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«Joshua Frederick Coulcher UCL Submitted for the Degree of Doctor of Philosophy September 2011 Declaration I, Joshua Frederick Coulcher, confirm that ...»

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Aranda, M., Marques-Souza, H., Bayer, T. and Tautz, D. (2008) 'The role of the segmentation gene hairy in Tribolium', Dev Genes Evol 218(9): 465-77.

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Beermann, A., Jay, D. G., Beeman, R. W., Hulskamp, M., Tautz, D. and Jurgens, G.

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Behan, M. and Ryan, M. F. (1978) 'Ultrastructure of antennal sensory receptors of Tribolium larvae (Coleoptera : Tenebrionidae)', Int J Insect Morphol Embryol 7(3): 221Benson, D. A., Karsch-Mizrachi, I., Lipman, D. J., Ostell, J. and Wheeler, D. L. (2005) 'GenBank', Nucleic Acids Res 33(Database issue): D34-8.

Bitsch, J. (1994) ‘The morphological ground plan of Hexapoda: critical review of recent concepts.’ Ann Soc Entomol Fr 30:103–129.

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Bourlat, S. J., Nielsen, C., Economou, A. D. and Telford, M. J. (2008) 'Testing the new animal phylogeny: a phylum level molecular analysis of the animal kingdom', Mol Phylogenet Evol 49(1): 23-31.

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Bray, S. J. (2006) 'Notch signalling: a simple pathway becomes complex', Nat Rev Mol Cell Biol 7(9): 678-89.

Brown, S., DeCamillis, M., Gonzalez-Charneco, K., Denell, M., Beeman, R., Nie, W. and Denell, R. (2000) 'Implications of the Tribolium Deformed mutant phenotype for the evolution of Hox gene function', Proc Natl Acad Sci U S A 97(9): 4510-4.

Brown, S., Holtzman, S., Kaufman, T. and Denell, R. (1999) 'Characterization of the Tribolium Deformed ortholog and its ability to directly regulate Deformed target genes in the rescue of a Drosophila Deformed null mutant', Dev Genes Evol 209(7): 389-98.

Brown, S. J., Fellers, J. P., Shippy, T. D., Richardson, E. A., Maxwell, M., Stuart, J. J. and Denell, R. E. (2002a) 'Sequence of the Tribolium castaneum homeotic complex: the region corresponding to the Drosophila melanogaster antennapedia complex', Genetics 160(3): 1067-74.

Brown, S. J., Shippy, T. D., Beeman, R. W. and Denell, R. E. (2002b) 'Tribolium Hox genes repress antennal development in the gnathos and trunk', Mol Phylogenet Evol 24(3): 384-7.

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Bucher, G., Scholten, J. and Klingler, M. (2002) 'Parental RNAi in Tribolium (Coleoptera)', Curr Biol 12(3): R85-6.

Bucher, G. and Wimmer, E. A. (2005) 'Beetle-a-head', B.I.F Futura 20: 164-169.

Budd, G. E. and Telford, M. J. (2009) 'The origin and evolution of arthropods', Nature 457(7231): 812-7.

Campbell, L. I., Rota-Stabelli, O., Edgecombe, G. D., Marchioro T., Longhorn S. J., Telford M. J., Philippe H., Rebecchi L., Peterson K. J. and Pisani D. (2011) ‘MicroRNAs and phylogenomics resolve the relationships of Tardigrada and suggest that velvet worms are the sister group of Arthropoda’, Proc Natl Acad Sci U S A 108(38): 15920-4 Caravas, J. and Friedrich, M. (2010) 'Of mites and millipedes: recent progress in resolving the base of the arthropod tree', BioEssays 32(6): 488-95.

Carroll, S. B., Grenier, J. and Weatherbee, S. (2004) From DNA to Diversity: Molecular Genetics and the Evolution of Animal Design: Wiley-Blackwell.

Casares, F. and Mann, R. S. (2001) 'The ground state of the ventral appendage in Drosophila', Science 293(5534): 1477-80.

Caterina, J. J., Donze, D., Sun, C. W., Ciavatta, D. J. and Townes, T. M. (1994) 'Cloning and functional characterization of LCR-F1: a bZIP transcription factor that activates erythroid-specific, human globin gene expression', Nucleic Acids Res 22(12): 2383-91.

