A. Almeida, A. Marcili, and R. Leite, Coxiella symbiont in the tick Ornithodoros rostratus (Acari: Argasidae). Ticks and Tick-borne Diseases, pp.203-206, 2012.

R. Andreotti, A. Perez-de-leon, and S. Dowd, Assessment of bacterial diversity in the cattle tick Rhipicephalus (Boophilus) microplus through tag-encoded pyrosequencing, BMC Microbiology, vol.11, issue.1, 2011.
DOI : 10.1186/1471-2180-11-6

C. Anstead and N. Chilton, Discovery of Novel Rickettsiella spp. in Ixodid Ticks from Western Canada, Applied and Environmental Microbiology, vol.80, issue.4, pp.1403-1410, 2014.
DOI : 10.1128/AEM.03564-13
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3911054

J. Balbuena, R. Miguez-lozano, and I. Blasco-costa, PACo: A Novel Procrustes Application to Cophylogenetic Analysis, PLoS ONE, vol.420, issue.4, p.61048, 2013.
DOI : 10.1371/journal.pone.0061048.s002
URL : http://doi.org/10.1371/journal.pone.0061048

G. Bennett and N. Moran, Small, Smaller, Smallest: The Origins and Evolution of Ancient Dual Symbioses in a Phloem-Feeding Insect, Genome Biology and Evolution, vol.5, issue.9, pp.1675-1688, 2013.
DOI : 10.1093/gbe/evt118

M. Benson, J. Gawronski, and D. Eveleigh, Intracellular Symbionts and Other Bacteria Associated with Deer Ticks (Ixodes scapularis) from Nantucket and Wellfleet, Cape Cod, Massachusetts, Applied and Environmental Microbiology, vol.70, issue.1, pp.616-620, 2004.
DOI : 10.1128/AEM.70.1.616-620.2004
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC321306

D. Bouchon, R. Cordaux, and P. Gr-eve, Rickettsiella, intracellular pathogens of arthropods, pp.127-148, 2012.

J. Brownlie and K. Johnson, Symbiont-mediated protection in insect hosts, Trends in Microbiology, vol.17, issue.8, pp.348-354, 2009.
DOI : 10.1016/j.tim.2009.05.005

T. Burger, R. Shao, and L. Beati, Phylogenetic analysis of ticks (Acari: Ixodida) using mitochondrial genomes and nuclear rRNA genes indicates that the genus Amblyomma is polyphyletic, Molecular Phylogenetics and Evolution, vol.64, issue.1, pp.45-55, 2012.
DOI : 10.1016/j.ympev.2012.03.004

T. Burger, R. Shao, and M. Labruna, Molecular phylogeny of soft ticks (Ixodida: Argasidae) inferred from mitochondrial genome and nuclear rRNA sequences, Ticks and Tick-borne Diseases, vol.5, issue.2, pp.195-207, 2014.
DOI : 10.1016/j.ttbdis.2013.10.009

A. Cafiso, C. Bazzocchi, D. Marco, and L. , Molecular screening for Midichloria in hard and soft ticks reveals variable prevalence levels and bacterial loads in different tick species, Ticks and Tick-borne Diseases, vol.7, issue.6, pp.1186-1192
DOI : 10.1016/j.ttbdis.2016.07.017

G. Carpi, F. Cagnacci, and N. Wittekindt, Metagenomic Profile of the Bacterial Communities Associated with Ixodes ricinus Ticks, PLoS ONE, vol.10, issue.10, p.25604, 2011.
DOI : 10.1371/journal.pone.0025604.s006

J. Castresana, Selection of Conserved Blocks from Multiple Alignments for Their Use in Phylogenetic Analysis, Molecular Biology and Evolution, vol.17, issue.4, pp.540-552, 2000.
DOI : 10.1093/oxfordjournals.molbev.a026334

X. Chen, S. Li, and S. Aksoy, Concordant Evolution of a Symbiont with Its Host Insect Species: Molecular Phylogeny of Genus Glossina and Its Bacteriome-Associated Endosymbiont, Wigglesworthia glossinidia, Journal of Molecular Evolution, vol.48, issue.1, pp.49-58, 1999.
DOI : 10.1007/PL00006444

