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Cryptococcus neoformans gene expression in YPD and Minimal Media of Wild type (WT) and ALL1 mutant cells

ABSTRACT: To examine the comparative transcription profile of WT and ALL1 mutant cells in in vitro conditions to determine genes resposible for hypervirulent phenotype of ALL1 mutant cells. Using transcriptional profiling, we determined that many genes involved in oxidation reduction processes and iron homeostasis were differentially transcribed between the wild type and the mutant strain

ORGANISM(S): Cryptococcus neoformans

PROVIDER: GSE45688 | GEO | 2013/04/01

SECONDARY ACCESSION(S): PRJNA195610

REPOSITORIES: GEO

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Cryptococcus neoformans gene expression in YPD and Minimal Media of Wild type (WT) and ALL1 mutant cells

Project description:To examine the comparative transcription profile of WT and ALL1 mutant cells in in vitro conditions to determine genes resposible for hypervirulent phenotype of ALL1 mutant cells. Using transcriptional profiling, we determined that many genes involved in oxidation reduction processes and iron homeostasis were differentially transcribed between the wild type and the mutant strain For arrays, total RNA was isolated from WT and ALL1 mutant using Qiagen RNeasy Kit. For RNA extraction, Wt and ALL1 mutant were grown in two different culture medium conditions including minimal media and YPD broth. Cells were grown for overnight, diluted 1:100 and then again grown overnight or up to an OD of 0.6-0.7 with agitation (150rpm) at 37°C.

2013-04-01 | E-GEOD-45688 | biostudies-arrayexpress

Cryptococcus neoformans gene expression in minimal media of wild type (WT) and ALL2 mutant (all2Δ) cells

Project description:To examine the comparative transcription profile of WT and all2Δ mutant cells in in vitro conditions to determine genes responsible for hypervirulent phenotype of all2Δ cells. Using transcriptional profiling, we determined that many genes involved in transport were differentially transcribed between the wild type and the mutant strain. With the help of further experiments we could rule out that ALL2 has a unique function in maintaining the intracellular pH under acidic conditions.

2015-12-09 | GSE74217 | GEO

Cryptococcus neoformans gene expression in minimal media of wild type (WT) and ALL2 mutant (all2Î) cells

Project description:To examine the comparative transcription profile of WT and all2Î mutant cells in in vitro conditions to determine genes responsible for hypervirulent phenotype of all2Î cells. Using transcriptional profiling, we determined that many genes involved in transport were differentially transcribed between the wild type and the mutant strain. With the help of further experiments we could rule out that ALL2 has a unique function in maintaining the intracellular pH under acidic conditions. For arrays, total RNA was isolated from WT and all2Î mutant using Qiagen RNeasy Kit. For RNA extraction, WT and all2Î mutant were grown in minimal media. Cells were grown for overnight, diluted 1:100 and then again grown overnight or up to an OD of 0.6-0.7 with agitation (150rpm) at 37Â°C.

2015-12-09 | E-GEOD-74217 | biostudies-arrayexpress

Cryptococcus neoformans gene expression in minimal media of wild type (WT) and all1all2Δ mutant cells

Project description:To examine the comparative transcription profile of WT and all1all2Δ mutant cells in in vitro conditions to determine genes resposible for hyporvirulent phenotype of all1all2Δ mutant cells. Using transcriptional profiling, we determined that many genes involved in amino acid transport were differentially transcribed between the wild type and the all1all2Δ mutant strain. The genes differentially expressed in double mutant of ALL1 ALL2 did not overlap with ALL1 and ALL2 comparative transcriptomes with RC2 (WT).

2015-12-09 | GSE74218 | GEO

Cryptococcus neoformans gene expression in minimal media of wild type (WT) and all1all2Î mutant cells

Project description:To examine the comparative transcription profile of WT and all1all2Î mutant cells in in vitro conditions to determine genes resposible for hyporvirulent phenotype of all1all2Î mutant cells. Using transcriptional profiling, we determined that many genes involved in amino acid transport were differentially transcribed between the wild type and the all1all2Î mutant strain. The genes differentially expressed in double mutant of ALL1 ALL2 did not overlap with ALL1 and ALL2 comparative transcriptomes with RC2 (WT). For arrays, total RNA was isolated from WT and all1all2Î mutant using Qiagen RNeasy Kit. For RNA extraction, WT and all1all2Î mutant were grown in minimal media. Cells were grown for overnight, diluted 1:100 and then again grown overnight or up to an OD of 0.6-0.7 with agitation (150rpm) at 37Â°C.