Chadwick, R., Jones, B., Jack, T. and McGinnis, W. (1990) 'Ectopic expression from the Deformed gene triggers a dominant defect in Drosophila adult head development', Dev Biol 141(1): 130-40.

Chan, J.Y., Han, X. L. and Kan, Y. W. (1993) 'Cloning of Nrf1, an NF-E2-related

transcription factor, by genetic selection in yeast', Proc Natl Acad Sci U S A 90(23):


Chan, K., Lu, R., Chang, J. C. and Kan, Y. W. (1996) 'NRF2, a member of the NFE2 family of transcription factors, is not essential for murine erythropoiesis, growth, and development', Proc Natl Acad Sci U S A 93(24): 13943-8.

Chen, J.-Y. (2009) 'The sudden appearance of diverse animal body plans during the Cambrian explosion', Int J Dev Biol 53(5-6): 733-51.

Chen, J. Y., Vannier, J. and Huang, D. Y. (2001) 'The origin of crustaceans: new evidence from the Early Cambrian of China', Proc Biol Sci 268(1482): 2181-7.

Chomczynski, P. and Sacchi, N. (1987) 'Single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction', Anal Biochem 162(1): 156-9.

Chomczynski, P. and Sacchi, N. (2006) 'The single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction: twenty-something years on', Nature protocols 1(2): 581-5.

Cohen, S. M. and Jurgens, G. (1989) 'Proximal-distal pattern formation in Drosophila:

cell autonomous requirement for Distal-less gene activity in limb development', EMBO J 8(7): 2045-55.

Cook, C. E., Smith, M. L., Telford, M. J., Bastianello, A. and Akam, M. (2001) 'Hox genes and the phylogeny of the arthropods', Curr Biol 11(10): 759-63.

Crozatier, M., Valle, D., Dubois, L., Ibnsouda, S. and Vincent, A. (1996) 'collier, a novel regulator of Drosophila head development, is expressed in a single mitotic domain', Curr Biol 6(6): 707-18.

Crozatier, M., Valle, D., Dubois, L., Ibnsouda, S. and Vincent, A. (1999) 'Head versus trunk patterning in the Drosophila embryo; collier requirement for formation of the intercalary segment', Development 126(19): 4385-94.

Curtis, C. D., Brisson, J. A., DeCamillis, M. A., Shippy, T. D., Brown, S. J. and Denell, R. E.

(2001) 'Molecular characterization of Cephalothorax, the Tribolium ortholog of Sex combs reduced', Genesis 30(1): 12-20.

Damen, W.G., Hausdorf, M., Seyfarth, E. and Tautz, D. (1998) 'A conserved mode of head segmentation in arthropods revealed by the expression pattern of Hox genes in a spider', Proc Natl Acad Sci U S A 95(18): 10665-70.

de Celis Ibeas, J. M. and Bray, S. J. (2003) 'Bowl is required downstream of Notch for elaboration of distal limb patterning', Development 130(24): 5943-52.

de Celis, J. F., Tyler, D. M., de Celis, J. and Bray, S. J. (1998) 'Notch signalling mediates segmentation of the Drosophila leg', Development 125(23): 4617-26.

DeCamillis, M. A., Lewis, D. L., Brown, S. J., Beeman, R. W. and Denell, R. E. (2001) 'Interactions of the Tribolium Sex combs reduced and proboscipedia orthologs in embryonic labial development', Genetics 159(4): 1643-8.

Deuve, T. (2001) ‘The epipleural field in hexapods’, Ann Soc Entomol Fr 37 (1–2): 195– Diederich, R. J., Pattatucci, A. M. and Kaufman, T. C. (1991) 'Developmental and evolutionary implications of labial, Deformed and engrailed expression in the Drosophila head', Development 113(1): 273-81.

Dong, P. D., Chu, J. and Panganiban, G. (2001) 'Proximodistal domain specification and interactions in developing Drosophila appendages', Development 128(12): 2365-72.

Duboule, D. (2007) 'The rise and fall of Hox gene clusters', Development 134(14): 2549Dunn, C. W., Hejnol, A., Matus, D. Q., Pang, K., Browne, W. E., Smith, S. A., Seaver, E., Rouse, G. W., Obst, M., Edgecombe, G. D. et al. (2008) 'Broad phylogenomic sampling improves resolution of the animal tree of life', Nature 452(7188): 745-9.

