SEARCH

SEARCH BY CITATION

Literature cited

  • Abdullah, M. A. F., A. P. Valaitis, and D. H. Dean 2006. Identification of a Bacillus thuringiensis Cry11Ba toxin-binding aminopeptidase from the mosquito, Anopheles quadrimaculatus. BMC Biochemistry 7:16.
  • Akey, J. M., A. L. Ruhe, D. T. Akey, A. K. Wong, C. F. Connelly, J. Madeoy, T. J. Nicholas et al. 2010. Tracking footprints of artificial selection in the dog genome. Proceedings of the National Academy of Sciences of the United States of America 107:11601165.
  • Albert, T. J., M. N. Molla, D. M. Muzny, L. Nazareth, D. Wheeler, X. Z. Song, T. A. Richmond et al. 2007. Direct selection of human genomic loci by microarray hybridization. Nature Methods 4:903905.
  • Bah, A., K. van Frankenhuyzen, R. Brousseau, and L. Masson 2004. The Bacillus thuringiensis Cry1Aa toxin: effects of trypsin and chymotrypsin site mutations on toxicity and stability. Journal of Invertebrate Pathology 85:120127.
  • Baird, N. A., P. D. Etter, T. S. Atwood, M. C. Currey, A. L. Shiver, Z. A. Lewis, E. U. Selker et al. 2008. Rapid SNP discovery and genetic mapping using sequenced RAD markers. PLoS One 3:e3376.
  • Bansal, V., R. Tewhey, E. M. LeProust, and N. J. Schork 2011. Efficient and cost effective population resequencing by pooling and in-solution hybridization. PLoS One 6:e1853.
  • Barton, N. H. 2000. Genetic hitchhiking. Philosophical Transactions of the Royal Society of London Series B-Biological Sciences 355:15531562.
  • Becker, N., and M. Ludwig 1993. Investigating on possible resistance in Aedes vexans field populations after a 10-years application of Bacillus- thuringiensis-israelensis. Journal of the American Mosquito Control Association 9:221224.
  • Boitard, S., C. Schlötterer, V. Nolte, R. V. Pandey, and A. Futschick 2012. Detecting selective sweeps from pooled next-generation sequencing samples. Molecular Biology and Evolution 29:21772186.
  • Bonin, A. 2008. Population genomics: a new generation of genome scans to bridge the gap with functional genomics. Molecular Ecology 17:35833584.
  • Bonin, A., M. Paris, G. Tetreau, J. P. David, and L. Despres 2009. Candidate genes revealed by a genome scan for mosquito resistance to a bacterial insecticide: sequence and gene expression variations. BMC Genomics 10:551.
  • Boyer, S., M. Paris, S. Jego, G. Lemperiere, and P. Ravanel 2012. Influence of insecticide Bacillus thuringiensis subsp israelensis treatments on resistance and enzyme activities in Aedes rusticus larvae (Diptera: Culicidae). Biological Control 62:7581.
  • Bradbury, P. J., Z. Zhang, D. E. Kroon, T. M. Casstevens, Y. Ramdoss, and E. S. Buckler 2007. TASSEL: software for association mapping of complex traits in diverse samples. Bioinformatics 23:26332635.
  • Bravo, A., S. S. Gill, and M. Soberon 2007. Mode of action of Bacillus thuringiensis Cry and Cyt toxins and their potential for insect control. Toxicon 49:423435.
  • Canovas, A., G. Rincon, A. Islas-Trejo, S. Wickramasinghe, and J. F. Medrano 2010. SNP discovery in the bovine milk transcriptome using RNA-Seq technology. Mammalian Genome 21:592598.
  • Chen, J. W., K. G. Aimanova, S. Q. Pan, and S. S. Gill 2009. Identification and characterization of Aedes aegypti aminopeptidase N as a putative receptor of Bacillus thuringiensis Cry11A toxin. Insect Biochemistry and Molecular Biology 39:688696.
