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E-GEOD-21177 - Molecular and Functional Characterization of the role of RNA silencing components in Cryptococcus neoformans [RNAi_Serotype D]

Status
Released on 1 May 2010, last updated on 2 May 2014
Organism
Cryptococcus neoformans var. neoformans JEC21
Samples (12)
Array (1)
Protocols (8)
Description
The RNA interference (RNAi) mediated by homology-dependent degradation of the target mRNA with small RNA molecules plays a key role in controlling transcription and translation processes in a number of eukaryotic organisms. The RNAi machinery is also evolutionarily conserved in a wide variety of fungal species, including pathogenic fungi. To elucidate the physiological functions of the RNAi pathway in Cryptococcus neoformans that causes fungal meningitis, here we performed genetic analyses for genes encoding Argonaute (AGO1 and AGO2), RdRP (RDP1), and Dicers (DCR1 and DCR2) in both serotype A and D C. neoformans. The present study shows that Ago1, Rdp1, and Dcr2 are the major components of the RNAi process occurring in C. neoformans. However, the RNAi machinery is not involved in regulation of production of two virulence factors (capsule and melanin), sexual differentiation, and diverse stress response. To further gain insights into the global regulatory circuit governed by the RNAi pathway, comparative transcriptome analysis using the serotype A and D RNAi mutants was performed. Notably, an increase in transcript abundance of active transposons, such as T2 and T3, was observed in the rdp1Δ mutant. Therefore, this study can improve our understanding of the role of the RNAi genes in human fungal pathogens including C. neoformans. RNAi_D: 6 slides are used in this analysis, 3 biological replicate experiments are performed, total RNAs are extracted from 4 strains (NE519 MAT alpha, NE520 MAT a backcrossed Wild type strain, NE517 rdp1 mutant MAT alpha, NE518 rdp1 mutant MAT a). We use Cy5 as rdp1 mutant dye and Cy3 as a WT dye
Experiment type
transcription profiling by array 
Contacts
Anna Floyd, Dong-Hoon Yang, Frédérique Moyrand, Guilhem Janbon, Joseph Heitman, Kwang-Woo Jung, Shinae Maeng, Yong-Sun Bahn, Young-Joon Ko
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-21177.idf.txt
Sample and data relationshipE-GEOD-21177.sdrf.txt
Raw data (1)E-GEOD-21177.raw.1.zip
Processed data (1)E-GEOD-21177.processed.1.zip
Array designA-GEOD-8638.adf.txt
R ExpressionSetE-GEOD-21177.eSet.r
Links