Economou, A. D. and Telford, M. J. (2009) 'Comparative gene expression in the heads of Drosophila melanogaster and Tribolium castaneum and the segmental affinity of the Drosophila hypopharyngeal lobes', Evol Dev 11(1): 88-96.

Edgecombe, G. D. (2004) 'Morphological data, extant Myriapoda, and the Myriapod stem-group', Contrib Zool 73(3). url: http://dpc.uba.uva.nl/ctz/vol73/nr03/art02 Edgecombe, G. D. (2010) 'Arthropod phylogeny: an overview from the perspectives of morphology, molecular data and the fossil record', Arthropod Struct Dev. 39(2-3): 74Edgecombe, G. D., Richter, S. and Wilson, G. D. F. (2003) 'The Mandibular gnathal edges: Homologous structures throughout Mandibulata?', Afr Invertebr 44(1): 115-135.

Engel, M. S. and Grimaldi, D. A. (2004) 'New light shed on the oldest insect', Nature 427(6975): 627-30.

Eriksson, B. J., Tait, N. N., Budd, G. E., Janssen, R. and Akam, M. (2010) 'Head patterning and Hox gene expression in an onychophoran and its implications for the arthropod head problem', Dev Genes Evol 220(3-4): 117-22.

Estella, C. and Mann, R. S. (2008) 'Logic of Wg and Dpp induction of distal and medial fates in the Drosophila leg', Development 135(4): 627-36.

Estella, C., McKay, D. J. and Mann, R. S. (2008) 'Molecular integration of wingless, decapentaplegic, and autoregulatory inputs into Distalless during Drosophila leg development', Dev Cell 14(1): 86-96.

Etchevers, H. C. (2005) 'The cap 'n' collar family member NF-E2-related factor 3 (Nrf3)

is expressed in mesodermal derivatives of the avian embryo', Int J Dev Biol 49(2-3):


Farmer, S. C., Sun, C. W., Winnier, G. E., Hogan, B. L. and Townes, T. M. (1997) 'The bZIP transcription factor LCR-F1 is essential for mesoderm formation in mouse development', Genes Dev 11(6): 786-98.

Finkelstein, R. and Perrimon, N. (1991) 'The molecular genetics of head development in Drosophila melanogaster', Development 112(4): 899-912.

Friedrich, M. and Tautz, D. (1995) 'Ribosomal DNA phylogeny of the major extant arthropod classes and the evolution of myriapods', Nature 376(6536): 165-7.

Gellon, G., Harding, K. W., McGinnis, N., Martin, M. M. and McGinnis, W. (1997) 'A genetic screen for modifiers of Deformed homeotic function identifies novel genes required for head development', Development 124(17): 3321-31.

Giorgianni, M. and Patel, N. H. (2005) ‘Conquering Land, Air and Water: The Evolution and Development of Arthropod Appendages.’ In Evolving Form and Function: Fossils and Development (Briggs, Derek.E.G. ed.) Peabody Museum of Natural History, New Haven, CT: 159-180 Giorgianni, M. W. and Patel, N. H. (2004) 'Patterning of the branched head appendages in Schistocerca americana and Tribolium castaneum', Evol Dev 6(6): 402-10.

Giribet, G., Carranza, S., Baguna, J., Riutort, M. and Ribera, C. (1996) 'First molecular evidence for the existence of a Tardigrada + Arthropoda clade', Mol Biol Evol 13(1): 76Goda, S. K. and Minton, N. P. (1995) 'A simple procedure for gel electrophoresis and northern blotting of RNA', Nucleic Acids Res 23(16): 3357-8.

Gonzalez-Crespo, S. and Morata, G. (1996) 'Genetic evidence for the subdivision of the arthropod limb into coxopodite and telopodite', Development 122(12): 3921-8.

Greenberg, L. and Hatini, V. (2009) 'Essential roles for lines in mediating leg and antennal proximodistal patterning and generating a stable Notch signaling interface at segment borders', Dev Biol 330(1): 93-104.

Grimaldi, D. A. and Engel, M. S. (2005) Evolution of the Insects. Cambridge: Cambridge University Press.

Grimberg, K. B., Beskow, A., Lundin, D., Davis, M. M. and Young, P. (2011) 'Basic leucine zipper protein Cnc-C is a substrate and transcriptional regulator of the Drosophila 26S proteasome', Mol Cell Biol 31(4): 897-909.

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