  • Cheng, C. D., B. J. White, C. Kamdem, K. Mockaitis, C. Costantini, M. W. Hahn, and N. J. Besansky 2012. Ecological genomics of Anopheles gambiae along a latitudinal cline: a population-resequencing approach. Genetics 190:14171432.
  • Dalmasso, C., P. Broet, and T. Moreau 2005. A simple procedure for estimating the false discovery rate. Bioinformatics 21:660668.
  • David, J. P., E. Coissac, C. Melodelima, R. Poupardin, M. A. Riaz, A. Chandor-Proust, and S. Reynaud 2010. Transcriptome response to pollutants and insecticides in the dengue vector Aedes aegypti using next-generation sequencing technology. BMC Genomics 11:216.
  • Ekblom, R., and J. Galindo 2011. Applications of next generation sequencing in molecular ecology of non-model organisms. Heredity 107:115.
  • Fabian, D. K., M. Kapun, V. Nolte, R. Kofler, P. S. Schmidt, C. Schlotterer, and T. Flatt 2012. Genome-wide patterns of latitudinal differentiation among populations of Drosophila melanogaster from North America. Molecular Ecology 21:47484769.
  • Fan, J. Ä., K. L. Gunderson, M. Bibikova, J. M. Yeakley, J. Chen, E. Wickham Garcia, L. L. Lebruska et al. 2006. Illumina universal bead arrays. In K. Alan, and O. Brian, eds. Methods in Enzymology, pp. 5773. Academic Press, ISBN 9780121828158.
  • Fernandez, L. E., K. G. Aimanova, S. S. Gill, A. Bravo, and M. Soberon 2006. A GPI-anchored alkaline phosphatase is a functional midgut receptor of Cry11Aa toxin in Aedes aegypti larvae. Biochemical Journal 394:7784.
  • Fitzmaurice, G., N. Laird, and J. Ware 2004. Applied Longitudinal Analysis. John Wiley and Sons, New York.
  • Fu, Y. X., and W. H. Li 1993. Statistical tests of neutrality of mutations. Genetics 133:693709.
  • Futschik, A., and C. Schlotterer 2010. The next generation of molecular markers from massively parallel sequencing of pooled DNA samples. Genetics 186:207218.
  • Gagnaire, P. A., E. Normandeau, C. Cote, M. M. Hansen, and L. Bernatchez 2012. The genetic consequences of spatially varying selection in the panmictic American eel (Anguilla rostrata). Genetics 190:725736.
  • Gahan, L. J., F. Gould, and D. G. Heckel 2001. Identification of a gene associated with bit resistance in Heliothis virescens. Science 293:857860.
  • Georghiou, G. P., and M. C. Wirth 1997. Influence of exposure to single versus multiple toxins of Bacillus thuringiensis subsp. israelensis on development of resistance in the mosquito Culex quinquefasciatus (Diptera: Culicidae). Applied and Environmental Microbiology 63:10951101.
  • Gimelbrant, A., J. N. Hutchinson, B. R. Thompson, and A. Chess 2007. Widespread monoallelic expression on human autosomes. Science 318:11361140.
  • Goldman, I. F., J. Arnold, and B. C. Carlton 1986. Selection for resistance to Bacillus-thuringiensis subspecies israelensis in field and laboratory population of the mosquito Aedes aegypti. Journal of Invertebrate Pathology 47:317324.
  • Graveley, B. R. 2001. Alternative splicing: increasing diversity in the proteomic world. Trends in Genetics 17:100107.
  • Griffitts, J. S., and R. V. Aroian 2005. Many roads to resistance: how invertebrates adapt to Bt toxins. BioEssays 27:614624.
  • Hemingway, J., N. J. Hawkes, L. McCarroll, and H. Ranson 2004. The molecular basis of insecticide resistance in mosquitoes. Insect Biochemistry and Molecular Biology 34:653665.
