K. Aplin, T. Chesser, and J. Ten-have, Evolutionary biology of the genus Rattus: profile of an archetypical rodent pest, Rats, mice and people: rodent biology and management. Australian Centre for International Agricultural Research: Canberra, pp.487-498, 2003.

K. Aplin, H. Suzuki, A. Chinen, R. Chesser, J. Ten-have et al., Multiple Geographic Origins of Commensalism and Complex Dispersal History of Black Rats, PLoS ONE, vol.55, issue.11, p.26357, 2011.
DOI : 10.1371/journal.pone.0026357.s007

URL : https://hal.archives-ouvertes.fr/ird-00714383

P. Armitage, Unwelcome companions: ancient rats reviewed, Antiquity, vol.5, issue.259, pp.231-241, 1994.
DOI : 10.2307/526107

F. Audoin-rouzeau and J. Vigne, La colonisation de l'Europe par le rat noir (Rattus rattus) Revue de Pal eontologie 13, pp.125-145, 1994.

A. Azad, S. Radulovic, J. Higgins, B. Noden, and J. Troyer, Flea-borne Rickettsioses: Ecologic Considerations, Emerging Infectious Diseases, vol.3, issue.3, pp.319-327, 1997.
DOI : 10.3201/eid0303.970308

URL : http://doi.org/10.3201/eid0303.970308

J. Balirwa, C. Chapman, L. Chapman, I. Cowx, K. Geheb et al., Biodiversity and Fishery Sustainability in the Lake Victoria Basin: An Unexpected Marriage?, BioScience, vol.53, issue.8, pp.703-715, 2003.
DOI : 10.1641/0006-3568(2003)053[0703:BAFSIT]2.0.CO;2

M. Beaumont, Detecting population expansion and decline using microsatellites, Genetics, vol.153, pp.2013-2029, 1999.

M. Beaumont, W. Zhang, and D. Balding, Approximate Bayesian computation in population genetics, Genetics, vol.162, pp.2025-2035, 2002.

Y. Benjamini and Y. Hochberg, Controlling the false discovery rate: a practical and powerful approach to multiple testing, Journal of the Royal Statistical Society B, vol.57, pp.289-300, 1995.

C. Brouat, C. Tollenaere, A. Estoup, A. Loiseau, S. Sommer et al., in Madagascar, Molecular Ecology, vol.38, issue.16, pp.4153-4167, 2014.
DOI : 10.1111/mec.12848

URL : https://hal.archives-ouvertes.fr/ird-00261411

C. Burgarella, M. Navascu-es, M. Zabal-aguirre, E. Berganzo, M. Riba et al., Recent population decline and selection shape diversity of taxol-related genes, Molecular Ecology, vol.26, issue.12, pp.3006-3021
DOI : 10.1111/j.1365-294X.2012.05532.x

P. Colangelo, A. Abiadh, A. G. Amori, G. Capizzi, D. Vasa et al., Mitochondrial phylogeography of the black rat supports a single invasion of the western Mediterranean basin, Biological Invasions, vol.9, issue.3, pp.1859-1868, 2015.
DOI : 10.1007/s10530-015-0842-2

J. Cornuet, P. Pudlo, J. Veyssier, A. Dehne-garcia, M. Gautier et al., DIYABC v2.0: a software to make approximate Bayesian computation inferences about population history using single nucleotide polymorphism, DNA sequence and microsatellite data, Bioinformatics, vol.30, issue.8, pp.1187-1189, 2014.
DOI : 10.1093/bioinformatics/btt763

URL : https://hal.archives-ouvertes.fr/hal-01337243

F. Courchamp, L. Berec, and J. Gascoigne, Allee effect in ecology and conservation, 2008.
DOI : 10.1093/acprof:oso/9780198570301.001.0001

K. Csill-ery and M. Blum, abc: an R package for approximate Bayesian computation (ABC), Methods in Ecology and Evolution, vol.11, issue.3, pp.475-479, 2012.
DOI : 10.1111/j.2041-210X.2011.00179.x

