Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

RNA-Seq of Streptomyces venezuelae NRRL B65442 to compare global gene expression between the wild-type and bldB deletion strain and, wild-type and bldB plus whiJ9 double mutant after 14 hours growth in liquid medium.

ABSTRACT: Expression of iosA is greatly activated in the bldB deletion strain. whiJ9 is divergently transcribed from iosA and the double mutant (whiJ9 + bldB) was made to determine if WhiJ mediates the activation of iosA in the absence of BldB.

INSTRUMENT(S): Illumina NovaSeq 6000

ORGANISM(S): Streptomyces venezuelae

SUBMITTER: Govind Chandra

PROVIDER: E-MTAB-12836 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Project description:RacA is the main Rho GTPase in Aspergillus niger regulating polarity maintenance via controlling actin dynamics. We have previously shown that both deletion and dominant activation of RacA (RacG18V) provoke an actin localization defect and thereby loss of polarized tip extension. This loss of apical dominance results in frequent dichotomous branching in the racA deletion strain and an apolar growing phenotype for RacG18V. In the current study we investigated the transcriptomics and physiological consequences of these morphological changes and compared the data with our previously established morphogenetic network model for the dichotomous branching mutant ramosa-1. This integrated approach revealed that polar tip growth is most likely orchestrated by the concerted activities of phospholipid signaling, sphingolipid signaling, TORC2 signaling, calcium signaling and CWI signaling pathways. The transcriptomic signatures and the reconstructed network model for all three morphology mutants imply that these pathways become integrated to bring about different physiological adaptations including changes in sterol, zinc and amino acid metabolism and changes in ion transport and protein trafficking. We furthermore followed that fate of exocytotic (SncA) and endocytotic (AbpA, SlaB) markers in the dichotomous branching racA deletion mutant, and provide data demonstrating that hyperbranching does not per se result in increased protein secretion. This data set consists of 14 samples in total and covers the genome-wide transcriptional responses of Aspergillus niger towards deletion of racA and expression of a dominant active racA allele (G18V). The genome-wide transcriptional effect of deleting racA was monitored by comparison with the A. niger wild type. For both, the racA deletion mutant and the wild type, samples consist of biological triplicates (6 in total). The genome-wide transcriptional effect of expressing the dominant active racA mutant allele was monitored by sampling 2 and 4 hours after induction with maltose. For comparison, the racA wild type allele was induced and expressed similarly and samples were taken at corresponding time points. The experimental setup for the dominant active racA expression consisted of biological triplicates (8 in total).

Dataset Information

RNA-Seq of Streptomyces venezuelae NRRL B65442 to compare global gene expression between the wild-type and bldB deletion strain and, wild-type and bldB plus whiJ9 double mutant after 14 hours growth in liquid medium.

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