populations in a rural plague focus in Madagascar. Canadian Journal of Zoology, 85, 965-972.
30. Glémin S, (2003) How are deleterious mutations purged? Drift vs. non random mating. Evolution, 57, 2678-2687.
31. Goodman SM, (1995) Rattus on Madagascar and the dilemma of protecting the endemic rodent fauna. Conservation Biology, 9, 450-453.
32. Goudet J, (2001) fstat, a programme to estimate and test gene diversities and fixation indices (version 2.9.3). Available from http://www2.unil.ch/izea/ softwares/fstat.html.
33. Granjon L, Duplantier JM, (2009) Les rongeurs de l'Afrique Sahélo-Soudanienne. (ed., IRD/MNHN,), Collection Faune et Flore Tropicale, Paris.
34. Guillemaud T, Beaumont MA, Ciosi M, Cornuet JM, Estoup A, (2010) Inferring introduction routes of invasive species using approximate Bayesian computation on microsatellite data. Heredity, 104, 88-99.
35. Hallatschek O, Nelson DR, (2008) Gene surfing in expanding populations. Theoretical Population Biology, 73, 158-170.
36. Jakobsson M, Rosenberg NA, (2007) clumpp: a cluster matching and permutation programme for dealing with label switching and multimodality in analysis of population structure. Bioinformatics, 23, 1801-1806.
37. Kolbe JJ, Glor RE, Rodríguez Schettino L, Lara AC, Larson A, Losos JB, (2004) Genetic variation increases during biological invasion by a Cuban lizard. Nature, 431, 177-181.
38. Lack JB, Greene DU, Conroy CJ, et al,. (2012) Invasion facilitates hybridization with introgression in the Rattus rattus species complex. Molecular Ecology, 21, 3545-3561.
39. Lavergne S, Molofsky J, (2007) Increased genetic variation and evolutionary potential drive the success of an invasive grass. Proceedings of the National Academy of Sciences of the United States of America, 104, 3883-3888.
40. Lee CE, (2002) Evolutionary genetics of invasive species. Trends in Ecology and Evolution, 17, 386-391.
41. Loiseau A, Rahelinirina S, Rahalison L, Konečný A, Duplantier JM, Brouat C, (2008) Isolation and characterization of microsatellites in Rattus rattus. Molecular Ecology Resources, 8, 916-918.
42. Lombaert E, Guillemaud T, Cornuet JM, Malausa T, Facon B, Estoup A, (2010) Bridgehead effect in the worldwide invasion of the biocontrol harlequin ladybird. PLoS ONE, 5, e9743.
43. Mack RN, Simberloff D, Lonsdale WM, Evans H, Clout M, Bazzaz FA, (2000) Biotic invasions: causes, epidemiology, global consequences and control. Ecological Applications, 10, 689-710.
44. Matisoo-Smith E, Robins J, (2009) Mitochondrial DNA evidence for the spread of Pacific rats through Oceania. Biological Invasions, 11, 1521-1527.
45. Mills JN, Childs JE, (1998) Ecologic studies of rodent reservoirs: their relevance for human health. Emerging Infectious Diseases, 4, 529-537.
46. Musser GG, Carleton MD, (2005) Superfamily Muroidea. In: Mammal Species of the World: A Taxonomic and Geographic Reference (eds, Wilson DE, Reeder DM,). pp. 894-1531, The Johns Hopkins University Press, Baltimore.
47. Novak SJ, Mack RN, (2005) Genetic bottlenecks in alien plant species: influences of mating systems and introduction dynamics. In: Species Invasions: Insights into Ecology, Evolution, and Biogeography (eds, Sax DF, Stachowicz JJ, Gaines SD,), pp. 201-228. Sinauer Associates, Sunderland, Massachusetts.
48. Peacock MM, Beard KH, O'Neill EM, Kirchoff VS, Peters MB, (2009) Strong founder effects and low genetic diversity in introduced populations of Coqui frogs. Molecular Ecology, 18, 3603-3615.
