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| Status |
Public on Sep 11, 2023 |
| Title |
Characterizing Pneumocystis carinii centromeres with ChIP-seq II |
| Organism |
Pneumocystis carinii |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Pneumocystis is a relevant genetic system to study centromere formation in relation with host adaptation. How centromeres are formed and maintained in strongly host adapted fungal pathogens is poorly investigated. Centromeres are genomic regions that coordinate accurate chromosomal segregation during mitosis and meiosis. Yet, despite their essential function, centromeres evolve rapidly across eukaryotes. CENP-A, a variant of histone H3 is the epigenetic marker that define centromeres in most eukaryotes. Centromeres are often the sites of chromosomal breaks which contribute to genome shuffling and promote speciation by inhibiting gene flow. Genome shuffling allows genome reconfiguration suitable for survival in new environment such as pathogen adaptation to new hosts. Here, we study the evolution of centromeres in closely related species of mammalian specific pathogens of the fungal phylum of Ascomycota. Long term culture of Pneumocystis species is currently untenable. Using heterologous complementation, we show that Pneumocystis CENP-A ortholog is functionally equivalent to fission yeast Cnp1. Using a short-term in vitro culture, infected animal models and ChIP-seq, we identified centromeres in three Pneumocystis species that diverged ~100 Mya ago. Each species has 17 unique short regional centromeres (< 10kb) in 17 monocentric chromosomes. The centromeres are flanked by heterochromatin. They span active genes, lack conserved DNA sequence motifs, and repeats.These features suggest an epigenetic specification of centromere function.
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| Overall design |
Chromatin immunoprecipitation DNA-sequencing (ChIP-seq) for centromeric histone CENP-A in Pneumocystis carinii. P. carinii organisms were collected from infected lungs of corticoids-induced immunocompromised Sprague-Dawley male rats. Organisms were cocultured with a suspension of A549 and LET1 cells for 7 days
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| Contributor(s) |
Cisse OH, Curran S, Kovacs J |
| Citation(s) |
37425787, 38380929 |
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| Submission date |
Apr 25, 2023 |
| Last update date |
May 10, 2024 |
| Contact name |
Ousmane Hamadoun Cisse |
| E-mail(s) |
ousmane.cisse@nih.gov
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| Phone |
301-594-2123
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| Organization name |
National Institutes of Health
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| Street address |
10 Center Dr,
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| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
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| Platforms (1) |
| GPL33206 |
HiSeq X Ten (Pneumocystis carinii) |
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| Samples (4)
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| This SubSeries is part of SuperSeries: |
| GSE255275 |
Regional Centromere Configuration in the Fungal Pathogens of Pneumocystis Genus |
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| Relations |
| BioProject |
PRJNA961820 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE230598_RAW.tar |
2.7 Mb |
(http)(custom) |
TAR (of BW, NARROWPEAK) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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