K. Clayton, C. Gall, and K. Mason, The characterization and manipulation of the bacterial microbiome of the, p.13, 2015.

C. Conord, L. Despres, and A. Vallier, Long-Term Evolutionary Stability of Bacterial Endosymbiosis in Curculionoidea: Additional Evidence of Symbiont Replacement in the Dryophthoridae Family, Molecular Biology and Evolution, vol.25, issue.5, pp.859-868, 2008.
DOI : 10.1093/molbev/msn027
URL : https://hal.archives-ouvertes.fr/hal-00391282

R. Cordaux, M. Paces-fessy, M. Raimond, A. Michel-salzat, M. Zimmer et al., Molecular Characterization and Evolution of Arthropod-Pathogenic Rickettsiella Bacteria, Applied and Environmental Microbiology, vol.73, issue.15, pp.5045-5047, 2007.
DOI : 10.1128/AEM.00378-07
URL : https://hal.archives-ouvertes.fr/hal-00170753

A. Darby, N. Cho, and H. Fuxelius, Intracellular pathogens go extreme: genome evolution in the Rickettsiales, Trends in Genetics, vol.23, issue.10, pp.511-520, 2007.
DOI : 10.1016/j.tig.2007.08.002

S. Dergousoff and N. Chilton, Detection of a new Arsenophonus-type bacterium in Canadian populations of the Rocky Mountain wood tick, Dermacentor andersoni, Experimental and Applied Acarology, vol.91, issue.1, pp.85-91, 2010.
DOI : 10.1016/B978-0-12-592202-9.50021-5

S. Dergousoff and N. Chilton, Novel genotypes of Anaplasma bovis, ?Candidatus Midichloria? sp. and Ignatzschineria sp. in the Rocky Mountain wood tick, Dermacentor andersoni, Veterinary Microbiology, vol.150, issue.1-2, pp.100-106, 2011.
DOI : 10.1016/j.vetmic.2011.01.018

O. Duron, D. Bouchon, and S. Boutin, The diversity of reproductive parasites among arthropods: Wolbachia do not walk alone, BMC Biology, vol.6, issue.1, p.27, 2008.
DOI : 10.1186/1741-7007-6-27
URL : https://hal.archives-ouvertes.fr/hal-00293355

O. Duron, G. Hurst, and E. Hornett, High incidence of the maternally inherited bacterium Cardinium in spiders, Molecular Ecology, vol.13, issue.6, pp.1427-1437, 2008.
DOI : 10.1099/ijs.0.02957-0

O. Duron, T. Wilkes, and G. Hurst, Interspecific transmission of a male-killing bacterium on an ecological timescale, Ecology Letters, vol.19, issue.9, pp.1139-1148, 2010.
DOI : 10.1093/oxfordjournals.molbev.a026084

O. Duron, E. Jourdain, and K. Mccoy, Diversity and global distribution of the Coxiella intracellular bacterium in seabird ticks, Ticks and Tick-borne Diseases, vol.5, issue.5, pp.557-563, 2014.
DOI : 10.1016/j.ttbdis.2014.04.003

O. Duron, U. Schneppat, and A. Berthomieu, Origin, acquisition and diversification of heritable bacterial endosymbionts in louse flies and bat flies, Molecular Ecology, vol.10, issue.12, pp.2105-2117, 2014.
DOI : 10.1007/BF00419325
URL : https://hal.archives-ouvertes.fr/hal-01285428

O. Duron, V. Noel, and K. Mccoy, The Recent Evolution of a Maternally-Inherited Endosymbiont of Ticks Led to the Emergence of the Q Fever Pathogen, Coxiella burnetii, PLOS Pathogens, vol.23, issue.5, 2015.
DOI : 10.1371/journal.ppat.1004892.s001
URL : https://hal.archives-ouvertes.fr/hal-01250470

O. Duron, K. Sidi-boumedine, and E. Rousset, The importance of ticks in Q fever transmission: what has (and has not) been demonstrated? Trends in Parasitology, pp.536-552, 2015.

