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A genome-wide analysis of carbon catabolite repression in Schizosaccharomyces pombe
Dane Vassiliadis1,2; Koon Ho Wong3,4; Alex Andrianopoulos1; Brendon J. Monahan1,2,5
2019-03-29
Source PublicationBMC GENOMICS
ISSN1471-2164
Volume20
Abstract

Background
Optimal glucose metabolism is central to the growth and development of cells. In microbial eukaryotes, carbon catabolite repression (CCR) mediates the preferential utilization of glucose, primarily by repressing alternate carbon source utilization. In fission yeast, CCR is mediated by transcriptional repressors Scr1 and the Tup/Ssn6 complex, with the Rst2 transcription factor important for activation of gluconeogenesis and sexual differentiation genes upon derepression. Through genetic and genome-wide methods, this study aimed to comprehensively characterize CCR in fission yeast by identifying the genes and biological processes that are regulated by Scr1, Tup/Ssn6 and Rst2, the core CCR machinery.


Results
The transcriptional response of fission yeast to glucose-sufficient or glucose-deficient growth conditions in wild type and CCR mutant cells was determined by RNA-seq and ChIP-seq. Scr1 was found to regulate genes involved in carbon metabolism, hexose uptake, gluconeogenesis and the TCA cycle. Surprisingly, a role for Scr1 in the suppression of sexual differentiation was also identified, as homothallic scr1 deletion mutants showed ectopic meiosis in carbon and nitrogen rich conditions. ChIP-seq characterised the targets of Tup/Ssn6 and Rst2 identifying regulatory roles within and independent of CCR. Finally, a subset of genes bound by all three factors was identified, implying that regulation of certain loci may be modulated in a competitive fashion between the Scr1, Tup/Ssn6 repressors and the Rst2 activator.


Conclusions
By identifying the genes directly and indirectly regulated by Scr1, Tup/Ssn6 and Rst2, this study comprehensively defined the gene regulatory networks of CCR in fission yeast and revealed the transcriptional complexities governing this system.

KeywordSchizosaccharomyces Pombe Transcriptional Regulation Carbon Metabolism Carbon Catabolite Repression Rst2 Rna-seq Chip-seq Background Tup11 Scr1
DOI10.1186/s12864-019-5602-8
Indexed BySCIE
Language英语
WOS Research AreaBiotechnology & Applied Microbiology ; Genetics & Heredity
WOS SubjectBiotechnology & Applied Microbiology ; Genetics & Heredity
WOS IDWOS:000463243000003
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Cited Times [WOS]:3   [WOS Record]     [Related Records in WOS]
Document TypeJournal article
CollectionFaculty of Health Sciences
Corresponding AuthorDane Vassiliadis; Brendon J. Monahan
Affiliation1.Genetics, Genomics & Systems Biology, School of Biosciences, The University of Melbourne, Parkville, Victoria, Australia
2.Commonwealth Scientific and Industrial Research Organisation (CSIRO), Parkville, Victoria, Australia
3.Faculty of Health Sciences, University of Macau, Macau, China
4.Institute of Translational Medicine, University of Macau, Macau, China
5.Cancer Therapeutics (CTx), Parkville, Victoria, Australia
Recommended Citation
GB/T 7714
Dane Vassiliadis,Koon Ho Wong,Alex Andrianopoulos,et al. A genome-wide analysis of carbon catabolite repression in Schizosaccharomyces pombe[J]. BMC GENOMICS,2019,20.
APA Dane Vassiliadis,Koon Ho Wong,Alex Andrianopoulos,&Brendon J. Monahan.(2019).A genome-wide analysis of carbon catabolite repression in Schizosaccharomyces pombe.BMC GENOMICS,20.
MLA Dane Vassiliadis,et al."A genome-wide analysis of carbon catabolite repression in Schizosaccharomyces pombe".BMC GENOMICS 20(2019).
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