2015-12-09 | E-GEOD-74218 | biostudies-arrayexpress

Dnj4HA AP-MS in Cryptococcus neoformans

Project description:Proteins which act as histone chaperones ensure genomic integrity during routine processes such as DNA replication and transcription as well as DNA repair upon damage. Herein, we identify a nuclear J domain protein, Dnj4, which interacts with histones 3 and 4 as well as Hsp71 as demonstrated in an AP-MS experiment suggesting that it integrates the heat shock chaperone machinery into histone chaperoning. In support of this, a deletion mutant lacking DNJ4 had higher levels of DNA damage than the wild type or complemented strains and was hypersensitive to DNA damaging agents. The transcriptional response to DNA damage in a mutant lacking DNJ4 was impaired. Genes related to DNA damage and iron homeostasis functions were up-regulated in the wild type strain in response to hydroxyurea treatment, however their up-regulation was either absent or reduced in a dnj4∆ mutant. Accordingly, excess iron rescued the mutant’s growth in response to hydroxyurea treatment. Iron homeostasis is crucial for virulence in Cryptococcus neoformans, however Dnj4 was found to be dispensable for virulence in a mouse model of cryptococcosis. Finally, we confirmed a conserved role of Dnj4 in histone chaperoning by expressing it in S. cerevisiae and showing that it disrupted endogenous histone chaperoning. Altogether, this study highlights the importance of a JDP co-chaperone in histone chaperoning in C. neoformans.

2021-12-15 | PXD028087 | Pride

HapX positively and negatively regulates the transcriptional response to iron deprivation in Cryptococcus neoformans

Project description:Analysis of the transcriptional response of C. neoformans WT, cir1 mutant, hap3 mutant and hapX mutant to different iron sources.

2011-04-13 | GSE22988 | GEO

Transcriptome analysis of the iron regulatory transcription factors in Cryptococcus neoformans in response to iron availability

Project description:Purpose: Understanding the iron-responsive regulatory networks in Cryptococcus neoformans. Methods: The transcriptome profiles of the wild-type, cir1 mutant and hapX mutant were generated by RNA-seq using Illumina Hiseq, in triplicate. The transcriptome profiles of each mutant was compared with that of the wild-type strain. Results: The iron-responsive transcription factors, Cir1 and HapX, are major regulators for iron acquisition and metabolism in C. neoformans.

2020-02-16 | GSE126313 | GEO

Cryptococcus neoformans gene expression in minimal media of wild type, ALL2 mutant, and ALL1ALL2 mutant cells

Project description:This SuperSeries is composed of the SubSeries listed below.

2015-12-09 | GSE74219 | GEO

Effect of Nrg1 on pathogenesis of Cryptococcus neoformans

Project description:The Cryptococcus neoformans NRG1 gene was identified using gene microarrays to define putative transcription factor genes regulated by the cyclic AMP (cAMP) signal transduction pathway. Disruption of NRG1 results in delayed capsule formation and mating, two phenotypes that are directly controlled by cAMP signaling. Putative targets of the Nrg1 transcription factor were identified using a second genome microarray to define differences in the transcriptomes of the wild-type and nrg1 mutant strains. These experiments implicate Nrg1 in the transcriptional control of multiple genes involved in carbohydrate metabolism and substrate oxidation, as well as the UGD1 gene encoding a UDP-glucose dehydrogenase required for polysaccharide capsule production and cell wall integrity. In addition to being under transcriptional control of the cAMP pathway, Nrg1 contains a putative protein kinase A phosphorylation site; mutation of this motif results in reduced Nrg1 activity. Consistent with prior studies in hypocapsular mutants, the nrg1 mutant strain is attenuated in an animal model of disseminated cryptococcal disease.

2009-09-04 | GSE17887 | GEO

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