S. M. Adl, A. G. Simpson, M. A. Farmer, R. A. Andersen, O. R. Anderson et al., The new higher level classification of eukaryotes with emphasis on the taxonomy of protists, J Eukaryot Microbiol, vol.52, pp.399-451, 2005.

J. Aguilar-fuentes, V. Valadez-graham, E. Reynaud, and M. Zurita, TFIIH trafficking and its nuclear assembly during early Drosophila embryo development, J Cell Sci, vol.119, pp.3866-75, 2006.

M. R. Alexander, A. K. Wheatley, R. J. Center, and P. D. , Efficient transcription through an intron requires the binding of an Sm-type U1 snRNP with intact stem loop II to the splice donor, Nucleic Acids Res, 2010.

M. Altaf, N. Saksouk, and J. Cote, Histone modifications in response to DNA damage, Mutat Res, vol.618, pp.81-90, 2007.

S. F. Altschul, T. L. Madden, A. A. Schaffer, J. Zhang, Z. Zhang et al., Gapped BLAST and PSI-BLAST: a new generation of protein database search programs, Nucleic Acids Res, vol.25, pp.3389-402, 1997.

A. A. Best, H. G. Morrison, A. G. Mcarthur, M. L. Sogin, and G. J. Olsen, Evolution of eukaryotic transcription: insights from the genome of Giardia lamblia, Genome Res, vol.14, pp.1537-1584, 2004.

I. Callebaut, K. Prat, E. Meurice, J. P. Mornon, and T. S. , Prediction of the general transcription factors associated with RNA polymerase II in Plasmodium falciparum: conserved features and differences relative to other eukaryotes, BMC Genomics, vol.6, p.100, 2005.
URL : https://hal.archives-ouvertes.fr/hal-00021609

F. Coin, V. Oksenych, and J. M. Egly, Distinct roles for the XPB/p52 and XPD/p44 subcomplexes of TFIIH in damaged DNA opening during nucleotide excision repair, Mol Cell, vol.26, pp.245-56, 2007.
URL : https://hal.archives-ouvertes.fr/hal-00190901

F. Coin, V. Oksenych, V. Mocquet, S. Groh, C. Blattner et al., Nucleotide excision repair driven by the dissociation of CAK from TFIIH, Mol Cell, vol.31, pp.9-20, 2008.
URL : https://hal.archives-ouvertes.fr/inserm-00311093

C. K. Damgaard, S. Kahns, S. Lykke-andersen, A. L. Nielsen, T. H. Jensen et al., A 5' splice site enhances the recruitment of basal transcription initiation factors in vivo, Mol Cell, vol.29, pp.271-279, 2008.

T. Doerks, S. Huber, E. Buchner, and P. Bork, BSD: a novel domain in transcription factors and synapse-associated proteins, Trends Biochem Sci, vol.27, pp.168-70, 2002.

J. M. Egly and C. F. , A history of TFIIH: two decades of molecular biology on a pivotal transcription/repair factor, DNA Repair (Amst), vol.10, pp.714-735, 2011.

A. F. Fagbemi, B. Orelli, and O. D. Scharer, Regulation of endonuclease activity in human nucleotide excision repair, DNA Repair (Amst), vol.10, pp.722-731, 2011.

D. Faucher and R. J. Wellinger, Methylated H3K4, a transcription-associated histone modification, is involved in the DNA damage response pathway, PLoS Genet, vol.6, 2010.

S. Fribourg, C. Romier, S. Werten, Y. G. Gangloff, A. Poterszman et al., Dissecting the interaction network of multiprotein complexes by pairwise coexpression of subunits in E. coli, J Mol Biol, vol.306, pp.363-73, 2001.
URL : https://hal.archives-ouvertes.fr/hal-02126936

A. Furger, J. M. O'sullivan, A. Binnie, B. A. Lee, and N. J. Proudfoot, Promoter proximal splice sites enhance transcription, Genes Dev, vol.16, pp.2792-2801, 2002.

V. Gervais, V. Lamour, A. Jawhari, F. Frindel, E. Wasielewski et al., TFIIH contains a PH domain involved in DNA nucleotide excision repair, Nat Struct Mol Biol, vol.11, pp.616-638, 2004.

A. Gunzl, The pre-mRNA splicing machinery of trypanosomes: complex or simplified?, Eukaryot Cell, vol.9, pp.1159-70, 2010.

S. W. Hong, S. M. Hong, J. W. Yoo, Y. C. Lee, S. Kim et al., Phosphorylation of the RNA polymerase II C-terminal domain by TFIIH kinase is not essential for transcription of Saccharomyces cerevisiae genome, Proc Natl Acad Sci U S A, vol.106, pp.14276-80, 2009.

A. Jawhari, S. Boussert, V. Lamour, R. A. Atkinson, B. Kieffer et al., Domain architecture of the p62 subunit from the human transcription/repair factor TFIIH deduced by limited proteolysis and mass spectrometry analysis, Biochemistry, vol.43, pp.14420-14450, 2004.

L. Jobert, N. Pinzon, E. Van-herreweghe, B. E. Jady, A. Guialis et al., Human U1 snRNA forms a new chromatin-associated snRNP with TAF15, EMBO Rep, vol.10, pp.494-500, 2009.
URL : https://hal.archives-ouvertes.fr/inserm-00384441

E. I. Kanin, R. T. Kipp, C. Kung, M. Slattery, A. Viale et al., Chemical inhibition of the TFIIH-associated kinase Cdk7/Kin28 does not impair global mRNA synthesis, Proc Natl Acad Sci U S A, vol.104, pp.5812-5819, 2007.

