Genome-wide replication landscape of Candida glabrata

BMC Biology
Stéphane Descorps-DeclèreGuy-Franck Richard

Abstract

The opportunistic pathogen Candida glabrata is a member of the Saccharomycetaceae yeasts. Like its close relative Saccharomyces cerevisiae, it underwent a whole-genome duplication followed by an extensive loss of genes. Its genome contains a large number of very long tandem repeats, called megasatellites. In order to determine the whole replication program of the C. glabrata genome and its general chromosomal organization, we used deep-sequencing and chromosome conformation capture experiments. We identified 253 replication fork origins, genome wide. Centromeres, HML and HMR loci, and most histone genes are replicated early, whereas natural chromosomal breakpoints are located in late-replicating regions. In addition, 275 autonomously replicating sequences (ARS) were identified during ARS-capture experiments, and their relative fitness was determined during growth competition. Analysis of ARSs allowed us to identify a 17-bp consensus, similar to the S. cerevisiae ARS consensus sequence but slightly more constrained. Megasatellites are not in close proximity to replication origins or termini. Using chromosome conformation capture, we also show that early origins tend to cluster whereas non-subtelomeric megasatellites do not clust...Continue Reading

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Citations

Jun 8, 2018·Nature Communications·Nicolas AgierGilles Fischer
May 26, 2017·The Journal of Cell Biology·Carolin A Müller, Conrad A Nieduszynski
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Jun 17, 2021·Genome Biology and Evolution·Haniam MariaLaura N Rusche

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Datasets Mentioned

BETA
CBS138
PRJEB8571

Methods Mentioned

BETA
immunoprecipitation
FACS
PCR

Software Mentioned

BWA
R
GitHub
mpileup SAMtools
rmdup SAMtools
MAST
GIMSAN
Bowtie

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