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Regional centromeres in Candida lusitaniae lack pericentromeric heterochromatin

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Clavispora lusitaniae

PROVIDER: GSE71667 | GEO | 2015/09/14

SECONDARY ACCESSION(S): PRJNA291764

REPOSITORIES: GEO

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Regional centromeres in the yeast Candida lusitaniae lack pericentromeric heterochromatin.

Project description:Point centromeres are specified by a short consensus sequence that seeds kinetochore formation, whereas regional centromeres lack a conserved sequence and instead are epigenetically inherited. Regional centromeres are generally flanked by heterochromatin that ensures high levels of cohesin and promotes faithful chromosome segregation. However, it is not known whether regional centromeres require pericentromeric heterochromatin. In the yeast Candida lusitaniae, we identified a distinct type of regional centromere that lacks pericentromeric heterochromatin. Centromere locations were determined by ChIP-sequencing of two key centromere proteins, Cse4 and Mif2, and are consistent with bioinformatic predictions. The centromeric DNA sequence was unique for each chromosome and spanned 4-4.5 kbp, consistent with regional epigenetically inherited centromeres. However, unlike other regional centromeres, there was no evidence of pericentromeric heterochromatin in C. lusitaniae. In particular, flanking genes were expressed at a similar level to the rest of the genome, and a URA3 reporter inserted adjacent to a centromere was not repressed. In addition, regions flanking the centromeric core were not associated with hypoacetylated histones or a sirtuin deacetylase that generates heterochromatin in other yeast. Interestingly, the centromeric chromatin had a distinct pattern of histone modifications, being enriched for methylated H3K79 and H3R2 but lacking methylation of H3K4, which is found at other regional centromeres. Thus, not all regional centromeres require flanking heterochromatin.

| S-EPMC4593121 | biostudies-literature

Regional centromeres in Candida lusitaniae lack pericentromeric heterochromatin (ChIP-seq)

Project description:The goal of this study is to identifiy centromere locations of Candida lusitaniae through ChIP-Seq analysis. We applied ChIP-Seq on two centromere proteins: Cse4 and Mif2. After peak calling, we identified one peak in each of the 8 supercontigs of Candida lusitaniae which may represent the potential centromere location.

2015-09-14 | GSE71659 | GEO

Regional centromeres in Candida lusitaniae lack pericentromeric heterochromatin (RNA-seq)

2015-09-14 | GSE71658 | GEO

Regional centromeres in Candida lusitaniae lack pericentromeric heterochromatin (RNA-seq)

Project description:We sequenced mRNA from wild type and Hst1 knock out strains of Candida lusitaniae to generate the gene expression profiles and studied the differentially expressed genes between the two conditions. RNA profiles of wild type (WT) and Hst1 knockout of Candida lusitaniae were generated by deep sequencing

2015-09-14 | E-GEOD-71658 | biostudies-arrayexpress

Regional centromeres in Candida lusitaniae lack pericentromeric heterochromatin

Project description:Regional centromeres in Candida lusitaniae lack pericentromeric heterochromatin

| PRJNA291764 | ENA

Transcriptional Profiling of the sexual life cycle of Candida lusitaniae.

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-02-01 | E-GEOD-51794 | biostudies-arrayexpress

Transcriptional Profiling of the sexual life cycle of Candida lusitaniae.

Project description:This SuperSeries is composed of the SubSeries listed below.

2014-02-01 | GSE51794 | GEO

Heterochromatin state in fission yeast Schizosaccharomyces pombe

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-07-20 | E-GEOD-42850 | biostudies-arrayexpress

Candida lusitaniae mating

Project description:Transcriptional profiling of C. lusitaniae a and alpha cells mixed on 0.37% PDA (potato dextrose agar) for 0 hours (h) ,4h, and 12n hybridized against WT cells on YPD for 4 hours and also a and alpha ime2 deletion mutants mixed on 0.37% PDA for 4 hours hybridized against WT cells on YPD (yeast peptone dextrose) for 4h

2014-02-01 | GSE51788 | GEO

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

Project description:The centromere, on which kinetochore proteins assemble, ensures precise chromosome segregation. Centromeres are largely specified by the histone H3 variant CENP-A (also known as Cse4 in yeasts). Structurally, centromere DNA sequences are highly diverse in nature. However, the evolutionary consequence of these structural diversities on de novo CENP-A chromatin formation remains elusive. Here, we report the identification of centromeres, as the binding sites of four evolutionarily conserved kinetochore proteins, in the human pathogenic budding yeast Candida tropicalis. Each of the seven centromeres comprises a 2 to 5 kb non-repetitive mid core flanked by 2 to 5 kb inverted repeats. The repeat-associated centromeres of C. tropicalis all share a high degree of sequence conservation with each other and are strikingly diverged from the unique and mostly non-repetitive centromeres of related Candida species--Candida albicans, Candida dubliniensis, and Candida lusitaniae. Using a plasmid-based assay, we further demonstrate that pericentric inverted repeats and the underlying DNA sequence provide a structural determinant in CENP-A recruitment in C. tropicalis, as opposed to epigenetically regulated CENP-A loading at centromeres in C. albicans. Thus, the centromere structure and its influence on de novo CENP-A recruitment has been significantly rewired in closely related Candida species. Strikingly, the centromere structural properties along with role of pericentric repeats in de novo CENP-A loading in C. tropicalis are more reminiscent to those of the distantly related fission yeast Schizosaccharomyces pombe. Taken together, we demonstrate, for the first time, fission yeast-like repeat-associated centromeres in an ascomycetous budding yeast.

| S-EPMC4741521 | biostudies-literature

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