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Transcriptomic analysis of fungus Penicillium oxalicum and its laeA and creA deletion strains

ABSTRACT: The goals of this study are to compare differential gene expressions for Penicillium oxalicum wild type strain (WT), laeA knockout strain (ΔlaeA), creA knockout strain (ΔcreA), and double genes knockout strain (ΔlaeAΔcreA). The deletion of laeA downregulated genes involved in oxidation- reduction process, alkaloid metabolic process, and transmembrane transport. We find the expression levels of seven secondary metabolism gene clusters (totally 28 clusters) were silenced inΔlaeA. The deletion of creA upregulated genes involved in hydrolase activity, acting on glycosyl bonds. Many genes involved in conidiation were drastically regulated inΔlaeAΔcreA. This study provides the information that combined laeA and creA function are required in conidiation and hydrolase activity of P. oxalicum.

ORGANISM(S): Penicillium oxalicum

PROVIDER: GSE63408 | GEO | 2014/11/19

SECONDARY ACCESSION(S): PRJNA267684

REPOSITORIES: GEO

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Transcriptomic analysis of fungus Penicillium oxalicum and its laeA and creA deletion strains

Project description:The goals of this study are to compare differential gene expressions for Penicillium oxalicum wild type strain (WT), laeA knockout strain (M-NM-^TlaeA), creA knockout strain (M-NM-^TcreA), and double genes knockout strain (M-NM-^TlaeAM-NM-^TcreA). The deletion of laeA downregulated genes involved in oxidation- reduction process, alkaloid metabolic process, and transmembrane transport. We find the expression levels of seven secondary metabolism gene clusters (totally 28 clusters) were silenced inM-NM-^TlaeA. The deletion of creA upregulated genes involved in hydrolase activity, acting on glycosyl bonds. Many genes involved in conidiation were drastically regulated inM-NM-^TlaeAM-NM-^TcreA. This study provides the information that combined laeA and creA function are required in conidiation and hydrolase activity of P. oxalicum. Examination of differential gene expressions by digital gene expression tag profiling in Penicillium oxalicum wild type strain and three mutant strains (laeA knockout strain, creA knockout strain and double genes knockout strain). qRTM-bM-^@M-^SPCR validation was performed using SYBR Green assays.

2014-11-19 | E-GEOD-63408 | biostudies-arrayexpress

Transcriptomic analysis of fungus Penicillium oxalicum and its laeA, clrB and rcoA deletion strains

Project description:The goals of this study are to compare differential gene expressions for Penicillium oxalicum wild type strain (WT), laeA knockout strain (ΔlaeA), rcoA knockout strain (ΔrcoA), and clrB knockout strain (ΔclrB). The deletion of laeA downregulated genes involved in oxidation- reduction process, alkaloid metabolic process, and transmembrane transport. We find the expression levels of seven secondary metabolism gene clusters (totally 28 clusters) were silenced inΔlaeA. The deletion of clrB downregulated genes involved in hydrolase activity, acting on glycosyl bonds. Many genes involved in conidiation were drastically regulated in ΔrcoA. This study provides the information that combined laeA, clrB and rcoA function are required in conidiation and hydrolase activity of P. oxalicum.

2021-03-22 | GSE112203 | GEO

Transcriptomic analysis of fungus Penicillium oxalicum and its laeA deletion strains in 24h and 60h

Project description:The goals of this study are to compare differential gene expressions for Penicillium oxalicum wild type strain (WT), and laeA knockout strain (ΔlaeA) in different development phase. The deletion of laeA downregulated genes involved in oxidation- reduction process, alkaloid metabolic process, and transmembrane transport. We find the expression levels of seven secondary metabolism gene clusters (totally 28 clusters) were silenced inΔlaeA. This study provides the information that laeA function are required in conidiation and hydrolase activity of P. oxalicum. Examination of differential gene expressions by digital gene expression tag profiling in Penicillium oxalicum wild type strain and laeA knockout mutant strains in 24h and 60h in modified Czapek culture medium with 2% glucose as carbon resource. qRT–PCR validation was performed using SYBR Green assays.

2015-07-27 | E-GEOD-71287 | biostudies-arrayexpress

Transcriptomic analysis of fungus Penicillium oxalicum and its laeA deletion strains in 24h and 60h

2015-07-27 | GSE71287 | GEO

Transcriptomic analysis of fungus Penicillium oxalicum and its set2 deletion strains

Project description:The goals of this study are to compare different gene expressions for Penicillium oxalicum wild type strain (WT), and set2 knockout strain (Δset2) in different carbon sources. The deletion of set2 upregulated genes involved in oxidation- reduction process, extracellular region, and plasma membrane ATP synthesis coupled proton transport both with 2% glucose or 1% cellulose and 1% wheat bran as carbon sources. We find the expression levels of 20 secondary metabolism gene clusters were upregulated or downregulated under different carbon sources in Δset2. This study provides the information that SET2 function are required in conidiation and hydrolase activity of P. oxalicum.

