GEO DataSets

(Submitter supplied) L-Arabinose occurs at economically relevant levels in lignocellulosic hydrolysates. Especially at low concentrations of L-arabinose, its uptake via the Gal2 galactose transporter is an important rate-controlling step in the complete conversion of these feedstocks by engineered, pentose-metabolizing Saccharomyces cerevisiae strains. Chemostat-based transcriptome analysis yielded 16 putative sugar transporter genes in the filamentous fungus Penicillium chrysogenum whose transcript levels were at least three-fold higher in L-arabinose-limited cultures than in glucose-limited and ethanol-limited cultures. more...

Organism:

Penicillium chrysogenum

Type:

Expression profiling by array

Platform:

GPL6225

2 Samples

Download data: CEL, TXT

(Submitter supplied) Gaining new knowledge through fungal monoculture responses to lignocellulose is a widely used approach that can lead to better cocktails for lignocellulose saccharification (the enzymatic release of sugars which are subsequently used to make biofuels). However, responses in lignocellulose mixed cultures are rarely studied in the same detail even though in nature fungi often degrade lignocellulose as mixed communities. more...

Organism:

Penicillium chrysogenum; Trichoderma reesei; Aspergillus niger

Type:

Expression profiling by high throughput sequencing

7 related Platforms

30 Samples

Download data: FASTA, TXT

(Submitter supplied) To interrogate single-base resolution 6mA sites in the genome-wide, we develop DA-6mA-seq (DpnI-Assisted N6-methylAdenine sequencing), an optimized sequencing method taking advantage of restriction enzyme DpnI, which exclusively cleaves methylated adenine sites. We find DpnI also recognizes other sequence motifs besides the canonical GATC restriction sites, largely expanding the application range of this method. more...

Organism:

Plasmodium falciparum; Penicillium chrysogenum; Chlamydomonas reinhardtii

Type:

Methylation profiling by high throughput sequencing

Platforms:

GPL21078 GPL18482 GPL21077

4 Samples

Download data: BEDGRAPH

(Submitter supplied) Identification of differentially expressed genes in a deletion strain of α-domain mating-type transcription factor MAT1-1-1 compared to wild type P2niaD18

Organism:

Penicillium chrysogenum

Type:

Expression profiling by array

Platform:

GPL6225

6 Samples

Download data: CEL, TXT

(Submitter supplied) Background: Microbial gene expression is to a large extend determined by environmental growth conditions. Differential gene expression analysis between two conditions has been frequently used to reveal regulatory networks and to assign physiological function to unknown genes. In nature, microorganisms cohabit however these interactions have been rarely studied and reproduced in laboratory set-up. Thus to quantitatively explore the genome-wide responses of microbial interaction, we co-cultivated Penicillium chrysogenum and Bacillus subtilis in chemostat culture. more...

Organism:

Penicillium chrysogenum

Type:

Expression profiling by array

Platform:

GPL6225

10 Samples

Download data: CEL

(Submitter supplied) The multi-component global regulator Velvet complex has been identified as a key regulator of secondary metabolite production in Aspergillus and Penicillium species. Previous work indicated a massive impact of PcvelA and PclaeA deletions, two key components of the Velvet complex, on penicillin production in prolonged batch cultures of P. chrysogenum, as well as substantial changes in transcriptome. The present study investigates the impact of these mutations on product formation and genome-wide transcript profiles under glucose-limited, aerobic conditions, relevant for industrial production of β-lactams. The gene-deletion cassette for PcvelA or PclaeA was integrated in a hdfA mutant of the penicillin high-producing strain P. chrysogenum DS17690. Predicted amino acid sequences of PcVelA and PcLaeA in this strain were identical to those in its ancestor Wisconsin54-1255. Controls were performed to rule out transformation-associated loss of penicillin-biosynthesis clusters which, in preliminary studies, led to a massive reduction of penicillin production in a PcvelA deletion mutant. The correct PcvelA and PclaeA deletion strains revealed a significant (up to 30 %) reduction of penicillin-G productivity relative to the reference strain, which is a much smaller reduction than previously reported for prolonged batch cultures of P. chrysogenum strains. Chemostat-based transcriptome analysis yielded only 23 genes with a consistent response in the PcvelAΔ and PclaeAΔ mutants when grown in the absence of the penicillin-G side-chain precursor phenylacetic acid. 11 of these genes belonged to two small gene clusters (with 5 and 6 genes, respectively), one of which contains a gene with high homology to an aristolochene synthase. These results provide a clear caveat that the impact of the Velvet complex on secondary metabolism in filamentous fungi may be strongly context dependent

Organism:

Penicillium chrysogenum

Type:

Expression profiling by array

Platform:

GPL6225

14 Samples

Download data: CEL

(Submitter supplied) Industrial production of penicillin G by Penicillium chrysogenum requires medium supplementation with the side chain precursor phenylacetate. However, P.chrysogenum grown in presence of phenylalanine as sole nitrogen source formed detectable extracellular amounts of phenylacetate and penicillin G. To get more insights in the metabolism implicated, chemostat-cultivation in presence of 13C9-phenylalanine were carried out. more...

Organism:

Penicillium chrysogenum

Type:

Expression profiling by array

Platform:

GPL6225

5 Samples

Download data: CEL

(Submitter supplied) In microbial production of non-catabolic products, a loss of production capacity upon long-term cultivation (for example, chemostat), a phenomenon called strain degeneration, is nearly always observed. In this study, a systems biology approach (monitoring changes from gene to produced flux) was used to study degeneration of penicillin production by Penicillium chrysogenum in ethanol-limited chemostat fermentations where the biomass specific penicillin production rate decreased 10-fold within 30 generations. more...