O. Duron, J. Cremaschi, and K. Mccoy, The High Diversity and Global Distribution of the Intracellular Bacterium Rickettsiella in the Polar Seabird Tick Ixodes uriae, Microbial Ecology, vol.476, issue.Suppl 1, pp.761-770, 2016.
DOI : 10.1038/nature10356

J. Engelstadter and G. Hurst, The Ecology and Evolution of Microbes that Manipulate Host Reproduction, Annual Review of Ecology, Evolution, and Systematics, vol.40, issue.1, pp.127-149, 2009.
DOI : 10.1146/annurev.ecolsys.110308.120206

S. Epis, D. Sassera, and T. Beninati, Midichloria mitochondrii is widespread in hard ticks (Ixodidae) and resides in the mitochondria of phylogenetically diverse species, Parasitology, vol.11, issue.04, pp.485-494, 2008.
DOI : 10.3201/eid1107.041265

S. Epis, M. Mandrioli, and M. Genchi, Localization of the bacterial symbiont Candidatus Midichloria mitochondrii within the hard tick Ixodes ricinus by whole-mount FISH staining, Ticks and Tick-borne Diseases, vol.4, issue.1-2, pp.19-45, 2014.
DOI : 10.1016/j.ttbdis.2012.06.005

J. Ferrari and F. Vavre, Bacterial symbionts in insects or the story of communities affecting communities, Philosophical Transactions of the Royal Society B: Biological Sciences, vol.326, issue.5949, pp.1389-1400, 2011.
DOI : 10.1126/science.1177531
URL : https://hal.archives-ouvertes.fr/hal-00784710

J. Ferrari, J. West, and S. Via, POPULATION GENETIC STRUCTURE AND SECONDARY SYMBIONTS IN HOST-ASSOCIATED POPULATIONS OF THE PEA APHID COMPLEX, Evolution, vol.21, issue.2, pp.375-390, 2012.
DOI : 10.1111/j.1420-9101.2008.01507.x

T. Fukatsu and H. Ishikawa, A novel eukaryotic extracellular symbiont in an aphid, Astegopteryx styraci (Homoptera, Aphididae, Hormaphidinae), Journal of Insect Physiology, vol.38, issue.10, pp.765-773, 1992.
DOI : 10.1016/0022-1910(92)90029-D

T. Fukatsu and H. Ishikawa, Phylogenetic position of yeast-like symbiont of Hamiltonaphis styraci (homoptera, aphididae) based on 18S rDNA sequence, Insect Biochemistry and Molecular Biology, vol.26, issue.4, pp.383-388, 1996.
DOI : 10.1016/0965-1748(95)00105-0

J. Gerhart, A. Moses, and R. Raghavan, A Francisella-like endosymbiont in the Gulf Coast tick evolved from a mammalian pathogen, Scientific Reports, vol.17, issue.1, p.33670, 2016.
DOI : 10.1093/bioinformatics/17.8.754

H. Goethert and S. Telford, A New <I>Francisella</I> (Beggiatiales: Francisellaceae) Inquiline within <I>Dermacentor variabilis</I> Say (Acari: Ixodidae), Journal of Medical Entomology, vol.42, issue.3, pp.502-505, 2005.
DOI : 10.1603/0022-2585(2005)042[0502:ANFBFI]2.0.CO;2

Y. Gottlieb, I. Lalzar, and L. Klasson, Like Endosymbionts in Ticks, Genome Biology and Evolution, vol.7, issue.6, pp.1779-1796, 2015.
DOI : 10.1093/gbe/evv108

A. Guglielmone, R. Robbing, and D. Apanaskevich, The Argasidae, Ixodidae and Nuttalliellidae (Acari: Ixodida) of the world: a list of valid species names, Zootaxa, pp.2528-2529, 2010.

