Identification of a novel distal regulatory element of the human Neuroglobin gene by the chromosome conformation capture approach
File(s)Nucl. Acids Res.-2016-Tam-nar_gkw820.pdf (2.8 MB)
Published version
Author(s)
Type
Journal Article
Abstract
Neuroglobin (NGB) is predominantly expressed in the brain and retina. Studies suggest that NGB exerts protective effects to neuronal cells and is implicated in reducing the severity of stroke and Alzheimer's disease. However, little is known about the mechanisms which regulate the cell type-specific expression of the gene. In this study, we hypothesized that distal regulatory elements (DREs) are involved in optimal expression of the NGB gene. By chromosome conformation capture we identified two novel DREs located -70 kb upstream and +100 kb downstream from the NGB gene. ENCODE database showed the presence of DNaseI hypersensitive and transcription factors binding sites in these regions. Further analyses using luciferase reporters and chromatin immunoprecipitation suggested that the -70 kb region upstream of the NGB gene contained a neuronal-specific enhancer and GATA transcription factor binding sites. Knockdown of GATA-2 caused NGB expression to drop dramatically, indicating GATA-2 as an essential transcription factor for the activation of NGB expression. The crucial role of the DRE in NGB expression activation was further confirmed by the drop in NGB level after CRISPR-mediated deletion of the DRE. Taken together, we show that the NGB gene is regulated by a cell type-specific loop formed between its promoter and the novel DRE.
Date Issued
2016-09-19
Date Acceptance
2016-08-31
Citation
Nucleic Acids Research, 2016, 45 (1), pp.115-126
ISSN
1362-4962
Publisher
Oxford University Press (OUP)
Start Page
115
End Page
126
Journal / Book Title
Nucleic Acids Research
Volume
45
Issue
1
Copyright Statement
© The Author(s) 2016. Published by Oxford University Press on behalf of Nucleic Acids Research.
This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
License URL
Identifier
PII: gkw820
Subjects
Science & Technology
Life Sciences & Biomedicine
Biochemistry & Molecular Biology
VERTEBRATE GLOBIN FAMILY
FACTOR-BINDING SITES
GATA FACTORS
TRANSCRIPTION FACTORS
NERVOUS-SYSTEM
HUMAN GENOME
EXPRESSION
LOCUS
PROMOTER
ENHANCER
Binding Sites
CRISPR-Cas Systems
Cell Line, Tumor
Chromosomes, Human, Pair 14
Deoxyribonuclease I
GATA2 Transcription Factor
Gene Editing
Gene Expression Regulation
Genes, Reporter
Globins
HeLa Cells
Humans
K562 Cells
Luciferases
Nerve Tissue Proteins
Neurons
Organ Specificity
Protein Binding
RNA, Guide
RNA, Small Interfering
Regulatory Elements, Transcriptional
Signal Transduction
Hela Cells
05 Environmental Sciences
06 Biological Sciences
08 Information And Computing Sciences
Developmental Biology
Publication Status
Published