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PROVIDER: PRJNA1327491 | ENA |
REPOSITORIES: ENA
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Project description:Although many studies have focused on dimorphic switching, noncoding RNAs in Talaromyces marneffei have been neglected until now. rRNA depletion RNA-seq with or without RNase R treatment were performed in mycelium and yeast conditions of Talaromyces marneffei by to unveil the functions of circRNAs in dimorphic switching.
2023-05-08 | GSE231909 | GEO
Project description:The dynamic transition between yeast and hyphal forms is a crucial adaptive mechanism for many human pathogenic fungi, including Talaromyces marneffei, a thermodimorphic fungus responsible for causing fatal talaromycosis globally. This study aimed to uncover the genetic mechanisms underlying the dimorphic transition in T. marneffei, focusing on the MADS-box transcription factor family. Using adaptive laboratory evolution, we identified MADS-box genes enriched in dimorphism-defective mutants, revealing a notable expansion of this gene family in T. marneffei. Phylogenetic analysis and functional genetic manipulations confirmed the involvement of mads9, mads10, and mads13 in regulating the yeast-hypha transition. Integrating RNA sequencing (RNA-seq) and chromatin immunoprecipitation sequencing (ChIP-seq), we demonstrated that these transcription factors target genes involved in transmembrane transport, redox processes, and cellulose binding. Our findings not only clarify the role and regulatory mechanisms of the MADS-box family in dimorphic transitions but also present a valuable strategy for identifying regulatory genes based on morphological variations and high-throughput sequencing, paving the way for further systematic genetic studies of fungal temperature adaptation.
2025-05-21 | GSE279912 | GEO
Project description:The dynamic transition between yeast and hyphal forms is a crucial adaptive mechanism for many human pathogenic fungi, including Talaromyces marneffei, a thermodimorphic fungus responsible for causing fatal talaromycosis globally. This study aimed to uncover the genetic mechanisms underlying the dimorphic transition in T. marneffei, focusing on the MADS-box transcription factor family. Using adaptive laboratory evolution, we identified MADS-box genes enriched in dimorphism-defective mutants, revealing a notable expansion of this gene family in T. marneffei. Phylogenetic analysis and functional genetic manipulations confirmed the involvement of mads9, mads10, and mads13 in regulating the yeast-hypha transition. Integrating RNA sequencing (RNA-seq) and chromatin immunoprecipitation sequencing (ChIP-seq), we demonstrated that these transcription factors target genes involved in transmembrane transport, redox processes, and cellulose binding. Our findings not only clarify the role and regulatory mechanisms of the MADS-box family in dimorphic transitions but also present a valuable strategy for identifying regulatory genes based on morphological variations and high-throughput sequencing, paving the way for further systematic genetic studies of fungal temperature adaptation.
2025-05-21 | GSE279913 | GEO
Project description:Penicillium marneffei (Talaromyces marneffei) is an opportunistic human pathogen that can grow in a multicellular hyphal form at 25°C or a unicellular fission yeast form at 37°C, and can switch between these two forms in response to temperature. The yeast form is found in infected individuals and represents the pathogenic phase. In response to specific environmental cues, the hyphal form can undergo asexual development (conidiation) the produce a differentiated multicellular structure called a conidiophore which produces dormant spores (conidia). Inhaled conidia initiate infection. To identify genes that are important during the early stages in the transition from hyphal to yeast and yeast to hyphal cells transcriptional profiling was performed with a custom microarray consisting of ~42% of the predicted P. marneffei genes and RNA from P. marneffei hyphal cells switched to growth at 37°C for 6 hours (hyphal-yeast switch) and yeast cells switched to growth at 25°C for 6 hours (yeast-hyphal switch).
2013-11-21 | GSE51110 | GEO
Project description:Penicillium marneffei (Talaromyces marneffei) is an opportunistic human pathogen that can grow in a multicellular hyphal form at 25M-BM-0C or a unicellular fission yeast form at 37M-BM-0C, and can switch between these two forms in response to temperature. The yeast form is found in infected individuals and represents the pathogenic phase. In response to specific environmental cues, the hyphal form can undergo asexual development (conidiation) the produce a differentiated multicellular structure called a conidiophore which produces dormant spores (conidia). Inhaled conidia initiate infection. To identify genes that are important during the early stages in the transition from hyphal to yeast and yeast to hyphal cells transcriptional profiling was performed with a custom microarray consisting of ~42% of the predicted P. marneffei genes and RNA from P. marneffei hyphal cells switched to growth at 37M-BM-0C for 6 hours (hyphal-yeast switch) and yeast cells switched to growth at 25M-BM-0C for 6 hours (yeast-hyphal switch). A custom microarray consisting of short, random genomic fragments from P. marneffei (~42% of the predicted genes) was generated using PCR products of the inserts from two independent DNA libraries constructed from genomic DNA of the P. marneffei type strain FRR2161. PCR products from previously cloned P. marneffei genes with known expression profiles were included as controls on the microarray. Total RNA from hyphal cells before and after switching to growth at 37M-BM-0C for 6 hours (hyphal-yeast switch) and yeast cells before and after switching to growth at 25M-BM-0C for 6 hours (yeast-hyphal switch) were used in pairwise combinations on the microarrays. Three biological replicate cultures were prepared for each experiment.
