Population genomics of the pathogenic yeast Candida tropicalis identifies hybrid isolates in environmental samples

Resistance rates of non-albicans Candida infections in Taiwan after the revision of 2012 Clinical and Laboratory Standards Institute breakpoints

(2019) Ing-Moi Hii et al.   Infection and Drug Resistance

Twenty Years of the SENTRY Antifungal Surveillance Program: Results for Candida Species From 1997–2016

(2019) Michael A Pfaller et al.   Open Forum Infectious Diseases

Interplay of Chimeric Mating-Type Loci Impairs Fertility Rescue and Accounts for Intra-Strain Variability in Zygosaccharomyces rouxii Interspecies Hybrid ATCC42981

(2019) Melissa Bizzarri et al.   Frontiers in Genetics

Genetic Modification of Closely Related Candida Species

(2019) Eugenio Mancera et al.   Frontiers in Microbiology

Correlating Genotype and Phenotype in the Asexual Yeast Candida orthopsilosis Implicates ZCF29 in Sensitivity to Caffeine

(2019) Kontxi Martinez de San Vicente et al.   G3-Genes Genomes Genetics

Gene flow contributes to diversification of the major fungal pathogen Candida albicans

(2018) Jeanne Ropars et al.   Nature Communications

Evolutionary instability of CUG-Leu in the genetic code of budding yeasts

(2018) Tadeusz Krassowski et al.   Nature Communications

A coupled process of same- and opposite-sex mating generates polyploidy and genetic diversity in Candida tropicalis

(2018) Han Du et al.   PLoS Genetics

Genome evolution across 1,011 Saccharomyces cerevisiae isolates

(2018) Jackson Peter et al.   NATURE

Hybrids and hybridization in the Cryptococcus neoformans and Cryptococcus gattii species complexes

(2018) Himeshi Samarasinghe et al.   INFECTION GENETICS AND EVOLUTION

Clinical characteristics of Candida tropicalis fungaemia with reduced triazole susceptibility in Taiwan: a multicentre study

(2018) Wei-Lun Liu et al.   INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS

Fruits as the vehicle of drug resistant pathogenic yeasts

(2017) Hsiu-Jung Lo et al.   JOURNAL OF INFECTION

Overview of carbon and nitrogen catabolite metabolism in the virulence of human pathogenic fungi

(2017) Laure Nicolas Annick Ries et al.   MOLECULAR MICROBIOLOGY

Hybridization and emergence of virulence in opportunistic human yeast pathogens

(2017) Verónica Mixão et al.   YEAST

HapCUT2: robust and accurate haplotype assembly for diverse sequencing technologies

(2016) Peter Edge et al.   GENOME RESEARCH

Antifungal susceptibility of invasiveCandidabloodstream isolates from the Asia-Pacific region

(2016) Thean Yen Tan et al.   MEDICAL MYCOLOGY

Fungal communities in pressmud composting harbour beneficial and detrimental fungi for human welfare

(2016) Tássio Brito de Oliveira et al.   MICROBIOLOGY-SGM

The Role of Hybridization in the Evolution and Emergence of New Fungal Plant Pathogens

(2016) Eva H. Stukenbrock   PHYTOPATHOLOGY

Bacteriome and Mycobiome Interactions Underscore Microbial Dysbiosis in Familial Crohn’s Disease

(2016) G. Hoarau et al.   mBio

A Multistate Toggle Switch Defines Fungal Cell Fates and Is Regulated by Synergistic Genetic Cues

(2016) Matthew Z. Anderson et al.   PLoS Genetics

Multiple Origins of the Pathogenic Yeast Candida orthopsilosis by Separate Hybridizations between Two Parental Species

(2016) Markus S. Schröder et al.   PLoS Genetics

Incidence and species distribution of candidaemia in Asia: a laboratory-based surveillance study

(2015) B.H. Tan et al.   CLINICAL MICROBIOLOGY AND INFECTION

Temperature and host preferences drive the diversification of Saccharomyces and other yeasts: a survey and the discovery of eight new yeast species

(2015) Kayla Sylvester et al.   FEMS YEAST RESEARCH

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

Finding a Missing Gene: EFG1 Regulates Morphogenesis in Candida tropicalis

(2015) Eugenio Mancera et al.   G3-Genes Genomes Genetics

The Genomic Aftermath of Hybridization in the Opportunistic Pathogen Candida metapsilosis

(2015) Leszek P. Pryszcz et al.   PLoS Genetics

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Skewer: a fast and accurate adapter trimmer for next-generation sequencing paired-end reads

(2014) Hongshan Jiang et al.   BMC BIOINFORMATICS

Multilocus microsatellite markers for molecular typing of Candida tropicalis isolates

(2014) Yuan Wu et al.   BMC MICROBIOLOGY

Genome Comparison of Candida orthopsilosis Clinical Strains Reveals the Existence of Hybrids between Two Distinct Subspecies

