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DNA binding of ELF1 in A549 cells

ABSTRACT: DNA binding of ELF1 in A549 cells

PROVIDER: PRJNA503974 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR10043569.fastq.gz	Fastqsanger.gz
	SRR10043570.fastq.gz	Fastqsanger.gz
	SRR10043571.fastq.gz	Fastqsanger.gz
	SRR10043572.fastq.gz	Fastqsanger.gz

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DNA binding of ELF1 in A549 cells

Project description:The goal of this study was to analyze the DNA binding landscape of ELF1 in A549 cells. We found that ELF1 mostly binds promoters of genes, close to transcription start sites. We used the promoter-bound genes from our ChIP-seq data and intersected it with differentially expressed genes upon ELF1 overexpression in A549 cells to identify a set of ELF1 regulated target genes.

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Elf1 promotes TC-NER in yeast by using its C-terminal domain to bind TFIIH

Project description:Transcription coupled-nucleotide excision repair (TC-NER) repairs DNA lesions that stall RNA polymerase II (Pol II) transcription. Here, we show that the C-terminal domain (CTD) of elongation factor-1 (Elf1) plays a critical role in TC-NER in yeast. Analysis of genome-wide repair of UV-induced cyclobutane pyrimidine dimers (CPDs) using CPD-seq indicates that the Elf1 CTD is required for efficient Rad26-dependent and Rad26-independent TC-NER across the yeast genome. The Elf1-CTD is also important for TC-NER in rad16∆ cells deficient in GG-NER. Finally, we show that a mutant in the Elf1-CTD (elf1-Y99A) that disrupts binding to a subunit of TFIIH affects Rad26-independent repair in a rad26∆ mutant background.

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Project description:Aberrant overexpression of oncogenic ETS factors through chromosomal rearrangments is the most common genomic event in primary prostate tumor and these factors have been well studied. Loss of ELF1, another ETS transcription factor family member, is a common event in prostate cancer, but the function of ELF1 has not been described within the prostate. Studies of ELF1 in different tissue types has determined that it can be important for oncogeneis or tumor suppression. Here, we show that ELF1 is a novel prostate tumor suppressor by hindering oncogenic ETS function at cell migration related genes, but also that ELF1 has the ability to regulate senescence and chemotherapy resistance. Next generation sequencing was used to determine gene expression changes in RWPE-1 cells upon addition of an oncogenic ETS factor and then with the loss of ELF1 through an shRNA knockdown. Genomic binding locations were also determined for ELF1 and ERG, through ChIP-seq to identify any cobound or unique regions. The combination of this data indicates that ELF1 repressed migration related genes which ERG activates, but ELF1 also uniquely binds genes related to cell senescence and activates their transcription. There, these data indicate a novel tumor suppressive mechanism for ELF1 within the prostate and better characterizes its function within this cell type.

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