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PMID: 24034898 Published · epublish English Journal Article Research Support, Non-U.S. Gov't

Comparative genomics of emerging pathogens in the Candida glabrata clade.

BMC genomics ·Vol. 14 ·2013-09-14 ·Pages 623

Gabaldón T, Martin T, Marcet-Houben M, Durrens P, Bolotin-Fukuhara M, Lespinet O, Arnaise S, Boisnard S, Aguileta G, Atanasova R, Bouchier C, Couloux A, Creno S, Almeida Cruz J, Devillers H, Enache-Angoulvant A, Guitard J, Jaouen L, Ma L, Marck C, Neuvéglise C, Pelletier E, Pinard A, Poulain J, Recoquillay J, Westhof E, Wincker P, Dujon B, Hennequin C, Fairhead C

Abstract

Candida glabrata follows C. albicans as the second or third most prevalent cause of candidemia worldwide. These two pathogenic yeasts are distantly related, C. glabrata being part of the Nakaseomyces, a group more closely related to Saccharomyces cerevisiae. Although C. glabrata was thought to be the only pathogenic Nakaseomyces, two new pathogens have recently been described within this group: C. nivariensis and C. bracarensis. To gain insight into the genomic changes underlying the emergence of virulence, we sequenced the genomes of these two, and three other non-pathogenic Nakaseomyces, and compared them to other sequenced yeasts. Our results indicate that the two new pathogens are more closely related to the non-pathogenic N. delphensis than to C. glabrata. We uncover duplications and accelerated evolution that specifically affected genes in the lineage preceding the group containing N. delphensis and the three pathogens, which may provide clues to the higher propensity of this group to infect humans. Finally, the number of Epa-like adhesins is specifically enriched in the pathogens, particularly in C. glabrata. Remarkably, some features thought to be the result of adaptation of C. glabrata to a pathogenic lifestyle, are present throughout the Nakaseomyces, indicating these are rather ancient adaptations to other environments. Phylogeny suggests that human pathogenesis evolved several times, independently within the clade. The expansion of the EPA gene family in pathogens establishes an evolutionary link between adhesion and virulence phenotypes. Our analyses thus shed light onto the relationships between virulence and the recent genomic changes that occurred within the Nakaseomyces. Nakaseomyces delphensis: CAPT01000001 to CAPT01000179Candida bracarensis: CAPU01000001 to CAPU01000251Candida nivariensis: CAPV01000001 to CAPV01000123Candida castellii: CAPW01000001 to CAPW01000101Nakaseomyces bacillisporus: CAPX01000001 to CAPX01000186.

MeSH Terms
Candida glabrata/classification,genetics DNA, Fungal/genetics Evolution, Molecular Genome, Fungal Phylogeny Saccharomycetales/classification,genetics Selection, Genetic Sequence Analysis, DNA
Chemicals
DNA, Fungal
Authors & Affiliations
30 authors, click to expand affiliations / ORCID
Gabaldón Toni
Bioinformatics and Genomics Programme, Centre for Genomic Regulation (CRG) and UPF, Doctor Aiguader, 88, Barcelona, 08003, Spain. [email protected].
Martin Tiphaine
Marcet-Houben Marina
Durrens Pascal
Bolotin-Fukuhara Monique
Lespinet Olivier
Arnaise Sylvie
Boisnard Stéphanie
Aguileta Gabriela
Atanasova Ralitsa
Bouchier Christiane
Couloux Arnaud
Creno Sophie
Almeida Cruz Jose
Devillers Hugo
Enache-Angoulvant Adela
Guitard Juliette
Jaouen Laure
Ma Laurence
Marck Christian
Neuvéglise Cécile
Pelletier Eric
Pinard Amélie
Poulain Julie
Recoquillay Julien
Westhof Eric
Wincker Patrick
Dujon Bernard
Hennequin Christophe
Fairhead Cécile
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Article Info
Journal
BMC genomics
Abbr.
BMC Genomics
ISSN
1471-2164
DOI
10.1186/1471-2164-14-623
Email
[email protected]
Published
2013-09-14
Epub
2013-00-14
Pages
623
Language
English
Region
England
NLM ID
100965258
PMCID
PMC3847288
Subset
IM
Grants
European Research Council · 310325 · International
External Links
PubMed source DOI: 10.1186/1471-2164-14-623 PMC Full Text View journal details
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