(2014) Leszek P. Pryszcz et al.   Genome Biology and Evolution

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

Parasexuality and Ploidy Change in Candida tropicalis

(2013) Riyad N. H. Seervai et al.   EUKARYOTIC CELL

Ignoring Heterozygous Sites Biases Phylogenomic Estimates of Divergence Times: Implications for the Evolutionary History of Microtus Voles

(2013) Heidi E.L. Lischer et al.   MOLECULAR BIOLOGY AND EVOLUTION

Topographic diversity of fungal and bacterial communities in human skin

(2013) Keisha Findley et al.   NATURE

SGAtools: one-stop analysis and visualization of array-based genetic interaction screens

(2013) Omar Wagih et al.   NUCLEIC ACIDS RESEARCH

Epidemiology of Candidemia in Latin America: A Laboratory-Based Survey

(2013) Marcio Nucci et al.   PLoS One

MTL–Independent Phenotypic Switching in Candida tropicalis and a Dual Role for Wor1 in Regulating Switching and Filamentation

(2013) Allison M. Porman et al.   PLoS Genetics

BEDOPS: high-performance genomic feature operations

(2012) Shane Neph et al.   BIOINFORMATICS

Analysis of gene evolution and metabolic pathways using the Candida Gene Order Browser

(2012) David A Fitzpatrick et al.   BMC GENOMICS

N -Acetylglucosamine Induces White-to-Opaque Switching and Mating in Candida tropicalis, Providing New Insights into Adaptation and Fungal Sexual Evolution

(2012) Jing Xie et al.   EUKARYOTIC CELL

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

On the Prospects of Whole-Genome Association Mapping in Saccharomyces cerevisiae

(2012) C. F. Connelly et al.   GENETICS

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Comparison of Human and Soil Candida tropicalis Isolates with Reduced Susceptibility to Fluconazole

(2012) Yun-Liang Yang et al.   PLoS One

Interactions Between Commensal Fungi and the C-Type Lectin Receptor Dectin-1 Influence Colitis

(2012) I. D. Iliev et al.   SCIENCE

Pichia sorbitophila , an Interspecies Yeast Hybrid, Reveals Early Steps of Genome Resolution After Polyploidization

(2012) Véronique Leh Louis et al.   G3-Genes Genomes Genetics

The genetic code of the fungal CTG clade

(2011) Manuel A.S. Santos et al.   COMPTES RENDUS BIOLOGIES

Genome-wide association analysis of clinical vs. nonclinical origin provides insights into Saccharomyces cerevisiae pathogenesis

(2011) L. A. H. MULLER et al.   MOLECULAR ECOLOGY

Saccharomyces cerevisiae Bat1 and Bat2 Aminotransferases Have Functionally Diverged from the Ancestral-Like Kluyveromyces lactis Orthologous Enzyme

(2011) Maritrini Colón et al.   PLoS One

Microbe domestication and the identification of the wild genetic stock of lager-brewing yeast

(2011) D. Libkind et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Discovery of a phenotypic switch regulating sexual mating in the opportunistic fungal pathogen Candida tropicalis

(2011) A. M. Porman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Candida tropicalis fungaemia: incidence, risk factors and mortality in a general hospital

(2010) P. Muñoz et al.   CLINICAL MICROBIOLOGY AND INFECTION

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Results from the ARTEMIS DISK Global Antifungal Surveillance Study, 1997 to 2007: a 10.5-Year Analysis of Susceptibilities of Candida Species to Fluconazole and Voriconazole as Determined by CLSI Standardized Disk Diffusion

(2010) M. A. Pfaller et al.   JOURNAL OF CLINICAL MICROBIOLOGY

National Surveillance of Fungemia in Denmark (2004 to 2009)

(2010) M. C. Arendrup et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Multidrug resistant yeasts in synanthropic wild birds

(2010) Alexander Lord et al.   Annals of Clinical Microbiology and Antimicrobials

Characterization of the Oral Fungal Microbiome (Mycobiome) in Healthy Individuals

(2010) Mahmoud A. Ghannoum et al.   PLoS Pathogens

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Widespread occurrence of chromosomal aneuploidy following the routine production ofCandida albicansmutants

(2009) Mélanie Arbour et al.   FEMS YEAST RESEARCH

Comparative genomics of the fungal pathogens Candida dubliniensis and Candida albicans

(2009) A. P. Jackson et al.   GENOME RESEARCH

Microsatellite analysis of genetic diversity among clinical and nonclinicalSaccharomyces cerevisiaeisolates suggests heterozygote advantage in clinical environments

(2009) LUDO A. H. MULLER et al.   MOLECULAR ECOLOGY

Evolution of pathogenicity and sexual reproduction in eight Candida genomes

(2009) Geraldine Butler et al.   NATURE

Population genomics of domestic and wild yeasts

(2009) Gianni Liti et al.   NATURE

Fermentative stress adaptation of hybrids within the Saccharomyces sensu stricto complex

(2008) C BELLOCH   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

Recent allopolyploid origin ofZygosaccharomyces rouxii strain ATCC 42981

(2008) Jonathan L. Gordon et al.   YEAST