Polymorphic centromere locations in the pathogenic yeast Candida parapsilosis

High-resolution mycobiota analysis reveals dynamic intestinal translocation preceding invasive candidiasis

(2020) Bing Zhai et al.   NATURE MEDICINE

Plasmid-Based CRISPR-Cas9 Gene Editing in Multiple Candida Species

(2019) Lisa Lombardi et al.   mSphere

Cis and Trans Chromosomal Interactions Define Pericentric Boundaries in the Absence of Conventional Heterochromatin

(2019) Lakshmi Sreekumar et al.   GENETICS

Assembly of long, error-prone reads using repeat graphs

(2019) Mikhail Kolmogorov et al.   NATURE BIOTECHNOLOGY

Characterization of the Candida orthopsilosis agglutinin-like sequence (ALS) genes

(2019) Lisa Lombardi et al.   PLoS One

NanoPack: visualizing and processing long-read sequencing data

(2018) Wouter De Coster et al.   BIOINFORMATICS

What is behind “centromere repositioning”?

(2018) Ingo Schubert   CHROMOSOMA

Non-B-Form DNA Is Enriched at Centromeres

(2018) Sivakanthan Kasinathan et al.   MOLECULAR BIOLOGY AND EVOLUTION

Population genomics shows no distinction between pathogenic Candida krusei and environmental Pichia kudriavzevii: One species, four names

(2018) Alexander P. Douglass et al.   PLoS Pathogens

Dal81 Regulates Expression of Arginine Metabolism Genes in Candida parapsilosis

(2018) Siobhan A. Turner et al.   mSphere

Canu: scalable and accurate long-read assembly via adaptivek-mer weighting and repeat separation

(2017) Sergey Koren et al.   GENOME RESEARCH

Gene editing in clinical isolates of Candida parapsilosis using CRISPR/Cas9

(2017) Lisa Lombardi et al.   Scientific Reports

Fungal genome and mating system transitions facilitated by chromosomal translocations involving intercentromeric recombination

(2017) Sheng Sun et al.   PLOS BIOLOGY

Centromeres of the YeastKomagataella phaffii(Pichia pastoris)Have a Simple Inverted-Repeat Structure

(2016) Aisling Y. Coughlan et al.   Genome Biology and Evolution

Reconstruction of ancestral chromosome architecture and gene repertoire reveals principles of genome evolution in a model yeast genus

(2016) Nikolaos Vakirlis et al.   GENOME RESEARCH

Identification of Non-Coding RNAs in the Candida parapsilosis Species Group

(2016) Paul D. Donovan et al.   PLoS One

Reconstructing the Backbone of the Saccharomycotina Yeast Phylogeny Using Genome-Scale Data

(2016) Xing-Xing Shen et al.   G3-Genes Genomes Genetics

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

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

Repeat-Associated Fission Yeast-Like Regional Centromeres in the Ascomycetous Budding Yeast Candida tropicalis

(2016) Gautam Chatterjee et al.   PLoS Genetics

Discovery of an Unconventional Centromere in Budding Yeast Redefines Evolution of Point Centromeres

(2015) Norihiko Kobayashi et al.   CURRENT BIOLOGY

A complete bacterial genome assembled de novo using only nanopore sequencing data

(2015) Nicholas J Loman et al.   NATURE METHODS

Regional centromeres in the yeastCandida lusitaniaelack pericentromeric heterochromatin

(2015) Shivali Kapoor et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Genomic Aftermath of Hybridization in the Opportunistic Pathogen Candida metapsilosis

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

Centromere sliding on a mammalian chromosome

(2014) Stefania Purgato et al.   CHROMOSOMA

SynChro: A Fast and Easy Tool to Reconstruct and Visualize Synteny Blocks along Eukaryotic Chromosomes

(2014) Guénola Drillon et al.   PLoS One

Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement

(2014) Bruce J. Walker et al.   PLoS One

Analysis of the Genome and Transcriptome of Cryptococcus neoformans var. grubii Reveals Complex RNA Expression and Microevolution Leading to Virulence Attenuation

(2014) Guilhem Janbon et al.   PLoS Genetics

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

Complete DNA Sequence of Kuraishia capsulata Illustrates Novel Genomic Features among Budding Yeasts (Saccharomycotina)

