SEARCH

SEARCH BY CITATION

References

  • Abascal, F., Zardoya, R. & Posada, D. 2005. ProtTest: selection of best-fit models of protein evolution. Bioinformatics 21: 21042105.
  • Akaike, H. 1974. A new look at the statistical model identification. IEEE Trans. Autom. Control 19: 716723.
  • Aldous, D.J. 2001. Stochastic models and descriptive statistics for phylogenetic trees, from Yule to today. Statist. Sci. 16: 2334.
  • Allen, J.M., Reed, D.L., Perotti, M.A. & Braig, H.R. 2007. Evolutionary relationships of “Candidatus Riesia spp.,” endosymbiotic enterobacteriaceae living within hematophagous primate lice. Appl. Environ. Microbiol. 73: 16591664.
  • Baldo, L., Bordenstein, S., Wernegreen, J.J. & Werren, J.H. 2006. Widespread recombination throughout Wolbachia genomes. Mol. Biol. Evol. 23: 437449.
  • Baumann, P. 2005. Biology of bacteriocyte-associated endosymbionts of plant sap-sucking insects. Annu. Rev. Microbiol. 59: 155189.
  • Baumann, L. & Baumann, P. 2005. Cospeciation between the primary endosymbionts of mealybugs and their hosts. Curr. Microbiol. 50: 8487.
  • Baumann, P., Moran, N.A. & Baumann, L. 2000. Bacteriocyte-associated endosymbionts of insects. In: The prokaryotes (M. Dworkin, ed.), pp. 155189. Springer, New York.
  • Ben-Dov, Y. 2005. A Systematic Catalogue of the Scale Insect Family Margarodidae (Hemiptera: Coccoidea) of the World. Intercept Ltd., Wimborne.
  • Charles, H., Heddi, A. & Rahbé, Y. 2001. A putative insect intracellular endosymbiont stem clade, within the Enterobacteriaceae, inferred from phylogenetic analysis based on a heterogeneous model of DNA evolution. C. R. Acad. Sci. Paris 324: 489494.
  • Charleston, M.A. 2011. TreeMap 3b. URL http://sites.google.com/site/cophylogeny
  • Chen, X., Li, S. & Aksoy, S. 1999. Concordant evolution of a symbiont with its host insect species: molecular phylogeny of genus Glossina and its bacteriome-associated endosymbiont, Wigglesworthia glossinidia. J. Mol. Evol. 48: 4958.
  • Clark, M.A., Moran, N.A., Baumann, P. & Wernegreen, J.J. 2000. Cospeciation between bacterial endosymbionts (Buchnera) and a recent radiation of aphids (Uroleucon) and pitfalls of testing for phylogenetic congruence. Evolution 54: 517525.
  • Conow, C., Fielder, D., Ovadia, Y. & Libeskind-Hadas, R. 2010. Jane: a new tool for the cophylogeny reconstruction problem. Algorithms for Mol. Biol. 5: 16.
  • Cook, L.G. & Gullan, P.J. 2004. The gall-inducing habit has evolved multiple times among the eriococcid scale insects (Sternorrhyncha: Coccoidea: Eriococcidae). Biol. J. Linn. Soc. 83: 441452.
  • Cook, L.G., Gullan, P.J. & Trueman, H.E. 2002. A preliminary phylogeny of the scale insects (Hemiptera: Sternorrhyncha: Coccoidea) based on nuclear small-subunit ribosomal DNA. Mol. Phylogenet. Evol. 25: 4352.
  • Coulibaly-N'Golo, D., Allali, B., Kouassi, S.K., Fichet-Calvet, E., Becker-Ziaja, B., et al. 2011. Novel Arenavirus sequences in Hylomyscus sp. and Mus (Nannomys) setulosus from Côte d'Ivoire: implications for evolution of Arenaviruses in Africa. PLoS One 6: e20893.
  • Degnan, P.H. & Moran, N.A. 2008. Diverse phage-encoded toxins in a protective insect endosymbiont. Appl. Environ. Microbiol. 74: 67826791.
  • Dhami, M.K., Turner, A.P., Deines, P., Beggs, J.R. & Taylor, M.W. 2012. Ultrastructural and molecular characterization of a bacterial symbiosis in the ecologically important scale insect family Coelostomidiidae. FEMS Microbiol. Ecol. 81: 537546.