M. Gulia-nuss, A. Nuss, and J. Meyer, Genomic insights into the Ixodes scapularis tick vector of Lyme disease, Nature Communications, vol.233, p.10507, 2016.
DOI : 10.2460/javma.233.2.259

P. Hamilton and S. Perlman, Host Defense via Symbiosis in Drosophila, PLoS Pathogens, vol.108, issue.12, p.1003808, 2013.
DOI : 10.1371/journal.ppat.1003808.g001
URL : http://doi.org/10.1371/journal.ppat.1003808

K. Henning, S. Greiner-fischer, and H. Hotzel, Isolation of Spiroplasma sp. from an Ixodes tick, International Journal of Medical Microbiology, vol.296, pp.157-161, 2006.
DOI : 10.1016/j.ijmm.2006.01.012

K. Hilgenboecker, P. Hammerstein, and P. Schlattmann, How many species are infected with Wolbachia? ??? a statistical analysis of current data, FEMS Microbiology Letters, vol.281, issue.2, pp.215-220, 2008.
DOI : 10.1111/j.1574-6968.2008.01110.x

D. Hunter, J. Torkelson, and J. Bodnar, The Rickettsia Endosymbiont of Ixodes pacificus Contains All the Genes of De Novo Folate Biosynthesis, PLOS ONE, vol.4, issue.12, p.144552, 2015.
DOI : 10.1371/journal.pone.0144552.s003

F. Husnik and J. Mccutcheon, Repeated replacement of an intrabacterial symbiont in the tripartite nested mealybug symbiosis, Proceedings of the National Academy of Sciences, vol.2, issue.12, pp.5416-5424, 2016.
DOI : 10.1038/nmeth.2019

L. Iasur-kruh, P. Weintraub, and N. Mozes-daube, Novel Rickettsiella Bacterium in the Leafhopper Orosius albicinctus (Hemiptera: Cicadellidae), Applied and Environmental Microbiology, vol.79, issue.14, pp.4246-4252, 2013.
DOI : 10.1128/AEM.00721-13

J. Jaenike, R. Unckless, and S. Cockburn, Adaptation via Symbiosis: Recent Spread of a Drosophila Defensive Symbiont, Science, vol.2, issue.4, pp.212-215, 2010.
DOI : 10.1371/journal.pntd.0000217

A. Jasinskas, J. Zhong, and A. Barbour, Highly Prevalent Coxiella sp. Bacterium in the Tick Vector Amblyomma americanum, Applied and Environmental Microbiology, vol.73, issue.1, pp.334-336, 2007.
DOI : 10.1128/AEM.02009-06
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1797106

E. Jousselin and Y. Desdevises, Coeur d'acier A (2009) Fine-scale cospeciation between Brachycaudus and Buchnera aphidicola: bacterial genome helps define species and evolutionary relationships in aphids, Proceedings of the Royal Society of London, Series B, pp.187-196

E. Jousselin, A. Coeur-d-'acier, and F. Vanlerberghe-masutti, endosymbionts in aphids, Molecular Ecology, vol.48, issue.Suppl 1, pp.260-270, 2013.
DOI : 10.1099/00207713-48-1-257

O. Klyachko, B. Stein, and N. Grindle, Localization and Visualization of a Coxiella-Type Symbiont within the Lone Star Tick, Amblyomma americanum, Applied and Environmental Microbiology, vol.73, issue.20, pp.6584-6594, 2007.
DOI : 10.1128/AEM.00537-07

S. Kumar, K. Tamura, and M. Nei, MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment, Briefings in Bioinformatics, vol.5, issue.2, pp.150-163, 2004.
DOI : 10.1093/bib/5.2.150

T. Kurtti, U. Munderloh, and T. Andreadis, Tick Cell Culture Isolation of an Intracellular Prokaryote from the TickIxodes scapularis, Journal of Invertebrate Pathology, vol.67, issue.3, pp.318-321, 1996.
DOI : 10.1006/jipa.1996.0050