  • Herrero, S., T. Gechev, P. L. Bakker, W. J. Moar, and R. A. de Maagd 2005. Bacillus thuringiensis Cry1Ca-resistant Spodoptera exigua lacks expression of one of four Aminopeptidase N genes. BMC Genomics 6:96.
  • Hohenlohe, P. A., S. Bassham, P. D. Etter, N. Stiffler, E. A. Johnson, and W. A. Cresko 2010. Population genomics of parallel adaptation in threespine stickleback using sequenced RAD tags. PLoS Genetics 6:e1000862.
  • Hubert, S., B. Higgins, T. Borza, and S. Bowman 2010. Development of a SNP resource and a genetic linkage map for Atlantic cod (Gadus morhua). BMC Genomics 11:191.
  • Hudson, R. R. 2002. Generating samples under a Wright-Fisher neutral model of genetic variation. Bioinformatics 18:337338.
  • Ingman, M., and U. Gyllensten 2009. SNP frequency estimation using massively parallel sequencing of pooled DNA. European Journal of Human Genetics 17:383386.
  • Jurat-Fuentes, J. L., and M. J. Adang 2004. Characterization of a Cry1Ac-receptor alkaline phosphatase in susceptible and resistant Heliothis virescens larvae. European Journal of Biochemistry 271:31273135.
  • Kofler, R., R. V. Pandey, and C. Schlotterer 2011. PoPoolation2: identifying differentiation between populations using sequencing of pooled DNA samples (Pool-Seq). Bioinformatics 27:34353436.
  • Kolaczkowski, B., A. D. Kern, A. K. Holloway, and D. J. Begun 2011. Genomic differentiation between temperate and tropical Australian populations of Drosophila melanogaster. Genetics 187:245260.
  • Lacey, L. A., and J. P. Siegel 2000. Safety and ecotoxicology of entomopathogenic bacteria. In J.-F. Charles, A. Delécluse, and C. Nielsen-LeRoux, eds. Entomopathogenic Bacteria: From Laboratory to Field Application, pp. 253273. Kluwer Academic Publishers, Dordrecht, NL.
  • Le Corre, V., and A. Kremer 2012. The genetic differentiation at quantitative trait loci under local adaptation. Molecular Ecology 21:15481566.
  • Li, H., B. Handsaker, A. Wysoker, T. Fennell, J. Ruan, N. Homer, G. Marth et al. 2009. The sequence alignment/map format and SAMtools. Bioinformatics 25:20782079.
  • Librado, P., and J. Rozas 2009. DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25:14511452.
  • Likitvivatanavong, S., J. W. Chen, A. Bravo, M. Soberon, and S. S. Gill 2011a. Cadherin, alkaline phosphatase, and aminopeptidase N as receptors of Cry11Ba toxin from Bacillus thuringiensis subsp. jegathesan in Aedes aegypti. Applied and Environmental Microbiology 77:2431.
  • Likitvivatanavong, S., J. W. Chen, A. M. Evans, A. Bravo, M. Soberon, and S. S. Gill 2011b. Multiple receptors as targets of Cry toxins in mosquitoes. Journal of Agricultural and Food Chemistry 59:28292838.
  • de Maagd, R. A., A. Bravo, and N. Crickmore 2001. How Bacillus thuringiensis has evolved specific toxins to colonize the insect world. Trends in Genetics 17:193199.
  • Marcombe, S., R. B. Mathieu, N. Pocquet, M. A. Riaz, R. Poupardin, S. Selior, F. Darriet et al. 2012. Insecticide resistance in the dengue vector Aedes aegypti from Martinique: distribution, mechanisms and relations with environmental factors. PLoS One 7:e30989.
  • Milano, I., M. Babbucci, F. Panitz, R. Ogden, R. O. Nielsen, M. I. Taylor, S. J. Helyar et al. 2011. Novel tools for conservation genomics: comparing two high-throughput approaches for SNP discovery in the transcriptome of the European Hake. PLoS One 6:11.
