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TranscriptomicsThe role of carbon starvation in the induction of enzymes that degrade plant-derived carbohydrates in Aspergillus niger
Fungi are an important source of enzymes for saccharification of plant polysaccharides and production of biofuels. Understanding of the regulation and induction of expression of genes encoding these enzymes is still incomplete. To explore the induction mechanism, we analysed the response of the indu...
ORGANISM(S): Aspergillus niger 
2014-08-22 | E-GEOD-57315 | biostudies-arrayexpress
TranscriptomicsHigh throughput sequencing enables detailed analysis of S. cerevisiae DNA replication
For rapid characterisation of replication dynamics in wild-type cells from an unperturbed cell cycle we have obtained replicating (S phase) and non-replicating (G2 phase) cells by fluorescence activated cell sorting (FACS) and subjected the DNA to copy number analysis. Measurement of genome replicat...
ORGANISM(S): Saccharomyces cerevisiae 
2013-06-20 | E-GEOD-42243 | biostudies-arrayexpress
TranscriptomicsHigh throughput sequencing enables detailed analysis of S. cerevisiae DNA replication
We have used three complementary deep sequencing approaches to characterise the temporal order of genome replication in S. cerevisiae. Each approach measures the increase in DNA copy number as a genomic region is replicated (in a large population of cells). We find that the use of deep sequencing pr...
ORGANISM(S): Saccharomyces cerevisiae 
2013-10-02 | E-GEOD-48212 | biostudies-arrayexpress
TranscriptomicsGenome-wide Transcriptional Responses of the Filamentous Fungus Aspergillus niger to Lignocellulose (Wheat straw) using RNA-sequencing
We have studied the physiological response of the fungus Aspergillus niger when exposed to wheat straw as a model lignocellulosic substrate. Using RNA-sequencing we showed that, 24 hours after exposure to straw, gene expression of known plant cell wall degrading enzymes represents a huge investment ...
ORGANISM(S): Aspergillus niger 
2012-08-27 | E-GEOD-33852 | biostudies-arrayexpress
TranscriptomicsGenome-wide transcriptional response of the filamentous fungus Trichoderma reesei to lignocellulose using RNA sequencing and comparison with Aspergillus niger
The induction of genes in response to exposure of T. reesei to wheat straw was explored using genome-wide RNA-seq and compared to published RNA-seq data and model of how A. niger senses and responds to the lignocellulose. After 24 h of exposure to straw, transcript levels of known and predicted lign...
ORGANISM(S): Trichoderma reesei 
2013-04-01 | E-GEOD-44648 | biostudies-arrayexpress
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