  • Distel, D.L., Beaudoin, D.J. & Morrill, W. 2002. Coexistence of multiple proteobacterial endosymbionts in the gills of the wood-boring bivalve Lyrodus pedicellatus (Bivalvia: Teredinidae). Appl. Environ. Microbiol. 68: 62926299.
  • von Dohlen, C.D. & Moran, N.A. 1995. Molecular phylogeny of the Homoptera: a paraphyletic taxon. J. Mol. Evol. 41: 211223.
  • Downie, D.A. & Gullan, P.J. 2005. Phylogenetic congruence of mealybugs and their primary Endosymbionts. J. Evol. Biol. 18: 315324.
  • Edgar, R.C. 2004. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32: 17921797.
  • Foldi, I. 2005. Ground pearls: a generic revision of the Margarodidae sensu stricto (Hemiptera: Sternorrhyncha: Coccoidea). Ann. Soc. entomol. Fr. (n.s.) 41: 81125.
  • Fukatsu, T., Koga, R., Smith, W.A., Tanaka, K., Nikoh, N., Sasaki-Fukatsu, K., et al. 2007. Bacterial endosymbiont of the slender pigeon louse, Columbicola columbae, allied to endosymbionts of grain weevils and tsetse flies. Appl. Environ. Microbiol. 73: 66606668.
  • Gosalbes, M.J., Lamelas, A., Moya, A. & Latorre, A. 2008. The striking case of tryptophan provision in the cedar aphid Cinara cedri. J. Bacterial. 190: 60266029.
  • Grünwald, S., Pilhofer, M. & Höll, W. 2010. Microbial associations in gut systems of wood- and bark-inhabiting longhorned beetles [Coleptera: Cerambycidae]. Syst. Appl. Microbiol. 33: 2534.
  • Gruwell, M.E., Dohlen, C.D., Patch, K. & Normark, B.B., 2005. Preliminary PCR survey of bacteria associated with scale insects (Hemiptera: Coccoidea). In: Proceedings of the Tenth International Symposium for Scale Insect Studies, pp. 101116. Adana, Turkey.
  • Gruwell, M.E., Morse, G.E. & Normark, B.B. 2007. Phylogenetic congruence of armored scale insects (Hemiptera: Diaspididae) and their primary endosymbionts from the phylum Bacteroidetes. Mol. Phylogenet. Evol. 44: 267280.
  • Gruwell, M.E., Hardy, N.B., Gullan, P.J. & Dittmar, K. 2010. Evolutionary relationships among primary endosymbionts of the mealybug subfamily phenacoccinae (Hemiptera: Coccoidea: Pseudococcidae). Appl. Environ. Microbiol. 76: 75217525.
  • Guindon, S., Dufayard, J.F., Lefort, V., Anisimova, M., Hordijk, W. & Gascuel, O. 2010. New algorithms and methods to estimate Maximum-likelihood phylogenies: assessing the performance of PhyML. Syst. Biol. 59: 307321.
  • Gullan, P.J. & Cook, L.G. 2007. Phylogeny and higher classification of the scale insects (Hemiptera: Sternorrhyncha: Coccoidea). Zootaxa 1668: 413425.
  • Gullan, P.J. & Kosztarab, M. 1997. Adaptations in Scale Insects. Annu. Rev. Entomol. 42: 2350.
  • Hodgson, C. & Foldi, I. 2006. A review of the Margarodidae sensu Morrison (Hemiptera: Coccoidea) and some related taxa based on the morphology of adult males. Zootaxa 1263: 1250.
  • Hypša, V. & Nováková, E. 2009. Insect symbionts and molecular phylogenetics. In: Insect Symbiosis, vol. 3 (K. Bourtzis & T.A. Miller, eds), pp. 131. CRC Press, Taylor & Francis Group, Boca Raton, FL.
  • Keller-Schmidt, S., Wieseke, N., Klemm, K. & Middendorf, M. 2011. Evaluation of host parasite reconciliation methods using a new approach for cophylogeny generation. Working paper from Bioinformatics Leipzig. URL http://www.bioinf.uni-leipzig.de/working/11-013
  • Kono, M., Koga, R., Shimada, M. & Fukatsu, T. 2008. Infection dynamics of coexisting beta- and gammaproteobacteria in the nested endosymbiotic system of mealybugs. Appl. Environ. Microbiol. 74: 41754184.
  • Koteja, J. 1974. On the phylogeny and classification of the scale insects (Homoptera: Coccinea). Acta Zool. Cracoviensia. 19: 267325.
