Abstract

1. Evolutionary and classification conflicts in the Human Papillomavirus derived from Molecular Phylogeny computational calculations R. Isea1, E. Montes2 and R. Mayo2 1 Fundación IDEA, Hoyo de la Puerta, Valle de Sartenejal, Baruta 1080 (Venezuela) 2 CIEMAT, Avda. Complutense, 22, 28040 Madrid (Spain) • Abstract • In this work we demonstrate that the classification based on the variability of the L1 gene in the Human Papillomavirus is not correct. This result comes from the analysis of several phylogenetic trees which have been calculated with different computational tools in an own-developed workflow • Precedents • 20% of the female Human Being is carrier of the Human Papillomavirus (HPV) • Cervical cancer [1] and the most transmitted sexual disease • HPV is formed by little viruses with a double DNA circular chain (~ 8000 pair of basis) • Genes of early expression E1-E8: virus regulation and replication • Genes of late expression L1-L2: virus capsid assembly • Virus classification is done according to L1 similarity (oncogenic potential) The Molecular Phylogenetic Calculation • Does this categorization really fit the evolution history of the HPV? • Study based on the reproducibility among the genes and their associated risk of cancer • MrBayes [2] • PhyML [3] there is no dependence on the used inference program • RaxML [4] • The calculations with MrBayes have been performed with a workflow [5] based on Taverna [6] • Definition of the parameters for doing the Bayesian calculation • Determination of the model of evolution • Check of the accuracy of the results in the intermediate stages • Multiple alignment of the sequences previously to the final result Results • The phylogenetic trees derived from the E6 and E7 genes are showed in Figure 2 • These trees have been calculated independently and put in order for its representation • There is a topology similarity score of 85% between genes • There is no consistency in the derived topology References • [1] D. R. Lowy and J. T. Schiller. J. Clin. Invest. 116 (5), 1167 (2006) • [2] http://www.mrbayes.net • [3] http://atgc.lirmm.fr/phyml/ • [4] http://icwww.epfl.ch/~stamatak/index-Dateien/Page443.htm • [5] E. Montes, R. Isea and R. Mayo. Iberian Grid Infrastructure Conf. Proc. 2, 378 (2008) • [6] T. Oinn et al. Concurrency and Computation: Prac. and Exp. 18, 1067 (2005) a b c Fig. 1 The Taverna workflow used for calculating with MrBayes Fig. 2. Phylogenetic trees obtained comparing: a) L1 with L2; b) L1 with E7; and, c) L2 with E7. The differences between them are marked with broader lines