D. Ioro, M. Griffiths, and R. , Importance sampling on coalescent histories. I, Advances in Applied Probability, vol.150, issue.02, pp.417-433, 2004.
DOI : 10.1046/j.1365-294X.2001.01244.x

D. Ioro, M. Griffiths, and R. , Importance sampling on coalescent histories. II: Subdivided population models, Advances in Applied Probability, vol.344, issue.02, pp.434-454, 2004.
DOI : 10.1016/0895-7177(96)00046-5

D. Ioro, M. Griffiths, R. Leblois, R. Rousset, and F. , Stepwise mutation likelihood computation by sequential importance sampling in subdivided population models, Theoretical Population Biology, vol.68, issue.1, pp.41-53, 2005.
DOI : 10.1016/j.tpb.2005.02.001

G. Dobigny, P. Poirier, K. Hima, O. Cabaret, P. Gauthier et al., Molecular survey of rodent-borne Trypanosoma in Niger with special emphasis on T. lewisi imported by invasive black rats, Acta Tropica, vol.117, issue.3, pp.183-188, 2011.
DOI : 10.1016/j.actatropica.2010.11.004

URL : https://hal.archives-ouvertes.fr/hal-01113935

F. Dobson, Social structure and gene dynamics in Mammals, Journal of Mammalogy, vol.79, pp.667-670, 1998.

F. Dobson, Gene dynamics and social behavior, pp.163-172, 2007.

E. Mousadik, A. Petit, and R. , High level of genetic differentiation for allelic richness among populations of the argan tree [Argania spinosa (L.) Skeels] endemic to Morocco, Theoretical and Applied Genetics, vol.92, issue.7, pp.832-839, 1996.
DOI : 10.1007/BF00221895

R. Ewer, The biology and behavior of a free-living population of black rats (Rattus rattus), Animal Behaviour Monographs, vol.4, pp.127-171, 1971.

M. Garba, Rongeurs urbains et invasion biologique au Niger : ecologie des communaut es et g en etique des populations . Unpubl, 2012.

M. Garba, A. Dalecky, I. Kadaour-e, M. Kane, K. Hima et al., Spatial Segregation between Invasive and Native Commensal Rodents in an Urban Environment: A Case Study in Niamey, Niger, PLoS ONE, vol.114, issue.11, p.110666, 2014.
DOI : 10.1371/journal.pone.0110666.s002

URL : https://hal.archives-ouvertes.fr/hal-01242801

J. Garza and E. Williamson, Detection of reduction in population size using data from microsatellite loci, Molecular Ecology, vol.17, issue.2, pp.305-318, 2001.
DOI : 10.1038/365274a0

J. Goudet, FSTAT (Version 1.2): A Computer Program to Calculate F-Statistics, Journal of Heredity, vol.86, issue.6, pp.485-486, 1995.
DOI : 10.1093/oxfordjournals.jhered.a111627

URL : http://jhered.oxfordjournals.org/cgi/content/short/86/6/485

J. Goudet, Fstat, a program to estimate and test gene diversities and fixation indices (version 2.9.3) Available at http, 2001.

L. Granjon and J. Duplantier, Les rongeurs de l'Afrique sah elo-soudanienne, 2009.

B. Hama, Histoire traditionnelle d'un peule, les Zarma- Songhay, Pr esence Africaine, 1967.

D. Happold, Mammals of Africa, volume III: rodents, hares and rabbits, 2013.

O. Hardy and X. Vekemans, spagedi: a versatile computer program to analyse spatial genetic structure at the individual or population levels, Molecular Ecology Notes, vol.38, issue.4, pp.618-620, 2002.
DOI : 10.1046/j.1365-294X.1998.00360.x

S. Ho and B. Shapiro, Skyline-plot methods for estimating demographic history from nucleotide sequences, Molecular Ecology Resources, vol.19, issue.3, pp.423-434, 2011.
DOI : 10.1111/j.1755-0998.2011.02988.x