  • Lamelas, A., Pérez-Brocal, V., Gómez-Valero, L., Gosalbes, M.J., Moya, A. & Latorre, A. 2008. Evolution of the secondary symbiont “Candidatus Serratia symbiotica” in aphid species of the subfamily Lachninae. Appl. Environ. Microbiol. 74: 42364240.
  • Lefèvre, C., Charles, H., Vallier, A., Delobel, B., Farrell, B. & Heddi, A. 2004. Endosymbiont phylogenesis in the dryophthoridae weevils: evidence for bacterial replacement. Mol. Biol. Evol. 21: 965973.
  • Matsuura, Y., Koga, R., Nikoh, N., Meng, X.-Y., Hanada, S. & Fukatsu, T. 2009. Huge symbiotic organs in giant scale insects of the genus Drosicha (Coccoidea: Monophlebidae) harbor flavobacterial and enterobacterial endosymbionts. Zool. Sci. 26: 448456.
  • McCutcheon, J.P. & Moran, N.A. 2007. Parallel genomic evolution and metabolic interdependence in an ancient symbiosis. Proc. Natl. Acad. Sci. USA 104: 1939219397.
  • McCutcheon, J.P. & Moran, N.A. 2010. Functional convergence in reduced genomes of bacterial symbionts spanning 200 My of evolution. Genome Biol. Evol. 2: 708718.
  • McCutcheon, J.P. & von Dohlen, C.D. 2011. An interdependent metabolic patchwork in the nested symbiosis of mealybugs. Curr. Biol. 21: 13661372.
  • McCutcheon, J.P., McDonald, B.R. & Moran, N.A. 2009. Convergent evolution of metabolic roles in bacterial co-symbionts of insects. Proc. Natl. Acad. Sci. USA 106: 1539415399.
  • Merkle, D., Middendorf, M. & Wieseke, N. 2010. A parameter-adaptive dynamic programming approach for inferring cophylogenies. BMC Bioinformatics 11: S60.
  • Miller, D.R., Rung, A., Venable, G.L. & Gill, R.J. 2007. Scale Insects: Identification Tools for Species of Quarantine Importance. Scale Families. ARS & APHIS, USDA. URL http://www.sel.barc.usda.gov/ScaleKeys/ScaleInsectsHome/ScaleInsectsFamilies.html
  • Moran, N.A. 1996. Accelerated evolution and Muller's rachet in endosymbiotic bacteria. Proc. Natl. Acad. Sci. USA 93: 28732878.
  • Moran, N.a., McCutcheon, J.P. & Nakabachi, A. 2008. Genomics and evolution of heritable bacterial symbionts. Annu. Rev. Genet. 42: 165190.
  • Nováková, E. & Hypša, V. 2007. A new Sodalis lineage from bloodsucking fly Caterina melbae (Diptera, Hippoboscoidea) originated independently of the tsetse flies symbiont Sodalis glossinidius. FEMS Microbiol. Lett. 269: 131135.
  • Nováková, E., Hypša, V. & Moran, N.A. 2009. Arsenophonus, an emerging clade of intracellular symbionts with a broad host distribution. BMC Microbiol. 9: 143.
  • Oliver, K.M., Patrick H. Degnan, P.H., Burke, G.R. & Moran, N.A. 2010. Facultative symbionts in aphids and the horizontal transfer of ecologically important traits. Annu. Rev. Entomol. 55: 247266.
  • Posada, D. & Crandall, K.A. 2001. Selecting the best-fit model of nucleotide substitution. Syst. Biol. 50: 580601.
  • Ramírez-Puebla, S.T., Rosenblueth, M., Chávez-Moreno, C.K., Catanho Pereira De Lyra, M.C., Tecante, A. & Martínez-Romero, E. 2010. Molecular phylogeny of the genus Dactylopius (Hemiptera: Dactylopiidae) and identification of the symbiotic bacteria. Environ. Entomol. 39: 11781183.
  • Rice, P., Longden, I. & Bleasby, A. 2000. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 16: 276277.
  • Ricklefs, R.E., Fallon, S.M. & Bermingham, E. 2004. Evolutionary relationships, cospeciation, and host switching in avian Malaria parasites. Syst. Biol. 53: 111119.
  • Ronquist, F. & Huelsenbeck, J.P. 2003. MRBAYES 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 15721574.
  • Rosselló-Mora, R. & Amann, R. 2001. The species concept for prokaryotes. FEMS Microbiol. Rev. 25: 3967.