49. Pritchard JK, Stephens M, Donnelly P, (2000) Inference of population structure using multilocus genotype data. Genetics, 155, 945-959.
50. Prugnolle F, Theron A, Pointier JP, et al,. (2005) Dispersal in a parasitic worm and its two hosts: consequence for local adaptation. Evolution, 59, 296-303.
51. Reed DH, Frankham R, (2001) How closely correlated are molecular and quantitative measures of genetic variation? A meta-analysis. Evolution, 55, 1095-1103.
52. Rosenberg NA, (2004) distruct: a programme for the graphical display of population structure. Molecular Ecology Notes, 4, 137-138.
53. Rosevear DR, (1969) The Rodents of West Africa. Trustees of the British Museum (Natural History), London.
54. Rousset F, (2008) genepop '007: a complete re-implementation of the genepop software for Windows and Linux. Molecular Ecology Resources, 8, 103-106.
55. Sax DF, Brown JH, (2000) The paradox of invasion. Global Ecology and Biogeography, 9, 363-371.
56. Sinou A, (1981) Key periods in the foundation of some colonial cities. Cahiers d′Etudes Africaines, 81-83, 375-388.
57. Sinou A, Poinsot J, Sternadel J, (1989) Les villes d′Afique noire: politiques et opérations d′urbanisme et d′habitat entre 1650 et 1960. Ministère de la Coopération, Documentation française, Paris.
58. Smith KF, Carpenter SM, (2006) Potential spread of introduced black rat (Rattus rattus) parasites to endemic deer mice (Peromyscus maniculatus) on the California Channel Islands. Diversity and Distributions, 12, 742-748.
59. Stokes VL, Banks PB, Pech RP, Spratt DM, (2009) Competition in an invaded rodent community reveals black rats as a threat to native bush rats in littoral rainforest of south-eastern Australia. Journal of Applied Ecology, 46, 1239-1247.
60. Storey JD, Tibshirani R, (2003) Statistical significance for genome-wide experiments. Proceedings of the National Academy of Sciences of the United States of America, 190, 9440-9445.
61. Suarez AV, Tsutsui ND, (2008) The evolutionary consequences of biological invasions. Molecular Ecology, 17, 351-360.
62. Tollenaere C, Rahalison L, Ranjalahy M, et al,. (2010a) Susceptibility to Yersinia pestis experimental infection in wild Rattus rattus, reservoir of plague in Madagascar. EcoHealth, 7, 242-247.
63. Tollenaere C, Brouat C, Duplantier JM, et al,. (2010b) Phylogeography of the introduced species Rattus rattus in the western Indian Ocean, with special emphasis on the colonization history of Madagascar. Journal of Biogeography, 37, 398-410.
64. Towns DR, Atkinson IAE, Daugherty CH, (2006) Have the harmful effects of introduced rats on islands been exaggerated? Biological Invasions, 8, 863-891.
65. Turgeon J, Tayeh A, Facon B, et al,. (2011) Experimental evidence for the phenotypic impact of admixture between wild and biocontrol Asian ladybird (Harmonia axyridis) involved in the European invasion. Journal of Evolutionary Biology, 24, 1044-1052.
66. Vitousek PM, D'Antonio CM, Loope LL, Rejmánek M, Westbrooks R, (1997) Introduced species: a significant component of human-caused global change. New Zealand Journal of Ecology, 21, 1-16.
67. Wilcove DS, Rothstein D, Dubow J, Phillips A, Losos E, (1998) Quantifying threats to imperiled species in the United States. BioScience, 48, 607-615.
68. Wilson JRU, Dormontt EE, Prentis PJ, Lowe AJ, Richardson DM, (2009) Something in the way you move: dispersal pathways affect invasion success. Trends in Ecology and Evolution, 24, 136-144.