T. Kurtti, A. Palmer, and J. Oliver, <I>Rickettsiella</I>-like Bacteria in <I>Ixodes woodi</I> (Acari: Ixodidae), Journal of Medical Entomology, vol.39, issue.3, pp.534-540, 2002.
DOI : 10.1603/0022-2585-39.3.534

T. Kurtti, R. Felsheim, and N. Burkhardt, Rickettsia buchneri sp. nov., a rickettsial endosymbiont of the blacklegged tick Ixodes scapularis, INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, vol.65, issue.Pt 3, pp.965-970, 2015.
DOI : 10.1099/ijs.0.000047

I. Lalzar, S. Harrus, and K. Mumcuoglu, Composition and Seasonal Variation of Rhipicephalus turanicus and Rhipicephalus sanguineus Bacterial Communities, Applied and Environmental Microbiology, vol.78, issue.12, pp.4110-4116, 2012.
DOI : 10.1128/AEM.00323-12
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3370557

I. Lalzar, Y. Friedmann, and Y. Gottlieb, ticks, Environmental Microbiology, vol.48, issue.12, pp.3657-3668, 2014.
DOI : 10.1111/j.1365-2664.2011.01984.x

A. Leclerque, K. Hartelt, and C. Schuster, Multilocus sequence typing (MLST) for the infra-generic taxonomic classification of entomopathogenic Rickettsiella bacteria, FEMS Microbiology Letters, vol.324, issue.2, pp.125-134, 2011.
DOI : 10.1111/j.1574-6968.2011.02396.x

N. Lo, T. Beninati, and D. Sassera, Widespread distribution and high prevalence of an alpha-proteobacterial symbiont in the tick Ixodes ricinus, Environmental Microbiology, vol.67, issue.7, pp.1280-1287, 2006.
DOI : 10.1051/parasite/199267499

P. Lukasik, M. Dawid, and J. Ferrari, The diversity and fitness effects of infection with facultative endosymbionts in the grain aphid, Sitobion avenae, Oecologia, vol.63, issue.3, pp.985-996, 2013.
DOI : 10.1111/j.1558-5646.2009.00660.x

P. Lukasik, M. Van-asch, and H. Guo, Unrelated facultative endosymbionts protect aphids against a fungal pathogen, Ecology Letters, vol.6, issue.2, pp.214-218, 2013.
DOI : 10.1098/rsbl.2009.0642

E. Machado-ferreira, G. Dietrich, and A. Hojgaard, Coxiella Symbionts in the Cayenne Tick Amblyomma cajennense, Microbial Ecology, vol.2, issue.1, pp.134-142, 2011.
DOI : 10.1371/journal.pone.0000405

D. Martin, P. Lemey, M. Lott, V. Moulton, D. Posada et al., RDP3: a flexible and fast computer program for analyzing recombination, Bioinformatics, vol.26, issue.19, pp.2462-2463, 2010.
DOI : 10.1093/bioinformatics/btq467
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2944210

Y. Matsuura, Y. Kikuchi, and X. Meng, Novel Clade of Alphaproteobacterial Endosymbionts Associated with Stinkbugs and Other Arthropods, Applied and Environmental Microbiology, vol.78, issue.12, pp.4149-4156, 2012.
DOI : 10.1128/AEM.00673-12

S. Mcnulty, J. Foster, and M. Mitreva, Endosymbiont DNA in Endobacteria-Free Filarial Nematodes Indicates Ancient Horizontal Genetic Transfer, PLoS ONE, vol.318, issue.6, p.11029, 2010.
DOI : 10.1371/journal.pone.0011029.s006

N. Moran, P. Tran, and N. Gerardo, Symbiosis and Insect Diversification: an Ancient Symbiont of Sap-Feeding Insects from the Bacterial Phylum Bacteroidetes, Applied and Environmental Microbiology, vol.71, issue.12, pp.8802-8810, 2005.
DOI : 10.1128/AEM.71.12.8802-8810.2005

N. Moran, J. Mccutcheon, and A. Nakabachi, Genomics and Evolution of Heritable Bacterial Symbionts, Annual Review of Genetics, vol.42, issue.1, pp.165-190, 2008.
DOI : 10.1146/annurev.genet.41.110306.130119