2013-11-21 | E-GEOD-51110 | biostudies-arrayexpress
Project description:Sporotrichosis, an implantation mycosis caused by the dimorphic fungus Sporothrix schenckii, gained attention over the two last decades due to its broad geographic range and prevalence in tropical and subtropical areas. The dimorphic switching from hyphal form to the yeast form is essential for the pathogenesis of S. schenckii. During the mycelium-to-yeast transition, there are many changes in asexual development, yeast-phase cell formation, cell wall integrity, and melanin synthesis. However, the mechanisms of the signaling pathways associated with these process remain unclear. In this study, transcriptome sequencing of both the yeast stage and mycelium of S. schenckii was carried out. The results showed that 12217 genes, including genes involved in signal transduction and chitin synthesis, were expressed differentially between the two stages. According to these results, a map of the signaling pathways, related to the dimorphic switch, was drawn. Overall, the transcriptome data and analysis presented here lay the foundation for further research into the molecular mechanisms controlling the dimorphic switch of S. schenckii and support the development of anti-S. schenckii strategies targeting genes related to signaling pathways.
2019-06-27 | GSE133322 | GEO
Project description:Penicillium marneffei (Talaromyces marneffei) is an opportunistic human pathogen that can grow in a multicellular hyphal form at 25°C or a unicellular fission yeast form at 37°C, and can switch between these two forms in response to temperature. The yeast form is found in infected individuals and represents the pathogenic phase. In response to specific environmental cues, the hyphal form can undergo asexual development (conidiation) the produce a differentiated multicellular structure called a conidiophore which produces dormant spores (conidia). Inhaled conidia initiate infection. To identify genes that are ‘phase or cell-state specific’ transcriptional profiling was performed with a custom microarray consisting of ~42% of the predicted P. marneffei genes and RNA from P. marneffei hyphal, yeast and conidiation cell types.
2013-11-21 | GSE51109 | GEO
Project description:RNA-seq of Talaromyces marneffei under mycelium and yeast conditions
| PRJNA970217 | ENA
Project description:Penicillium marneffei (Talaromyces marneffei) is an opportunistic human pathogen that can grow in a multicellular hyphal form at 25M-BM-0C or a unicellular fission yeast form at 37M-BM-0C, and can switch between these two forms in response to temperature. The yeast form is found in infected individuals and represents the pathogenic phase. In response to specific environmental cues, the hyphal form can undergo asexual development (conidiation) the produce a differentiated multicellular structure called a conidiophore which produces dormant spores (conidia). Inhaled conidia initiate infection. To identify genes that are M-bM-^@M-^Xphase or cell-state specificM-bM-^@M-^Y transcriptional profiling was performed with a custom microarray consisting of ~42% of the predicted P. marneffei genes and RNA from P. marneffei hyphal, yeast and conidiation cell types. A custom microarray consisting of short, random genomic fragments from P. marneffei (~42% of the predicted genes) was generated using PCR products of the inserts from two independent DNA libraries constructed from genomic DNA of the P. marneffei type strain FRR2161. PCR products from previously cloned P. marneffei genes with known expression profiles were included as controls on the microarray. Total RNA from hyphal, yeast or conidiation cell types was prepared and used in pairwise combinations (conidiation versus hyphal cells, conidiation versus yeast cells and hyphal versus yeast cells) on the microarrays. Three biological replicate cultures were prepared for each experiment.
2013-11-21 | E-GEOD-51109 | biostudies-arrayexpress
Project description:Talaromyces marneffei is the third most common infectious pathogen in AIDS patients and leads to the highest death rate in Guangxi, China. The lack of reliable biomarkers is one of the major obstacles in current clinical diagnosis, which largely contributes to this high mortality. Here, we present a study that aimed at identifying diagnostic biomarker candidates through genome-wide prediction and functional annotation of Talaromyces marneffei secreted proteins. A total of 584 secreted proteins then emerged, including 382 classical and 202 non-classical ones. Among them, 87 newly obtained functional annotations in this study. The annotated proteins were further evaluated by combining RNA profiling and homology comparison. Three proteins were ultimately highlighted as biomarker candidates with robust expression and remarkable specificity. The predicted phosphoinositide phospholipase C and the galactomannoprotein were suggested playing an interactive immune game though metabolism of arachidonic acid. And therefore, they hold promises in developing new tools for clinical diagnosis of Talaromyces marneffei, possibly also serve as molecular targets of future therapy.
2024-06-20 | GSE266975 | GEO