|
| Status |
Public on Nov 10, 2013 |
| Title |
The Cryptococcus transcriptome at the site of human meningitis |
| Organism |
Cryptococcus neoformans var. grubii |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Cryptococcus neoformans is a major cause of fungal meningitis in immunocompromised individuals worldwide. Studies have categorized the transcriptome of Cryptococcus under various stresses, such as temperature, nitric oxide, iron, antifungal drugs and macrophages. However, an accurate and comprehensive transcriptome profiling of C. neoformans in the human host may allow an even better understanding of its survival and disease production. In this study, we isolated RNA from yeast cells taken directly from CSF of two individuals with cryptococcal meningitis. RNA-Seq was used to generate and compare transcriptional profiles from those yeast cells exposed to three environmental conditions. Under same conditions, similar expression patterns were found between the two strains with different genotypes. Yeast cells from in vivo CSF appear to be more metabolically active compared to those exposed to ex vivo CSF. Moreover, genes that were identified as significantly up-regulated in both ex vivo CSF and in vivo CSF conditions compared with growth in YPD appear to be important for the virulence of Cryptococcus. In the central nervous system, differentially expressed genes, single nucleotide variants and novel genes between strains were identified to emphasize that strains have consensus expression patterns but they do have their unique features. Genes with transporter functions were found to be enriched in the regulated transcripts demonstrating this important function of yeasts under host stress. These findings provide the platform for further interrogation into how this yeast survives in humans to provide identification of possible antifungal target(s) and/or genetic signatures to predict outcome.
|
| |
|
| Overall design |
Examination of mRNA expression levels under three different conditions of two different strains with different genotypes
|
| |
|
| Contributor(s) |
Chen Y, Perfect J |
| Citation(s) |
24496797 |
| |
| Submission date |
Oct 23, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
John Perfect |
| E-mail(s) |
john.perfect@dm.duke.edu
|
| Organization name |
Duke University Medical Center
|
| Department |
Division of Infectious Disease
|
| Lab |
Perfect Lab
|
| Street address |
0557 Duke South, blue zone
|
| City |
Durham |
| State/province |
NC |
| ZIP/Postal code |
27710 |
| Country |
USA |
| |
|
| Platforms (2) |
| GPL17123 |
Illumina HiSeq 2000 (Cryptococcus neoformans var. grubii) |
| GPL17822 |
Illumina Genome Analyzer (Cryptococcus neoformans var. grubii) |
|
| Samples (6)
|
|
| Relations |
| BioProject |
PRJNA223528 |
| SRA |
SRP031844 |
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