A. Murrell, N. Campbell, and S. Barker, A Total-Evidence Phylogeny of Ticks Provides Insights into the Evolution of Life Cycles and Biogeography, Molecular Phylogenetics and Evolution, vol.21, issue.2, pp.244-258, 2001.
DOI : 10.1006/mpev.2001.1018

N. Najm, C. Silaghi, and L. Bell-sakyi, Detection of bacteria related to Candidatus Midichloria mitochondrii in tick cell lines, Parasitology Research, vol.67, issue.Suppl 2, pp.437-442, 2012.
DOI : 10.1051/parasite/199267499

M. Niebylski, M. Peacock, and E. Fischer, Characterization of an endosymbiont infecting wood ticks, Dermacentor andersoni, as a member of the genus Francisella, Applied and Environmental Microbiology, vol.63, pp.3933-3940, 1997.

M. Niebylski, M. Schrumpf, and W. Burgdorfer, Rickettsia peacockii sp. nov., a New Species Infecting Wood Ticks, Dermacentor andersoni, in Western Montana, International Journal of Systematic Bacteriology, vol.47, issue.2, pp.446-452, 1997.
DOI : 10.1099/00207713-47-2-446

N. Nikoh, T. Hosokawa, and M. Moriyama, Evolutionary origin of insect-Wolbachia nutritional mutualism, Proceedings of the National Academy of Sciences of the United States of America, pp.10257-10262, 2014.
DOI : 10.1093/bioinformatics/btg180
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4104916

E. Novakova, V. Hypsa, and N. Moran, Arsenophonus, an emerging clade of intracellular symbionts with a broad host distribution, BMC Microbiology, vol.9, issue.1, p.143, 2009.
DOI : 10.1186/1471-2180-9-143

J. Oksanen, G. Blanchet, and R. Kindt, Vegan: Community Ecology Package. R package version 2, pp.0-9, 2013.

K. Oliver, P. Degnan, and G. Burke, Facultative Symbionts in Aphids and the Horizontal Transfer of Ecologically Important Traits, Annual Review of Entomology, vol.55, issue.1, pp.247-266, 2010.
DOI : 10.1146/annurev-ento-112408-085305

E. Paradis, C. J. Strimmer, and K. , APE: Analyses of Phylogenetics and Evolution in R language, Bioinformatics, vol.20, issue.2, pp.289-290, 2004.
DOI : 10.1093/bioinformatics/btg412

P. Erez-brocal, V. Gil, R. Ramos, and S. , A small microbial genome: the end of a long symbiotic relationship? Science, pp.312-313, 2006.

S. Perlman, M. Hunter, and E. Zchori-fein, The emerging diversity of Rickettsia, Proceedings of the Royal Society of London , Series B, pp.2097-2106, 2006.
DOI : 10.1099/ijs.0.02957-0

O. Plantard, A. Bouju-albert, and M. Malard, Detection of Wolbachia in the Tick Ixodes ricinus is Due to the Presence of the Hymenoptera Endoparasitoid Ixodiphagus hookeri, PLoS ONE, vol.38, issue.1, p.30692, 2012.
DOI : 10.1371/journal.pone.0030692.t002

Y. Qiu, R. Nakao, and A. Ohnuma, Microbial Population Analysis of the Salivary Glands of Ticks; A Possible Strategy for the Surveillance of Bacterial Pathogens, PLoS ONE, vol.10, issue.8, p.103961, 2014.
DOI : 10.1371/journal.pone.0103961.s002

M. Raymond and F. Rousset, An exact test for population differentiation, Evolution, vol.49, pp.1283-1286, 1995.
DOI : 10.2307/2410454
URL : https://hal.archives-ouvertes.fr/halsde-00186384

M. Raymond and F. Rousset, GENEPOP (Version 1.2): Population Genetics Software for Exact Tests and Ecumenicism, Journal of Heredity, vol.86, issue.3, pp.248-249, 1995.
DOI : 10.1093/oxfordjournals.jhered.a111573
URL : https://hal.archives-ouvertes.fr/halsde-00186383

