A. Favel, A. Michel-nguyen, F. Peyron, C. Martin, L. Thomachot et al., Colony morphology switching of Candida lusitaniae and acquisition of multidrug resistance during treatment of a renal infection in a newborn: case report and review of the literature, Diagnostic Microbiology and Infectious Disease, vol.47, issue.1, pp.331-339, 2003.
DOI : 10.1016/S0732-8893(03)00094-4

D. Pappagianis, M. Collins, R. Hector, and R. J. , Development of Resistance to Amphotericin B in Candida lusitaniae Infecting a Human, Antimicrobial Agents and Chemotherapy, vol.16, issue.2, pp.123-126, 1979.
DOI : 10.1128/AAC.16.2.123

L. Rodrigues-de-miranda, Clavispora, a new yeast genus of the Saccharomycetales, Antonie van Leeuwenhoek, vol.22, issue.3, pp.479-483, 1979.
DOI : 10.1007/BF00443285

A. Bankevich, S. Nurk, D. Antipov, A. Gurevich, M. Dvorkin et al., SPAdes: A New, 2012.

S. Kurtz, A. Phillippy, A. Delcher, M. Smoot, M. Shumway et al., Versatile and open software for comparing large genomes, 2004.

H. Li and R. Durbin, Fast and accurate short read alignment with Burrows- 6, 2009.
DOI : 10.1093/bioinformatics/btp324
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2705234

E. Garrison and M. G. , Haplotype-based variant detection from shortread sequencing. arXiv preprint arXiv:1207, 2012.

G. Butler, M. Rasmussen, M. Lin, M. Santos, S. Sakthikumar et al., Evolution of pathogenicity and sexual reproduction in eight Candida genomes, Nature, vol.440, issue.7247, pp.657-662, 2009.
DOI : 10.1038/nature08064

M. Stanke, O. Schöffmann, B. Morgenstern, and S. Waack, Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources, BMC Bioinformatics, vol.7, issue.1, p.62, 2006.
DOI : 10.1186/1471-2105-7-62

I. Korf, Gene finding in novel genomes, BMC Bioinformatics, vol.5, issue.1, p.59, 2004.
DOI : 10.1186/1471-2105-5-59

C. Camacho, G. Coulouris, V. Avagyan, N. Ma, J. Papadopoulos et al., BLAST+: architecture and applications, BLAST+: architecture and applications, pp.421-428, 2008.
DOI : 10.1186/1471-2105-10-421
URL : http://doi.org/10.1186/1471-2105-10-421