2017-11-07 | GSE106558 | GEO

Transcriptomic analysis of fungus Penicillium oxalicum and its mtr23B deletion and complemented strains

Project description:The goals of this study are to compare differential gene expressions for Penicillium oxalicum wild type strain (WT), mtr23B knockout strain (Δmtr23B) and complemented strain (Rmtr23B) on Vogel’s medium with 2% glucose (G) or 1% wheat bran and 1% cellulose (CW) as carbon resources. When cultivated in a repression medium for cellulolytic enzyme formation (G), the deletion of mtr23B upregulated genes involved in lyase activity, hydrolase activity, acyl carrier activity, monooxygenase activity, electron transfer activity, phosphopantetheine binding, heme binding, cell wall organization or biogenesis, oxidation-reduction process and extracellular region. The downregulated genes in Δmtr23B were mainly involved in transmembrane transporter activity, amino acid transmembrane transporter activity, membrane and integral component of membrane. When cultivated in an inducing medium for cellulolytic enzyme formation (CW), the downregulated genes in Δmtr23B were mainly involved in glucosidase activity, polygalacturonase activity, oxidoreductase activity, heme binding, oxidareductase activity, xylanase activity, cellulase activity, cellulose binding, oxidation-reduction process, cellulose catabolic process, xylan catabolic process and extracellular region. We find the expression levels of five secondary metabolism gene clusters (totally 28 clusters) were silenced in Δmtr23B. This study provides the information that mtr23B is required in conidiation and hydrolase activity of P. oxalicum.

2019-12-14 | GSE142001 | GEO

Cap analysis gene expression (CAGE) of Aspergillus luchuensis mut. kawachii control and laeA disruptant strains

Project description:LaeA, a putative methyltransferase, is a global regulator for metabolic and development process in filamentous fungi. We characterized the laeA homologous genes in the white koji fungus, Aspergillus luchuensis mut. kawachii (A. kawachii) to examine their role in citric acid production. The ΔlaeA strain showed a significant reduction in the citric acid productivity. The cap-analysis gene expression (CAGE) revealed the laeA is required for the gene expression of a putative citrate exporter encoding cexA, which has a critical role for the citric acid production. The deficient citric acid productivity of the ΔlaeA strain was remedied by overexpression of cexA to a comparative level to that of the cexA overexpressing ΔcexA strain. In addition, chromatin immunoprecipitation coupled with quantitative PCR (ChIP-qPCR) analysis indicated that LaeA regulates gene expression of the citrate exporter encoding cexA gene via histone H3K4 and histone H3K9 methylation levels. These results indicate that LaeA is involved in the citric acid production through epigenetic regulation of cexA in A. kawachii.

2019-08-15 | GSE135849 | GEO

Transcriptomic analysis of cellulolytic fungus Penicillium oxalicum and transcription factor mutant strains in response to different carbon sources

2015-05-28 | GSE69298 | GEO

Transcriptomic analysis of cellulolytic fungus Penicillium oxalicum and transcription factor mutant strains in response to different carbon sources

Project description:RNA-seq was used to compare the responses of Penicillium oxalicum strains to different carbon sources including carbon-starvation, glucose and cellulose. The wild-type strain and transcription facor (ClrB, CreA and AmyR) mutants were studied. A total of 24 samples were analzyed, which include biological triplicates. The wild-type strain cultured without carbon source was considered as a reference.

2015-05-28 | E-GEOD-69298 | biostudies-arrayexpress

The effects of ClrB internal mutant overexpression and creA deletion on the transcriptome of Penicillium oxalicum

Project description:The synthesis of cellulolytic enzymes by filamentous fungi are mainly regulated at the transcriptional level. The essential role of transcriptional activator ClrB/CLR-2 in the induction of cellulase genes has been reported in several fungal species. In this study, we identified the C-terminal region of ClrB in Penicillium oxalicum as a transcriptional activation domain using a yeast reporter gene system. Overexpression of a mutant ClrBID fusing the DNA-binding and transcriptional activation domains of ClrB together enabled cellulase production under cellulase non-inducing conditions. Strikingly, the ClrBID-overexpression strain produced cellulase in the presence of glucose at a level similar to that of reference strain on cellulose. Combination of ClrBID overexpression and deletion of carbon catabolite-repressor gene creA suggested an additive effect of the two manipulations on carbon catabolite de-repression. A similar modification of ClrB in Aspergillus niger also resulted in cellulase production on glucose. The results indicated that the post-transcriptional control of ClrB activity involves its central region, and provided a potential strategy for engineering Penicillium and Aspergillus strains for cellulase production on easy-to-use carbon sources.

2019-01-01 | GSE120416 | GEO

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