N. King, M. J. Westbrook, S. L. Young, A. Kuo, M. Abedin et al., The genome of the choanoflagellate Monosiga brevicollis and the origin of metazoans, Nature, vol.451, pp.783-791, 2008.

J. F. Kugel and J. A. Goodrich, new company: U1 snRNA associates with TAF15, vol.10, pp.454-460, 2009.

K. Y. Kwek, S. Murphy, A. Furger, B. Thomas, W. O'gorman et al., U1 snRNA associates with TFIIH and regulates transcriptional initiation, Nat Struct Biol, vol.9, pp.800-805, 2002.

K. Y. Kwek, W. O'gorman, and A. A. , Transcription meets DNA repair at a PH domain, Nat Struct Mol Biol, vol.11, pp.588-597, 2004.

L. Lecordier, S. Devaux, P. Uzureau, J. F. Dierick, D. Walgraffe et al., Characterization of a TFIIH homologue from Trypanosoma brucei, Mol Microbiol, vol.64, pp.1164-81, 2007.

J. H. Lee, H. S. Jung, and G. A. , Transcriptionally active TFIIH of the earlydiverged eukaryote Trypanosoma brucei harbors two novel core subunits but not a cyclin-activating kinase complex, Nucleic Acids Res, vol.37, pp.3811-3831, 2009.

X. H. Liang, A. Haritan, S. Uliel, and M. S. , trans and cis splicing in trypanosomatids: mechanism, factors, and regulation, Eukaryot Cell, vol.2, pp.830-870, 2003.

B. Linard, J. D. Thompson, O. Poch, and O. Lecompte, OrthoInspector: comprehensive orthology analysis and visual exploration, BMC Bioinformatics, p.11, 2011.
URL : https://hal.archives-ouvertes.fr/inserm-00663697

P. Matsui, J. Depaulo, and B. S. , An interaction between the Tfb1 and Ssl1 subunits of yeast TFIIH correlates with DNA repair activity, Nucleic Acids Res, vol.23, pp.767-72, 1995.

H. G. Morrison, A. G. Mcarthur, F. D. Gillin, S. B. Aley, R. D. Adam et al., Genomic minimalism in the early diverging intestinal parasite Giardia lamblia, vol.317, pp.1921-1927, 2007.

W. O'gorman, B. Thomas, K. Y. Kwek, A. Furger, and A. A. , Analysis of U1 small nuclear RNA interaction with cyclin H, J Biol Chem, vol.280, pp.36920-36925, 2005.

M. A. Osley and X. Shen, Altering nucleosomes during DNA double-strand break repair in yeast, Trends Genet, vol.22, pp.671-678, 2006.

M. Pellegrini, E. M. Marcotte, M. J. Thompson, D. Eisenberg, and Y. T. , Assigning protein functions by comparative genome analysis: protein phylogenetic profiles, Proc Natl Acad Sci U S A, vol.96, pp.4285-4293, 1999.

F. Plewniak, L. Bianchetti, Y. Brelivet, A. Carles, F. Chalmel et al., PipeAlign: A new toolkit for protein family analysis, Nucleic Acids Res, vol.31, pp.3829-3861, 2003.

J. A. Ranish, S. Hahn, Y. Lu, E. C. Yi, X. J. Li et al., Identification of TFB5, a new component of general transcription and DNA repair factor IIH, Nat Genet, vol.36, pp.707-720, 2004.

C. Rouillon and M. F. White, The evolution and mechanisms of nucleotide excision repair proteins, Res Microbiol, vol.162, pp.19-26, 2011.

S. C. Schroeder, B. Schwer, S. Shuman, and B. D. , Dynamic association of capping enzymes with transcribing RNA polymerase II, Genes Dev, vol.14, pp.2435-2475, 2000.

B. T. Sherman, W. Huang-da, Q. Tan, Y. Guo, S. Bour et al., DAVID Knowledgebase: a gene-centered database integrating heterogeneous gene annotation resources to facilitate highthroughput gene functional analysis, BMC Bioinformatics, vol.8, p.426, 2007.

I. D. Tkacz, S. K. Gupta, V. Volkov, M. Romano, T. Haham et al., Analysis of spliceosomal proteins in Trypanosomatids reveals novel functions in mRNA processing, J Biol Chem, vol.285, pp.27982-99, 2010.

A. Tremeau-bravard, C. Perez, and J. M. Egly, A role of the C-terminal part of p44 in the promoter escape activity of transcription factor IIH, J Biol Chem, vol.276, pp.27693-27700, 2001.

L. Viladevall, C. V. St-amour, A. Rosebrock, S. Schneider, C. Zhang et al., TFIIH and P-TEFb coordinate transcription with capping enzyme recruitment at specific genes in fission yeast, Mol Cell, vol.33, pp.738-51, 2009.
DOI : 10.1016/j.molcel.2009.01.029

URL : https://doi.org/10.1016/j.molcel.2009.01.029

M. Vitorino, F. Coin, O. Zlobinskaya, R. A. Atkinson, D. Moras et al., Solution structure and self-association properties of the p8 TFIIH subunit responsible for trichothiodystrophy, J Mol Biol, vol.368, pp.473-80, 2007.
URL : https://hal.archives-ouvertes.fr/hal-00190943

M. C. Wahl, C. L. Will, and L. R. , The spliceosome: design principles of a dynamic RNP machine, Cell, vol.136, pp.701-719, 2009.

M. Zurita and C. Merino, The transcriptional complexity of the TFIIH complex, Trends Genet, vol.19, pp.578-84, 2003.