Dataset Information

Role of Gene Length in Control of Human Gene Expression: Chromosome-Specific and Tissue-Specific Effects.

ABSTRACT: This study was carried out to pursue the observation that the level of gene expression is affected by gene length in the human genome. As transcription is a time-dependent process, it is expected that gene expression will be inversely related to gene length, and this is found to be the case. Here, I describe the results of studies performed to test whether the gene length/gene expression linkage is affected by two factors, the chromosome where the gene is located and the tissue where it is expressed. Studies were performed with a database of 3538 human genes that were divided into short, midlength, and long groups. Chromosome groups were then compared in the expression level of genes with the same length. A similar analysis was performed with 19 human tissues. Tissue-specific groups were compared in the expression level of genes with the same length. Both chromosome and tissue studies revealed new information about the role of gene length in control of gene expression. Chromosome studies led to the identification of two chromosome populations that differ in the expression level of short genes. A high level of expression was observed in chromosomes 2-10, 12-15, and 18 and a low level in 1, 11, 16-17, 19-20, 22, and 24. Studies with tissue-specific genes led to the identification of two tissues, brain and liver, which differ in the expression level of short genes. The results are interpreted to support the view that the level of a gene's expression can be affected by the chromosome and the tissue where the gene is transcribed.

SUBMITTER: Brown JC

PROVIDER: S-EPMC7911607 | biostudies-literature | 2021

REPOSITORIES: biostudies-literature

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Role of Gene Length in Control of Human Gene Expression: Chromosome-Specific and Tissue-Specific Effects.

Brown Jay C JC

International journal of genomics 20210213

This study was carried out to pursue the observation that the level of gene expression is affected by gene length in the human genome. As transcription is a time-dependent process, it is expected that gene expression will be inversely related to gene length, and this is found to be the case. Here, I describe the results of studies performed to test whether the gene length/gene expression linkage is affected by two factors, the chromosome where the gene is located and the tissue where it is expre ...[more]

PMID: 33688492

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Project description:BackgroundTissue specific promoters may be utilized for a variety of applications, including programmed gene expression in cell types, tissues and organs of interest, for developing different cell culture models or for use in gene therapy. We report a novel, tissue-specific promoter that was identified and engineered from the native upstream regulatory region of the human gene NDUFV1 containing an endogenous retroviral sequence.ResultsAmong seven established human cell lines and five primary cultures, this modified NDUFV1 upstream sequence (mNUS) was active only in human undifferentiated germ-derived cells (lines Tera-1 and EP2102), where it demonstrated high promoter activity (approximately twice greater than that of the SV40 early promoter, and comparable to the routinely used cytomegaloviral promoter). To investigate the potential applicability of the mNUS promoter for biotechnological needs, a construct carrying a recombinant cytosine deaminase (RCD) suicide gene under the control of mNUS was tested in cell lines of different tissue origin. High cytotoxic effect of RCD with a cell-death rate approximately 60% was observed only in germ-derived cells (Tera-1), whereas no effect was seen in a somatic, kidney-derived control cell line (HEK293). In further experiments, we tested mNUS-driven expression of a hyperactive Sleeping Beauty transposase (SB100X). The mNUS-SB100X construct mediated stable transgene insertions exclusively in germ-derived cells, thereby providing further evidence of tissue-specificity of the mNUS promoter.ConclusionsWe conclude that mNUS may be used as an efficient promoter for tissue-specific gene expression in human germ-derived cells in many applications. Our data also suggest that the 91 bp-long sequence located exactly upstream NDUFV1 transcriptional start site plays a crucial role in the activity of this gene promoter in vitro in the majority of tested cell types (10/12), and an important role--in the rest two cell lines.

Dataset Information

Role of Gene Length in Control of Human Gene Expression: Chromosome-Specific and Tissue-Specific Effects.

Publications

Role of Gene Length in Control of Human Gene Expression: Chromosome-Specific and Tissue-Specific Effects.

Similar Datasets

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