Back to Search
Start Over
Time-Course Analysis of Gene Expression During theSaccharomyces cerevisiaeHypoxic Response
- Source :
- G3: Genes, Genomes, Genetics, Vol 7, Iss 1, Pp 221-231 (2017), G3: Genes|Genomes|Genetics
- Publication Year :
- 2017
- Publisher :
- Oxford University Press (OUP), 2017.
-
Abstract
- Many cells experience hypoxia, or low oxygen, and respond by dramatically altering gene expression. In the yeast Saccharomyces cerevisiae, genes that respond are required for many oxygen-dependent cellular processes, such as respiration, biosynthesis, and redox regulation. To more fully characterize the global response to hypoxia, we exposed yeast to hypoxic conditions, extracted RNA at different times, and performed RNA sequencing (RNA-seq) analysis. Time-course statistical analysis revealed hundreds of genes that changed expression by up to 550-fold. The genes responded with varying kinetics suggesting that multiple regulatory pathways are involved. We identified most known oxygen-regulated genes and also uncovered new regulated genes. Reverse transcription-quantitative PCR (RT-qPCR) analysis confirmed that the lysine methyltransferase EFM6 and the recombinase DMC1, both conserved in humans, are indeed oxygen-responsive. Looking more broadly, oxygen-regulated genes participate in expected processes like respiration and lipid metabolism, but also in unexpected processes like amino acid and vitamin metabolism. Using principle component analysis, we discovered that the hypoxic response largely occurs during the first 2 hr and then a new steady-state expression state is achieved. Moreover, we show that the oxygen-dependent genes are not part of the previously described environmental stress response (ESR) consisting of genes that respond to diverse types of stress. While hypoxia appears to cause a transient stress, the hypoxic response is mostly characterized by a transition to a new state of gene expression. In summary, our results reveal that hypoxia causes widespread and complex changes in gene expression to prepare the cell to function with little or no oxygen.
- Subjects :
- 0301 basic medicine
Saccharomyces cerevisiae Proteins
Methyltransferase
mRNA
Saccharomyces cerevisiae
Cell Cycle Proteins
Investigations
QH426-470
Transcriptome
03 medical and health sciences
Gene Expression Regulation, Fungal
Gene expression
Genetics
Recombinase
Humans
RNA, Messenger
Molecular Biology
Gene
Genetics (clinical)
Oligonucleotide Array Sequence Analysis
Messenger RNA
biology
Sequence Analysis, RNA
RNA
Methyltransferases
biology.organism_classification
Cell Hypoxia
Cell biology
DNA-Binding Proteins
Oxygen
030104 developmental biology
anaerobic
Gene-Environment Interaction
signaling
transcriptome
metabolism
Transcription Factors
Subjects
Details
- ISSN :
- 21601836
- Volume :
- 7
- Database :
- OpenAIRE
- Journal :
- G3 Genes|Genomes|Genetics
- Accession number :
- edsair.doi.dedup.....0839fd90c39147b949da1b4be12909f6
- Full Text :
- https://doi.org/10.1534/g3.116.034991