  • Morin, S., R. W. Biggs, M. S. Sisterson, L. Shriver, C. Ellers-Kirk, D. Higginson, D. Holley et al. 2003. Three cadherin alleles associated with resistance to Bacillus thuringiensis in pink bollworm. Proceedings of the National Academy of Sciences of the United States of America 100:50045009.
  • Nadeau, N. J., A. Whibley, R. T. Jones, J. W. Davey, K. K. Dasmahapatra, S. W. Baxter, M. A. Quail et al. 2012. Genomic islands of divergence in hybridizing Heliconius butterflies identified by large-scale targeted sequencing. Philosophical Transactions of the Royal Society B-Biological Sciences 367:343353.
  • Namroud, M. C., J. Beaulieu, N. Juge, J. Laroche, and J. Bousquet 2008. Scanning the genome for gene single nucleotide polymorphisms involved in adaptive population differentiation in white spruce. Molecular Ecology 17:35993613.
  • Out, A. A., I. J. H. M. van Minderhout, J. J. Goeman, Y. Ariyurek, S. Ossowski, K. Schneeberger, D. Weigel et al. 2009. Deep sequencing to reveal new variants in pooled DNA samples. Human Mutation 30:17031712.
  • Pang, A. S. D., and J. L. Gringorten 1998. Degradation of Bacillus thuringiensis delta-endotoxin in host insect gut juice. FEMS Microbiology Letters 167:281285.
  • Paris, M., and L. Despres 2012. Identifying insecticide resistance genes in mosquito by combining AFLP genome scans and 454 pyrosequencing. Molecular Ecology 21:16721686.
  • Paris, M., S. Boyer, A. Bonin, A. Collado, J. P. David, and L. Despres 2010. Genome scan in the mosquito: population structure and detection of positive selection after insecticide treatment. Molecular Ecology 19:325337.
  • Paris, M., J. David, and L. Despres 2011a. Fitness costs of resistance to Bti toxins in the dengue vector Aedes aegypti. Ecotoxicology 20:11841194.
  • Paris, M., G. Tetreau, F. Laurent, M. Lelu, L. Despres, and J. David 2011b. Persistence of Bacillus thuringiensis israelensis (Bti) in the environment induces resistance to multiple Bti toxins in mosquitoes. Pest Management Science 67:122128.
  • Paris, M., C. Melodelima, E. Coissac, G. Tetreau, S. Reynaud, J. P. David, and L. Despres 2012. Transcription profiling of resistance to Bti toxins in the mosquito Aedes aegypti using next-generation sequencing. Journal of Invertebrate Pathology 109:201208.
  • Paul, A., L. C. Harrington, L. Zhang, and J. G. Scott 2005. Insecticide resistance in Culex pipiens from New York. Journal of the American Mosquito Control Association 21:305309.
  • Pigott, C. R., and D. J. Ellar 2007. Role of receptors in Bacillus thuringiensis crystal toxin activity. Microbiology and Molecular Biology Reviews 71:255281.
  • R Development Core Team. 2011. R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria. http://www.Rproject.org, ISBN 3-900051-07-0.
  • Ranson, H., J. Burhani, N. Lumjuan, and W. C. Black. 2010. Insecticide resistance in dengue vectors. TropIKA.net Journal 1:1.
  • Raymond, M. 1995. PROBIT software. CNRS UMII, Licence L93019 Avenix, 1993, St George d'Orques, France.
  • Renaut, S., A. W. Nolte, and L. Bernatchez. 2010. Mining transcriptome sequences towards identifying adaptive single nucleotide polymorphisms in lake whitefish species pairs (Coregonus spp Salmonidae). Molecular Ecology 19(Suppl 1):115131.