J. Russell, B. Goldman-huertas, and C. Moreau, SYMBIONTS FROM ANTS AND LYCAENID BUTTERFLIES, Evolution, vol.265, issue.3, pp.624-640, 2009.
DOI : 10.1093/oxfordjournals.molbev.a026084

J. Russell, C. Funaro, and Y. Giraldo, A veritable menagerie of heritable bacteria from ants, butterflies, p.15, 2012.

J. Russell, S. Weldon, and A. Smith, Uncovering symbiont-driven genetic diversity across North American pea aphids, Molecular Ecology, vol.6, issue.7, pp.2045-2059, 2013.
DOI : 10.1038/nrmicro1969

D. Sassera, N. Lo, S. Epis, D. Auria, and G. , Phylogenomic Evidence for the Presence of a Flagellum and cbb3 Oxidase in the Free-Living Mitochondrial Ancestor, Molecular Biology and Evolution, vol.28, issue.12, pp.3285-3296, 2011.
DOI : 10.1093/molbev/msr159

G. Scoles, Ticks, Journal of Medical Entomology, vol.41, issue.3, pp.277-286, 2004.
DOI : 10.1603/0022-2585-41.3.277

A. Sjodin, K. Svensson, and C. Ohrman, Genome characterisation of the genus Francisella reveals insight into similar evolutionary paths in pathogens of mammals and fish, BMC Genomics, vol.13, issue.1, p.268, 2012.
DOI : 10.1093/nar/gkj014

A. Smith, P. Lukasik, O. Connor, and M. , Patterns, causes and consequences of defensive microbiome dynamics across multiple scales, Molecular Ecology, vol.32, issue.5, pp.1135-1149, 2015.
DOI : 10.1111/j.1574-6976.2008.00123.x

T. Smith, T. Driscoll, and R. Raghavan, A Coxiella-Like Endosymbiont Is a Potential Vitamin Source for the Lone Star Tick, Genome Biology and Evolution, vol.7, issue.3, pp.831-838, 2015.
DOI : 10.1093/gbe/evv016

A. Stefanini and O. Duron, Exploring the effect of the Cardinium endosymbiont on spiders, Journal of Evolutionary Biology, vol.54, issue.Suppl 4, pp.1521-1530, 2012.
DOI : 10.1099/ijs.0.02957-0

G. Subramanian, Z. Sekeyova, and D. Raoult, Multiple tick-associated bacteria in Ixodes ricinus from Slovakia, Ticks and Tick-borne Diseases, vol.3, issue.5-6, pp.406-410, 2012.
DOI : 10.1016/j.ttbdis.2012.10.001

D. Takiya, P. Tran, and C. Dietrich, Co-cladogenesis spanning three phyla: leafhoppers (Insecta: Hemiptera: Cicadellidae) and their dual bacterial symbionts, Molecular Ecology, vol.265, issue.13, pp.4175-4191, 2006.
DOI : 10.1098/rspb.1998.0324

J. Thompson, T. Gibson, and D. Higgins, Multiple Sequence Alignment Using ClustalW and ClustalX, Current Protocols in Bioinformatics, vol.266, issue.2, 2002.
DOI : 10.1016/S0076-6879(96)66024-8

H. Toju, A. Tanabe, Y. Notsu, T. Sota, and T. Fukatsu, Diversification of endosymbiosis: replacements, co-speciation and promiscuity of bacteriocyte symbionts in weevils, The ISME Journal, vol.11, issue.7, pp.1378-1390, 2013.
DOI : 10.1038/nrmicro1969

T. Tsuchida, R. Koga, and M. Horikawa, Symbiotic Bacterium Modifies Aphid Body Color, Science, vol.55, issue.5755, pp.1102-1104, 2010.
DOI : 10.1146/annurev-ento-112408-085305