  • Russell, J.A., Latorre, A., Sabater-Muñoz, B., Moya, A. & Moran, N.A. 2003. Side-stepping secondary symbionts: widespread horizontal transfer across and beyond the Aphidoidea. Mol. Ecol. 12: 10611075.
  • Schröder, D., Deppisch, H., Obermayer, M., Krohne, G., Stackebrandt, E., Hôlldobler, B., et al. 1996. Intracellular endosymbiotic bacteria of Camponotus species (carpenter ants): systematics, evolution and ultrastructural characterization. Mol. Microbiol. 21: 479489.
  • Sloan, D.B. & Moran, N.A. 2012. Genome reduction and co-evolution between the primary and secondary bacterial symbionts of psyllids. Mol. Biol. Evol., doi:10.1093/molbev/mss180.
  • Spaulding, A.W. & von Dohlen, C.D. 1998. Phylogenetic characterization and molecular evolution of bacterial endosymbionts in psyllids (Hemiptera: Sternorrhyncha). Mol. Biol. Evol. 15: 15061513.
  • Stackebrandt, E. & Goebel, B.M. 1994. Taxonomic Note: a Place for DNA-DNA Reassociation and 16s rRNA Sequence Analysis in the Present Species Definition in Bacteriology. Int. J. Syst. Bacteriol. 44: 846849.
  • Szklarzewicz, T., Kedra, K. & Niznik, S. 2005. Ultrastructural studies of the ovary of Palaeococcus fuscipennis (Burmeister) (Insecta, Hemiptera, Coccinea: Monophlebidae). Folia Biol. 53: 4550.
  • Tautz, D., Hancock, J.M., Webb, D.A., Tautz, C. & Dover, G.A. 1988. Complete sequences of the rRNA genes of Drosophila melanogaster. Mol. Biol. Evol. 5: 366376.
  • Thao, M.L., Clark, M.A., Baumann, L., Brennan, E.B., Moran, N.A. & Baumann, P. 2000a. Secondary endosymbionts of psyllids have been acquired multiple times. Curr. Microbial. 41: 300304.
  • Thao, M.L., Moran, N.A., Abbot, P., Brennan, E.B., Burckhardt, D.H. & Baumann, P. 2000b. Cospeciation of psyllids and their primary prokaryotic endosymbionts. Appl. Environ. Microbiol. 66: 28982905.
  • Thao, M.L., Gullan, P.J. & Baumann, P. 2002. Secondary (γ-Proteobacteria) endosymbionts infect the primary (β-Proteobacteria) endosymbionts of mealybugs multiple times and coevolve with their hosts. Appl. Environ. Microbiol. 68: 31903197.
  • Thompson, J.D., Higgins, D.G. & Gibson, T.J. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22: 46734680.
  • Unruh, C.M. & Gullan, P.J. 2008. Molecular data reveal convergent reproductive strategies in iceryine scale insects (Hemiptera: Coccoidea: Monophlebidae), allowing the re-interpretation of morphology and a revised generic classification. Syst. Entomol. 33: 850.
  • Waterhouse, A.M., Procter, J.B., Martin, D.M.A., Clamp, M. & Barton, G.J. 2009. Jalview Version 2 – a multiple sequence alignment editor and analysis workbench. Bioinformatics 25: 11891191.
  • Werren, J.H. 1997. Biology of Wolbachia. Annu. Rev. Entomol. 42: 587609.
  • Williams, K.P., Gillespie, J.J., Sobral, B.W.S., Nordberg, E.K., Snyder, E.E., Shallom, J.M., et al. 2010. Phylogeny of gammaproteobacteria. J. Bacterial. 192: 23052314.
  • Yokogawa, T. & Yahara, T. 2009. Mitochondrial phylogeny certified PGL (Paternal Genome Loss) is of single origin and haplodiploidy sensu stricto (arrhenotoky) did not evolve from PGL in the scale insects (Hemiptera: Coccoidea). Genes Genet. Syst. 84: 5766.
  • Zchori-Fein, E., Ben-Dov, Y., Portnoy, V. & Katzir, N. 2005. Distribution of the endosymbiont Cardinium hertigii in scale insects (Hemiptera: Coccoidea). In: Proceedings of the Tenth International Symposium on Scale Insect Studies, Adana, Turkey, 19–23 April 2004. (L.B. Erkılıç & M.B. Kaydan, eds), pp. 101116. Scientific and Technical Research Council of Turkey, Ankara.