  • San Martin, J. L., O. Brathwaite, B. Zambrano, J. O. Solorzano, A. Bouckenooghe, G. H. Dayan, and M. G. Guzman 2010. The epidemiology of dengue in the Americas over the last three decades: a worrisome reality. American Journal of Tropical Medicine and Hygiene 82:128135.
  • Schnepf, E., N. Crickmore, J. Van Rie, D. Lereclus, J. Baum, J. Feitelson, D. R. Zeigler et al. 1998. Bacillus thuringiensis and its pesticidal crystal proteins. Microbiology and Molecular Biology Reviews 62:775806.
  • Schrider, D. R., J. F. Gout, and M. W. Hahn 2011. Very few RNA and DNA sequence differences in the human transcriptome. PLoS One 6:e25842.
  • Sham, P., J. S. Bader, I. Craig, M. O'Donovan, and M. Owen 2002. DNA pooling: a tool for large-scale association studies. Nature Reviews Genetics 3:862871.
  • Stapley, J., J. Reger, P. G. D. Feulner, C. Smadja, J. Galindo, R. Ekblom, C. Bennison et al. 2010. Adaptation genomics: the next generation. Trends in Ecology & Evolution 25:705712.
  • Tajima, F. 1989. Statistical-method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123:585595.
  • Taylor, A. 1993. Aminopeptidases – structure and function. FASEB Journal 7:290298.
  • Terra, W. R., and C. Ferreira 1994. Insect digestive enzymes – properties, compartmentalization and function. Comparative Biochemistry and Physiology B-Biochemistry & Molecular Biology 109:162.
  • Trapnell, C., L. Pachter, and S. L. Salzberg 2009. TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25:11051111.
  • Turner, T. L., E. C. Bourne, E. J. Von Wettberg, T. T. Hu, and S. V. Nuzhdin 2010. Population resequencing reveals local adaptation of Arabidopsis lyrata to serpentine soils. Nature Genetics 42:260263.
  • Van Tassell, C. P., T. P. Smith, L. K. Matukumalli, J. F. Taylor, R. D. Schnabel, C. T. Lawley, C. D. Haudenschild et al. 2008. SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries. Nature Methods 5:247252.
  • Verlaan, D. J., B. Ge, E. Grundberg, R. Hoberman, K. C. L. Lam, V. Koka, J. Dias et al. 2009. Targeted screening of cis-regulatory variation in human haplotypes. Genome Research 19:118127.
  • Wang, S. L., Z. X. Sha, T. S. Sonstegard, H. Liu, P. Xu, B. Somridhivej, E. Peatman et al. 2008. Quality assessment parameters for EST-derived SNPs from catfish. BMC Genomics 9:450.
  • Wirth, M. C., H. W. Park, W. E. Walton, and B. A. Federici 2005. Cyt1A of Bacillus thuringiensis delays evolution of resistance to Cry11A in the mosquito Culex quinquefasciatus. Applied and Environmental Microbiology 71:185189.
  • World Health Organization (WHO). 2005. Guidelines for Laboratory and Field Testing of Mosquito Larvicides. Document WHO/CDS/WHOPES/GCDPP/13. World Health Organization, Geneva.
  • Wu, S., and U. Manber 1992. Agrep – a fast approximate pattern-matching tool. In: Proceedings of the Winter USENIX Conference, San Francisco, USA, 20–24 January, Berkeley, USA: 153–162.
  • Zhang, H. Y., C. J. Yang, J. Y. Huang, and L. Lu 2004. Susceptibility of field populations of Anopheles sinensis (Diptera: Culicidae) to Bacillus thuringiensis subsp israelensis. Biocontrol Science and Technology 14:321325.
  • Zhang, R., G. Hua, T. M. Andacht, and M. J. Adang 2008. A 106-kDa aminopeptidase is a putative receptor for Bacillus thuringiensis Cry11Ba toxin in the mosquito Anopheles gambiae. Biochemistry 47:1126311272.