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Endogenous short RNAs in Mucor circinelloides sequenced on the Illumina platform (Solexa)

ABSTRACT: We sequenced Endogenous short RNAs in Mucor circinelloides fungus grown in standard liquid culture. Short RNAs were profiled in wild type, Dicer-like 1 mutant (dcl1-), Dicer-like 2 mutant (dcl2-) and double Dicer mutant (dcl1-/dcl2-) strains. We identified many loci that produced less short RNAs in the dcl2- strain suggesting that DCL2 is the major protein generating short RNAs in Mucor circinelloides.

ORGANISM(S): Mucor circinelloides

PROVIDER: GSE18958 | GEO | 2010/04/28

SECONDARY ACCESSION(S): PRJNA120995

REPOSITORIES: GEO

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Endogenous short RNAs in Mucor circinelloides sequenced on the Illumina platform (Solexa)

Project description:We sequenced Endogenous short RNAs in Mucor circinelloides fungus grown in standard liquid culture. Short RNAs were profiled in wild type, Dicer-like 1 mutant (dcl1-), Dicer-like 2 mutant (dcl2-) and double Dicer mutant (dcl1-/dcl2-) strains. We identified many loci that produced less short RNAs in the dcl2- strain suggesting that DCL2 is the major protein generating short RNAs in Mucor circinelloides. Endogenous short RNAs were profiled in wild type, single and double dcl mutant strains.

2010-04-28 | E-GEOD-18958 | biostudies-arrayexpress

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Project description:Here, we have studied the first stage of this infection—the interaction of Mucor circinelloides spores with phagocytic cells—from an integrated transcriptomic and functional perspective. Our transcriptomic results showed that a relevant gene network is remodelled in response to phagocytosis, enriched in crucial functions to survive the phagosome, such as nutritional adaptation and response to oxidative stress. An additional transcriptomic analysis of atf1 and atf2 mutants unveiled the complex gene network of secondarily regulated genes involved in the response to phagocytosis. These new insights into the initial phase of mucormycosis define genetic regulators and molecular processes that could serve as pharmacological targets.

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Project description:The filamentous fungus Mucor circinelloides VI 04473 (indicated by MC1 in these data) was exposed to treatments known to trigger the accumulation of lipids in fungal cells, in order to investigate the genomic basis of this trait. Treatments consisted of different levels of calcium and inorganic phosphorus substrate in the growth media used for cultivation: For calcium, the two levels were calcium present in a concentration of 0.1 g/L (Ca1), and absence of calcium (Ca0). For phosphorus, there were three different levels: The reference concentration P1 (phosphate salts in a concentration of 7 g/L KH2PO4 and 2 g/L Na2HPO4), four times the reference concentration (P4), and half the reference concentration (P0.5). The combination of the different levels of calcium and phosphorus resulted in six different growth media, indicated in these data by numbers _1 - _6: 1 = Ca1P1, 2 = Ca1P4, 3 = Ca1P0.5, 4 = Ca0P1, 5 = Ca0P4, 6 = Ca0P0.5. There were 3-4 replicates per unique growth media, indicated by R1-R4 . The biomass was washed and harvested after 5 days of cultivation. RNA was extracted from the biomass and sequenced, followed by analysis of the transcriptome (genes differentially expressed between treatments).

2023-09-15 | E-MTAB-13309 | biostudies-arrayexpress

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