Organism:

Penicillium chrysogenum

Type:

Expression profiling by array

Platform:

GPL6225

9 Samples

Download data: CEL

(Submitter supplied) In filamentous fungi, secondary metabolism is often linked with developmental processes such as conidiation. In this study we analyzed the link between secondary metabolism and conidiation in the main industrial producer of the β-lactam antibiotic penicillin, the ascomycete Penicillium chrysogenum. Therefore, we generated mutants defective in two central regulators of conidiation, the transcription factors BrlA and StuA, respectively. more...

Organism:

Penicillium chrysogenum

Type:

Expression profiling by array

Dataset:

GDS3870

Platform:

GPL6225

15 Samples

Download data: CEL

Temporal analysis of mycelium from mutants defective in two central regulators of conidiation, transcription factors BrlA and StuA. Inactivation of stuA blocks both conidiation and penicillin V (PENV) production. Results provide insight into molecular mechanisms underlying penicillin biosynthesis.

Organism:

Penicillium chrysogenum

Type:

Expression profiling by array, count, 3 genotype/variation, 3 strain, 5 time sets

Platform:

GPL6225

Series:

GSE23326

15 Samples

Download data: CEL

(Submitter supplied) The recent discovery of a velvet complex containing several regulators of secondary metabolism in the model fungus Aspergillus nidulans raises the question whether similar type complexes direct fungal development in genera other than Aspergillus. Penicillium chrysogenum is the industrial producer of the antibiotic penicillin, whose biosynthetic regulation is barely understood. Here we provide a functional analysis of two major homologues of the velvet complex in P. more...

Organism:

Penicillium chrysogenum

Type:

Expression profiling by array

Platform:

GPL6225

12 Samples

Download data: CEL

(Submitter supplied) Production of cephalosporin precursors with recombinant strains of Penicillium chrysogenum has improved the economics and reduced the environmental impact of industrial cephalosporin production. The engineered P. chrysogenum strains used in these processes express heterologous enzymes that convert the intermediate acyl-6-aminopenicillanic acid into different tailor-made compounds. Activation of the cephalosporin side-chain precursor to its corresponding CoA thioester is an essential step for its incorporation into the β-lactam backbone. more...

Organism:

Penicillium chrysogenum

Type:

Expression profiling by array

Platform:

GPL6225

10 Samples

Download data: CEL

(Submitter supplied) Targeting an engineered DNA fragment to a specific site in chromosomes in order to disrupt, overexpress or modify the nucleotide sequence of a gene requires homologous recombination repair mechanism. This DNA repair mechanism is not predominant in fungi, resulting in extremely low targeting efficiency. To increase this efficiency, it is becoming common practice to disable the non homologous end joining (NHEJ) pathway that causes random integration, by deleting homologous gene to human KU70 and KU80 which encode proteins functioning in the NHEJ pathway. more...

Organism:

Penicillium chrysogenum

Type:

Expression profiling by array

Platform:

GPL6225

11 Samples

Download data: CEL

(Submitter supplied) In studies on beta-lactam production by Penicillium chrysogenum, addition and omission of a side-chain precursor is commonly used to generate producing and non-producing scenarios. To dissect effects of penicillin-G production and of its side-chain precursor phenylacetic acid (PAA), a derivative of a penicillin-G high-producing strain without a functional penicillin-biosynthesis gene cluster (pcbAB-pcbC-penDE) was constructed. more...

Organism:

Penicillium chrysogenum

Type:

Expression profiling by array

Platform:

GPL6225

13 Samples

Download data: CEL

(Submitter supplied) Penicillium chrysogenum was successfully engineered to produce a novel carbamoylated cephalosporin that can be used as a synthon for semi-synthetic cephalosporins. To this end, structural genes for Acremonium chrysogenum expandase/hydroxylase and Streptomyces clavuligerus carbamoyltransferase were expressed in a penicillinG high-producing strain of P. chrysogenum. Growth of the engineered strain in the presence of the side-chain precursor adipic acid resulted in production of adipoyl-7-amino-3-carbamoyloxymethyl-3-cephem-4-carboxylic acid (ad7-ACCCA) and of several adipoylated pathway intermediates. more...

Organism:

Penicillium chrysogenum

Type:

Expression profiling by array

Platform:

GPL6225

13 Samples

Download data: CEL

(Submitter supplied) Industrial production of penicillins with the filamentous fungus Penicillium chrysogenum is based on an unprecedented effort in microbial strain improvement. Sequencing of the 32.19 Mb genome of P. chrysogenum Wisconsin54-1255 revealed many genes responsible for key steps in penicillin production. DNA microarrays were used to compare the transcriptomes of the sequenced strain and a penicillinG high-producing strain, grown in the presence and absence of the side-chain precursor phenylacetic acid. more...

Organism:

Penicillium chrysogenum

Type:

Expression profiling by array

Platform:

GPL6225

13 Samples

Download data: CEL

(Submitter supplied) Penicillium chrysogenum strain Wisconsin 54-1255 Protocol: Affymetrix Custom GeneChip program, 49-7875 format, 11μm features. 11 probe pairs per set. The CDF file is linked below as a supplementary file. GeneChip design Based on the genome sequence of Wisconsin54-1255, a proprietary GeneChip®, DSM_PENa520255F, was designed for DSM according to the Custom GeneChip® program by Affymetrix (Affymetrix, Inc., Santa Clara, CA). more...

Organism:

Penicillium chrysogenum

1 DataSet

13 Series

116 Samples

Download data: CDF