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| Status |
Public on Apr 16, 2024 |
| Title |
MNase-Seq analysis of wild-type Candida glabrata strain in RPMI-growth and macrophage-internalized conditions at 2 h and 10 h post-infection. |
| Organism |
Nakaseomyces glabratus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
MNase-sequencing analysis led to identification of 56,637 to 71,823 nucleosomes under RPMI-growth or macrophage-internalized conditions. Mapping of dynamic nucleosomes revealed that 12 to 24% of total nucleosomes were altered in their position, occupancy or fuzziness. Notably, while the nucleosome position shift was the most common dynamic event, the nucleosome fuzziness was the least observed change. Promoter regions were found to be nucleosome-depleted.
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| Overall design |
The study was designed to delineate the effect of the macrophage internal milieu on the chromatin dynamics in C. glabrata. C. glabrata wild-type cells were grown either in RPMI medium or infected to human THP-1 macrophages. After 2 h and 10 h, C. glabrata cells were collected, and chromatin structure was analysed via MNase-Sequencing approach. The experiment was performed with two biological replicates.
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| Contributor(s) |
Kumar K, Pareek A, Kaur R |
| Citation(s) |
38632999 |
| |
| Submission date |
Jun 12, 2023 |
| Last update date |
May 01, 2024 |
| Contact name |
Rupinder Kaur |
| Organization name |
Centre for DNA Fingerprinting and Diagnostics
|
| Lab |
Laboratory of Fungal Pathogenesis
|
| Street address |
Inner ring road, Uppal
|
| City |
Hyderabad |
| State/province |
Telangana |
| ZIP/Postal code |
500039 |
| Country |
India |
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| Platforms (1) |
| GPL33483 |
Illumina HiSeq 2500 (Nakaseomyces glabratus) |
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| Samples (8)
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| GSM7473129 |
KK-1: Macrophage internalized for 10 h; Replicate-1 |
| GSM7473130 |
KK-1: Macrophage internalized for 10 h; Replicate-2 |
| GSM7473131 |
KK-2: RPMI-grown for 10 h; Replicate-1 |
| GSM7473132 |
KK-2: RPMI-grown for 10 h; Replicate-2 |
| GSM7473133 |
KK-3: Macrophage internalized for 2 h; Replicate-1 |
| GSM7473134 |
KK-3: Macrophage internalized for 2 h; Replicate-2 |
| GSM7473135 |
KK-4: RPMI-grown for 2 h; Replicate-1 |
| GSM7473136 |
KK-4: RPMI-grown for 2 h; Replicate-2 |
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| This SubSeries is part of SuperSeries: |
| GSE234809 |
SWI/SNF complex-mediated chromatin remodelling in Candida glabrata is vital for immune evasion |
|
| Relations |
| BioProject |
PRJNA982736 |
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