Genome Sequencing and Comparative Genomics Analysis Revealed Pathogenic Potential in Penicillium capsulatum as a Novel Fungal Pathogen Belonging to Eurotiales

Siderophore Biosynthesis but Not Reductive Iron Assimilation Is Essential for the Dimorphic Fungus Nomuraea rileyi Conidiation, Dimorphism Transition, Resistance to Oxidative Stress, Pigmented Microsclerotium Formation, and Virulence

(2016) Yan Li et al.   Frontiers in Microbiology

Phylogenetic analyses of eurotiomycetous endophytes reveal their close affinities to Chaetothyriales, Eurotiales, and a new order – Phaeomoniellales

(2015) Ko-Hsuan Chen et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

The Pathogen-Host Interactions database (PHI-base): additions and future developments

(2014) Martin Urban et al.   NUCLEIC ACIDS RESEARCH

Phylogeny, identification and nomenclature of the genus Aspergillus

(2014) R.A. Samson et al.   STUDIES IN MYCOLOGY

Host Cell Invasion by Medically Important Fungi

(2014) D. C. Sheppard et al.   Cold Spring Harbor Perspectives in Medicine

An evaluation of the PacBio RS platform for sequencing and de novo assembly of a chloroplast genome

(2013) Marco Ferrarini et al.   BMC GENOMICS

Pulmonary fungus ball caused by Penicillium capsulatum in a patient with type 2 diabetes: a case report

(2013) Min Chen et al.   BMC INFECTIOUS DISEASES

Genomic comparative analysis and gene function prediction in infectious diseases: application to the investigation of a meningitis outbreak

(2013) Enrico Lavezzo et al.   BMC INFECTIOUS DISEASES

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

antiSMASH 2.0—a versatile platform for genome mining of secondary metabolite producers

(2013) Kai Blin et al.   NUCLEIC ACIDS RESEARCH

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Emerging fungal threats to animal, plant and ecosystem health

(2012) Matthew C. Fisher et al.   NATURE

ProtTest 3: fast selection of best-fit models of protein evolution

(2011) Diego Darriba et al.   BIOINFORMATICS

Sequencing technologies and genome sequencing

(2011) Chandra Shekhar Pareek et al.   JOURNAL OF APPLIED GENETICS

Endemic fungal infections in the Asia-Pacific region

(2011) A. Chakrabarti et al.   MEDICAL MYCOLOGY

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Phylogeny and nomenclature of the genus Talaromyces and taxa accommodated in Penicillium subgenus Biverticillium

(2011) R.A. Samson et al.   STUDIES IN MYCOLOGY

Phylogeny of Penicillium and the segregation of Trichocomaceae into three families

(2011) J. Houbraken et al.   STUDIES IN MYCOLOGY

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

Role of Trehalose Biosynthesis in Aspergillus fumigatus Development, Stress Response, and Virulence

(2010) N. Al-Bader et al.   INFECTION AND IMMUNITY

Impacts of biodiversity on the emergence and transmission of infectious diseases

(2010) Felicia Keesing et al.   NATURE

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

progressiveMauve: Multiple Genome Alignment with Gene Gain, Loss and Rearrangement

(2010) Aaron E. Darling et al.   PLoS One

What makes Aspergillus fumigatus a successful pathogen? Genes and molecules involved in invasive aspergillosis

(2010) Ana Abad et al.   REVISTA IBEROAMERICANA DE MICOLOGIA

Global Warming Will Bring New Fungal Diseases for Mammals

(2010) M. A. Garcia-Solache et al.   mBio

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Aspergillus fumigatus Survival in Alkaline and Extreme Zinc-Limiting Environments Relies on the Induction of a Zinc Homeostasis System Encoded by thezrfCandaspf2Genes

(2009) Jorge Amich et al.   EUKARYOTIC CELL

Aspergillus fumigatus: cell wall polysaccharides, their biosynthesis and organization

(2009) Amandine Gastebois et al.   Future Microbiology

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

Using native and syntenically mapped cDNA alignments to improve de novo gene finding

(2008) Mario Stanke et al.   BIOINFORMATICS

The Putative α-1,2-Mannosyltransferase AfMnt1 of the Opportunistic Fungal PathogenAspergillus fumigatusIs Required for Cell Wall Stability and Full Virulence

(2008) Johannes Wagener et al.   EUKARYOTIC CELL

Global trends in emerging infectious diseases

(2008) Kate E. Jones et al.   NATURE

Genome sequencing and analysis of the filamentous fungus Penicillium chrysogenum

(2008) Marco A van den Berg et al.   NATURE BIOTECHNOLOGY