B. Holland and R. Cowie, A geographic mosaic of passive dispersal: population structure in the endemic Hawaiian amber snail Succinea caduca (Mighels, 1845), Molecular Ecology, vol.46, issue.12, pp.2422-2435, 2007.
DOI : 10.1080/106351501300318003

P. Ingvarsson, Kin-structured colonization in Phalacrus substriatus, Heredity, vol.19, issue.4, pp.456-463, 1998.
DOI : 10.1086/284328

H. Jacob, D. Brown, R. Bunker, M. Daly, V. Dzau et al., A genetic linkage map of the laboratory rat, Rattus norvegicus, Nature Genetics, vol.63, issue.1, pp.63-69, 1995.
DOI : 10.1038/ng0195-63

T. Jombart, adegenet: a R package for the multivariate analysis of genetic markers, Bioinformatics, vol.24, issue.11, pp.1403-1405, 2008.
DOI : 10.1093/bioinformatics/btn129

URL : https://hal.archives-ouvertes.fr/hal-00428105

T. Jombart, S. Devillard, and F. Balloux, Discriminant analysis of principal components: a new method for the analysis of genetically structured populations, BMC Genetics, vol.11, issue.1, pp.1471-2156, 2010.
DOI : 10.1186/1471-2156-11-94

URL : https://hal.archives-ouvertes.fr/hal-00539267

P. Kal-em-e, J. Bates, H. Belesi, R. Bowie, M. Gambalemoke et al., Origin and putative colonization routes for invasive rodent taxa in the Democratic Republic of Congo, African Zoology, vol.46, issue.1, pp.133-145, 2011.
DOI : 10.1186/14712156-12???26

A. Konecny, A. Estoup, J. Duplantier, J. Bryja, K. Galan et al., ) in Senegal, West Africa, Molecular Ecology, vol.24, issue.83, pp.286-300, 2013.
DOI : 10.1111/mec.12112

J. Lack, M. Hamilton, J. Braun, M. Mares, and R. Van-den-busche, Comparative phylogeography of invasive Rattus rattus and Rattus norvegicus in the U.S. reveals distinct colonization histories and dispersal, Biological Invasions, vol.26, issue.5, pp.1067-1087, 2013.
DOI : 10.1007/s10530-012-0351-5

R. Leblois, P. Pudlo, J. Bertaux, F. , R. Beeravolu et al., Maximum-Likelihood Inference of Population Size Contractions from Microsatellite Data, Molecular Biology and Evolution, vol.31, issue.10, pp.2805-2823, 2014.
DOI : 10.1093/molbev/msu212

X. Lin, W. Guo, W. Wang, Y. Zou, Z. Hao et al., Migration of the Norway rats, 2012.

A. Loiseau, S. Rahelinirina, L. Rahalison, A. Konecny, J. Duplantier et al., Isolation and characterization of microsatellites in Rattus rattus, Molecular Ecology Resources, vol.8, pp.915-918, 2008.

B. Loiselle, V. Sork, J. Nason, and C. Graham, Spatial Genetic Structure of a Tropical Understory Shrub, Psychotria officinalis (Rubiaceae), American Journal of Botany, vol.82, issue.11, pp.1420-1425, 1995.
DOI : 10.2307/2445869

M. Luniak, W. Shaw, and L. Harris, Synurbanization: adaptation of animal wildlife to urban development Van- Druff L eds. Fourth international urban wildlife symposium, pp.50-55, 2004.

J. Magombi, C. Brouat, A. Loiseau, O. Banga, E. Leroy et al., Urban population genetics of the invasive black rats in Franceville, Gabon, Journal of Zoology, vol.16, issue.3, pp.183-190, 2016.
DOI : 10.1111/jzo.12334

T. Masuzawa, Y. Okamoto, Y. Une, T. Takeuchi, K. Tsukagoshi et al., Leptospirosis in Squirrels Imported from United States to Japan, Emerging Infectious Diseases, vol.12, issue.7, pp.1153-1155, 2006.
DOI : 10.3201/eid1207.060370