(2013) Lucia Morales et al.   Genome Biology and Evolution

Unexpected Genomic Variability in Clinical and Environmental Strains of the Pathogenic Yeast Candida parapsilosis

(2013) Leszek P. Pryszcz et al.   Genome Biology and Evolution

Efficient neocentromere formation is suppressed by gene conversion to maintain centromere function at native physical chromosomal loci in Candida albicans

(2013) J. Thakur et al.   GENOME RESEARCH

Comparative Genome Analysis and Gene Finding in Candida Species Using CGOB

(2013) Sarah L. Maguire et al.   MOLECULAR BIOLOGY AND EVOLUTION

Centromere-Like Regions in the Budding Yeast Genome

(2013) Philippe Lefrançois et al.   PLoS Genetics

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

(2012) David A Fitzpatrick et al.   BMC GENOMICS

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

Neocentromeres and epigenetically inherited features of centromeres

(2012) Laura S. Burrack et al.   CHROMOSOME RESEARCH

"Point" Centromeres of Saccharomyces Harbor Single Centromere-Specific Nucleosomes

(2012) S. Henikoff et al.   GENETICS

Sequence and Analysis of the Genome of the Pathogenic Yeast Candida orthopsilosis

(2012) Alessandro Riccombeni et al.   PLoS One

ViennaRNA Package 2.0

(2011) Ronny Lorenz et al.   Algorithms for Molecular Biology

Endogenous Transcription at the Centromere Facilitates Centromere Activity in Budding Yeast

(2011) Kentaro Ohkuni et al.   CURRENT BIOLOGY

Diversity in Requirement of Genetic and Epigenetic Factors for Centromere Function in Fungi

(2011) Babhrubahan Roy et al.   EUKARYOTIC CELL

Centromere repositioning in mammals

(2011) M Rocchi et al.   HEREDITY

Comparative and demographic analysis of orang-utan genomes

(2011) Devin P. Locke et al.   NATURE

Mechanisms of Chromosome Number Evolution in Yeast

(2011) Jonathan L. Gordon et al.   PLoS Genetics

DDE transposases: Structural similarity and diversity

(2010) Irina V. Nesmelova et al.   ADVANCED DRUG DELIVERY REVIEWS

Circoletto: visualizing sequence similarity with Circos

(2010) N. Darzentas   BIOINFORMATICS

BigWig and BigBed: enabling browsing of large distributed datasets

(2010) W. J. Kent et al.   BIOINFORMATICS

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

(2010) Heng Li et al.   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Chromosomal G + C Content Evolution in Yeasts: Systematic Interspecies Differences, and GC-Poor Troughs at Centromeres

(2010) Denise B. Lynch et al.   Genome Biology and Evolution

Epigenetically-Inherited Centromere and Neocentromere DNA Replicates Earliest in S-Phase

(2010) Amnon Koren et al.   PLoS Genetics

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Major Evolutionary Transitions in Centromere Complexity

(2009) Harmit S. Malik et al.   CELL

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

Evolution of pathogenicity and sexual reproduction in eight Candida genomes

(2009) Geraldine Butler et al.   NATURE

Genome Sequence, Comparative Analysis, and Population Genetics of the Domestic Horse

(2009) C. M. Wade et al.   SCIENCE

Neocentromeres Form Efficiently at Multiple Possible Loci in Candida albicans

(2009) Carrie Ketel et al.   PLoS Genetics

Primate chromosome evolution: Ancestral karyotypes, marker order and neocentromeres

(2008) R. Stanyon et al.   CHROMOSOME RESEARCH

Rapid Evolution of Yeast Centromeres in the Absence of Drive

(2008) D. Bensasson et al.   GENETICS

Derivation of consensus sequence for protein binding site in Yarrowia lipolytica centromere

(2008) Takayoshi Yamane et al.   JOURNAL OF BIOSCIENCE AND BIOENGINEERING

Rapid evolution of Cse4p-rich centromeric DNA sequences in closely related pathogenic yeasts, Candida albicans and Candida dubliniensis

(2008) S. Padmanabhan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Heterochromatin and RNAi Are Required to Establish CENP-A Chromatin at Centromeres

(2008) H. D. Folco et al.   SCIENCE