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

ABSTRACT: 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.

ORGANISM(S): Clavispora lusitaniae

PROVIDER: GSE71658 | GEO | 2015/09/14

SECONDARY ACCESSION(S): PRJNA291763

REPOSITORIES: GEO

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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 (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.

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Regional centromeres in Candida lusitaniae lack pericentromeric heterochromatin

Project description:Regional centromeres in Candida lusitaniae lack pericentromeric heterochromatin

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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.

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Regional centromeres in Candida lusitaniae lack pericentromeric heterochromatin

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

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