T. Tsuchida, R. Koga, and A. Fujiwara, Phenotypic Effect of "Candidatus Rickettsiella viridis," a Facultative Symbiont of the Pea Aphid (Acyrthosiphon pisum), and Its Interaction with a Coexisting Symbiont, Applied and Environmental Microbiology, vol.80, issue.2, pp.525-533, 2014.
DOI : 10.1128/AEM.03049-13

J. Tully, D. Rose, and C. Yunker, Helical mycoplasmas (spiroplasmas) from Ixodes ticks, Science, vol.212, issue.4498, pp.1043-1045, 1981.
DOI : 10.1126/science.7233197

J. Tully, D. Rose, and C. Yunker, Spiroplasma ixodetis sp. nov., a New Species from Ixodes pacificus Ticks Collected in Oregon, International Journal of Systematic Bacteriology, vol.45, issue.1, pp.23-28, 1995.
DOI : 10.1099/00207713-45-1-23

E. Vautrin and F. Vavre, Interactions between vertically transmitted symbionts: cooperation or conflict? Trends in Microbiology, pp.95-99, 2009.
DOI : 10.1016/j.tim.2008.12.002

J. Venzal, A. Estrada-pena, and A. Portillo, Detection of Alpha and Gamma-Proteobacteria in Amblyomma triste (Acari: Ixodidae) from Uruguay, Experimental and Applied Acarology, vol.173, issue.1, pp.49-56, 2008.
DOI : 10.3201/eid1008.030999

I. Vilcins, J. Old, and E. Deane, Molecular detection of Rickettsia, Coxiella and Rickettsiella DNA in three native Australian tick species, Experimental and Applied Acarology, vol.171, issue.2, pp.229-242, 2009.
DOI : 10.1128/jb.171.8.4202-4206.1989

L. Weinert, M. Tinsley, and M. Temperley, Are we underestimating the diversity and incidence of insect bacterial symbionts? A case study in ladybird beetles, Biology Letters, vol.13, issue.7, pp.678-681, 2007.
DOI : 10.1111/j.1365-294X.2004.02203.x

L. Weinert, J. Werren, and A. Aebi, Evolution and diversity of Rickettsia bacteria, BMC Biology, vol.7, issue.1, 2009.
DOI : 10.1186/1741-7007-7-6

J. Wernegreen, Endosymbiosis, Current Biology, vol.22, issue.14, pp.555-561, 2012.
DOI : 10.1016/j.cub.2012.06.010

J. Werren, S. Skinner, and A. Huger, Male-killing bacteria in a parasitic wasp, Science, vol.231, issue.4741, pp.990-992, 1986.
DOI : 10.1126/science.3945814

J. Werren, L. Baldo, and M. Clark, Wolbachia: master manipulators of invertebrate biology, Nature Reviews Microbiology, vol.12, issue.10, pp.741-751, 2008.
DOI : 10.1099/ijs.0.64515-0

A. Williams-newkirk, L. Rowe, and T. Mixson-hayden, Presence, genetic variability, and potential significance of " Candidatus Midichloria mitochondrii, the lone star tick Amblyomma americanum. Experimental and Applied Acarology, pp.291-300, 2012.
DOI : 10.1007/s10493-012-9582-5

E. Zchori-fein and S. Perlman, Distribution of the bacterial symbiont Cardinium in arthropods, Molecular Ecology, vol.98, issue.7, pp.2009-2016, 2004.
DOI : 10.1128/jb.173.2.697-703.1991

J. Zhong, A. Jasinskas, and A. Barbour, Antibiotic Treatment of the Tick Vector Amblyomma americanum Reduced Reproductive Fitness, PLoS ONE, vol.41, issue.5, p.405, 2007.
DOI : 10.1371/journal.pone.0000405.t001

R. Zug and P. Hammerstein, Still a Host of Hosts for Wolbachia: Analysis of Recent Data Suggests That 40% of Terrestrial Arthropod Species Are Infected, PLoS ONE, vol.176, issue.6, p.38544, 2012.
DOI : 10.1371/journal.pone.0038544.t001

K. Cardinium and . Rickettsia, All other data are presented in the supplementary materials, pp.67803-67810