Sequence and analysis of the genome of the pathogenic yeast Candida orthopsilosis.

PloS One
Alessandro RiccombeniGeraldine Butler

Abstract

Candida orthopsilosis is closely related to the fungal pathogen Candida parapsilosis. However, whereas C. parapsilosis is a major cause of disease in immunosuppressed individuals and in premature neonates, C. orthopsilosis is more rarely associated with infection. We sequenced the C. orthopsilosis genome to facilitate the identification of genes associated with virulence. Here, we report the de novo assembly and annotation of the genome of a Type 2 isolate of C. orthopsilosis. The sequence was obtained by combining data from next generation sequencing (454 Life Sciences and Illumina) with paired-end Sanger reads from a fosmid library. The final assembly contains 12.6 Mb on 8 chromosomes. The genome was annotated using an automated pipeline based on comparative analysis of genomes of Candida species, together with manual identification of introns. We identified 5700 protein-coding genes in C. orthopsilosis, of which 5570 have an ortholog in C. parapsilosis. The time of divergence between C. orthopsilosis and C. parapsilosis is estimated to be twice as great as that between Candida albicans and Candida dubliniensis. There has been an expansion of the Hyr/Iff family of cell wall genes and the JEN family of monocarboxylic transport...Continue Reading

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Citations

Jan 24, 2013·The Pediatric Infectious Disease Journal·Mohan PammiJoseph M Bliss
Feb 12, 2013·Eukaryotic Cell·Piet W J de GrootNeeraj Chauhan
Mar 15, 2013·Molecular Biology and Evolution·Sarah L MaguireGeraldine Butler
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Jul 29, 2019·G3 : Genes - Genomes - Genetics·Kontxi Martinez de San VicenteGeraldine Butler
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Sep 11, 2021·Medical Mycology·Si Jie LimSiti Nurbaya Oslan
Nov 19, 2021·G3 : Genes - Genomes - Genetics·Caoimhe E O'BrienGeraldine Butler

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Methods Mentioned

BETA
RNA-seq

Software Mentioned

Artemis
tRNAscan
Perl script
Candida Gene Order Browser
BLASTX
Newbler
GRIMM
CodeML
CGOB
Velvet

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