Project description:We measured protein translation (by ribosome profiling) and RNA levels (by polyA-enriched RNA-seq) in Cryptococcus neoformans strain H99 and Cryptococcus neoformans strain JEC21. This is the first transcriptome-wide map of translation in this species complex.
Project description:Cryptococcus neoformans lab strain H99 was used to obtain tunicamycin adaptors. Transcriptome of one aneuploid adaptor, FY1381, was compared to parent.
Project description:Cryptococcus neoformans is a ubiquitous environmental fungus that can also cause life-threatening infections in immunocompromised individuals. As a competent pathogen, Cryptococcus needs to reprogram its metabolism to adapt the drastic differences between environmental niches and host niches. A well-curated genome-scale metabolic model (GEM) is a powerful tool to facilitate the investigation of the metabolic resilience of an organism Here we reconstructed and validated iCNG99, a GEM for C. neoformans reference strain H99, and evaluated its predictive performance across 43 growth conditions and gene essentiality benchmarks. The model achieved high confidence essential gene prediction (precision = 0.77) and recapitulated pathways targeted by clinically available antifungals. Integration with transcriptomic and metabolomic data enabled iCNG99 to capture condition-specific metabolic adaptations and to identify candidate vulnerabilities in drug tolerance, revealing metabolic adaptations associated with survival within host conditions and drug susceptibility. Together, iCNG99 provides a systems-level computational platform for investigating C. neoformans metabolism and for prioritizing antifungal vulnerabilities.
Project description:We exposed Cryptococcus neoformans lab strain H99 to tunicamycin and obtained some adaptors. We did whole genome sequencing of these adaptors as well as the parent.
Project description:In this study, H99 is a wild type Cryptococcus neoformans strain. TJ1854 is a chromosome 4 disomy strain derived from H99. Approximately 1 million cells of TJ1854 were spread on YPD plate supplemented with 6ug/ml amphtericin B. Randomlyh 27 adaptors (TJ2487-TJ2513) were chosen. These adaptors were sequenced.