B. Meerburg, G. Singleton, and H. Kijlstra, Rodent-borne diseases and their risks for public health, Critical Reviews in Microbiology, vol.24, issue.4, pp.221-270, 2009.
DOI : 10.1080/01652176.1987.9694138

P. Meirmans, Seven common mistakes in population genetics and how to avoid them, Molecular Ecology, vol.42, issue.13, pp.3223-3231, 2015.
DOI : 10.1111/mec.13243

J. Morse and M. Hoddle, INVASION BIOLOGY OF THRIPS, Annual Review of Entomology, vol.51, issue.1, pp.67-89, 2006.
DOI : 10.1146/annurev.ento.51.110104.151044

G. Musser and M. Carleton, Superfamily Muroidea Mammal species of the World: a taxonomic and geographic reference, pp.894-1531, 2005.

M. Nei, Estimation of average heterozygosity and genetic distance from a small number of individuals, Genetics, vol.89, pp.583-590, 1978.

J. Niethammer, Zur Taxonomien und Ausbreitungsgeschichte der Hausratte Rattus rattus, Zoologischer Anzieger, vol.194, pp.405-415, 1975.

J. Pannell and B. Charlesworth, Neutral Genetic Diversity in a Metapopulation with Recurrent Local Extinction and Recolonization, Evolution, vol.53, issue.3, pp.664-676, 1999.
DOI : 10.2307/2640708

R. Team, The R project for statistical computing Available at: https://www.r-project.org, 2015.

D. Rosevear, The rodents of West Africa, Trustees of the British Museum (Natural History), 1969.

N. Roura-pascual, C. Hui, T. Ikeda, G. Leday, D. Richardson et al., Relative roles of climatic suitability and anthropogenic influence in determining the pattern of spread in a global invader, Proceedings of the National Academy of Sciences, pp.220-225, 2011.
DOI : 10.1073/pnas.1011723108

F. Rousset, genepop???007: a complete re-implementation of the genepop software for Windows and Linux, Molecular Ecology Resources, vol.145, issue.1, pp.103-106, 2008.
DOI : 10.2307/2408641

URL : https://hal.archives-ouvertes.fr/halsde-00366752

A. Salifou, Histoire du Niger : epoque pr ecoloniale et colonial, 2010.

T. Seastedt, Ecology: Traits of plant invaders, Nature, vol.9, issue.7248, pp.783-784, 2009.
DOI : 10.1038/459783a

DOI : 10.1126/science.287.5457.1406

C. Tollenaere, C. Brouat, J. Duplantier, L. Rahalison, S. Rahelinirina et al., in the western Indian Ocean, with special emphasis on the colonization history of Madagascar, Journal of Biogeography, vol.17, issue.3, pp.398-410, 2010.
DOI : 10.1111/j.1365-2699.2009.02228.x

URL : https://hal.archives-ouvertes.fr/halsde-00459761

M. Wade and D. Mccauley, Extinction and Recolonization: Their Effects on the Genetic Differentiation of Local Populations, Evolution, vol.42, issue.5, pp.995-1005, 1988.
DOI : 10.2307/2408915

B. Weir and C. Cockerham, Estimating F-Statistics for the Analysis of Population Structure, Evolution, vol.38, issue.6, pp.1358-1370, 1984.
DOI : 10.2307/2408641

M. Whitlock and D. Mccauley, Some Population Genetic Consequences of Colony Formation and Extinction: Genetic Correlations within Founding Groups, Evolution, vol.44, issue.7, pp.1717-1724, 1990.
DOI : 10.2307/2409501

J. Wilson, E. Dormontt, P. Prentis, A. Lowe, and D. Richardson, Something in the way you move: dispersal pathways affect invasion success, Trends in Ecology & Evolution, vol.24, issue.3, pp.136-144, 2009.
DOI : 10.1016/j.tree.2008.10.007

M. Woolhouse, D. Haydon, and R. Antia, Emerging pathogens: the epidemiology and evolution of species jumps, Trends in Ecology & Evolution, vol.20, issue.5, pp.238-244, 2005.
DOI : 10.1016/j.tree.2005.02.009