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| Status |
Public on Jan 31, 2011 |
| Title |
Expression data from batch cultivations with the acidogenic Aspergillus niger wild type strain ATCC 1015 and the areB complete deletion strain constructed using ATCC 1015 as background strain with glucose or glycerol as carbon sources. |
| Platform organisms |
Aspergillus niger; Aspergillus oryzae; Aspergillus nidulans |
| Sample organism |
Aspergillus niger |
| Experiment type |
Expression profiling by array
|
| Summary |
This approach aims at searching unidentified regulatory roles of the AreB transcription factor in the overall carbon metabolism of A. niger. A full areB gene deletion mutant was constructed and characterized in A. niger ATCC 1015. Both strains were grown on glucose or glycerol using ammonia as nitrogen source in batch cultivations and the transcriptome was analyzed using three biological replicated transcriptome experiments. Two areB gene deletion replicates, one on glucose and one on glycerol were discarded due to bad quality and therefore not included in the analysis. Samples for RNA extraction were collected and further processed for hybridization in custom designed Affymetrix microarrays containing probes for three Aspergillus species including A. niger.
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| Overall design |
Triplicate batch fermentations with the two Aspergillus niger strains used, the wild type A. niger strain ATCC 1015 and the areB complete gene deletion strain were carried out and transcriptome analysis was performed. Biomass from each batch cultivation was harvested in the exponential phase of growth and further processed for RNA extraction and hybridization on Affymetrix microarrays.
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| Contributor(s) |
Salazar M, Bruno K, Culley D, Baker S, Nielsen J |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Mar 23, 2010 |
| Last update date |
Mar 22, 2012 |
| Contact name |
Margarita Salazar Peña |
| E-mail(s) |
margarita.salazar@chalmers.se
|
| Phone |
+46 (031) 7723876
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| Fax |
+46 (031) 7723801
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| Organization name |
Chalmers University of Technology
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| Department |
Chemical and Biological Engineering
|
| Lab |
Systems Biology
|
| Street address |
Kemigården 4
|
| City |
Göteborg |
| ZIP/Postal code |
SE-412 96 |
| Country |
Sweden |
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| Platforms (1) |
| GPL5975 |
[AsprgDTUa520520F] Custom Affymetrix Aspergillus Chip DTU_3Aspergillus_45K_v1.0 |
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| Samples (10)
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| GSM525077 |
Aspergillus niger ATCC 1015, glucose, biological rep1 |
| GSM525078 |
Aspergillus niger ATCC 1015, glucose, biological rep2 |
| GSM525079 |
Aspergillus niger ATCC 1015, glucose, biological rep3 |
| GSM525080 |
Aspergillus niger ATCC 1015, glycerol, biological rep1 |
| GSM525081 |
Aspergillus niger ATCC 1015, glycerol, biological rep2 |
| GSM525082 |
Aspergillus niger ATCC 1015, glycerol, biological rep3 |
| GSM525083 |
Aspergillus niger AreBKO, glucose, biological rep2 |
| GSM525084 |
Aspergillus niger AreBKO, glucose, biological rep3 |
| GSM525085 |
Aspergillus niger AreBKO, glycerol, biological rep2 |
| GSM525086 |
Aspergillus niger AreBKO, glycerol, biological rep3 |
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| Relations |
| BioProject |
PRJNA125759 |
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