Chromatin structure characteristics of pre-miRNA genomic sequences

Shijia Zhu, Qinghua Jiang, Guohua Wang, Bo Liu, Mingxiang Teng, Yadong Wang

Research output: Contribution to journalArticle

6 Citations (Scopus)

Abstract

Background: MicroRNAs (miRNAs) are non-coding RNAs with important roles in regulating gene expression. Recent studies indicate that transcription and cleavage of miRNA are coupled, and that chromatin structure may influence miRNA transcription. However, little is known about the relationship between the chromatin structure and cleavage of pre-miRNA from pri-miRNA.Results: By analysis of genome-wide nucleosome positioning data sets from human and Caenorhabditis elegans (C. elegans), we found an enrichment of positioned nucleosome on pre-miRNA genomic sequences, which is highly correlated with GC content within pre-miRNA. In addition, obvious enrichments of three histone modifications (H2BK5me1, H3K36me3 and H4K20me1) as well as RNA Polymerase II (RNAPII) were observed on pre-miRNA genomic sequences corresponding to the active-promoter miRNAs and expressed miRNAs.Conclusion: Our results revealed the chromatin structure characteristics of pre-miRNA genomic sequences, and implied potential mechanisms that can recognize these characteristics, thus improving pre-miRNA cleavage.

Original languageEnglish (US)
Article number329
JournalBMC Genomics
Volume12
DOIs
StatePublished - Jun 25 2011
Externally publishedYes

Fingerprint

MicroRNAs
Chromatin
Nucleosomes
Histone Code
Untranslated RNA
RNA Polymerase II
Caenorhabditis elegans
Base Composition
Genome
Gene Expression

ASJC Scopus subject areas

  • Biotechnology
  • Genetics

Cite this

Chromatin structure characteristics of pre-miRNA genomic sequences. / Zhu, Shijia; Jiang, Qinghua; Wang, Guohua; Liu, Bo; Teng, Mingxiang; Wang, Yadong.

In: BMC Genomics, Vol. 12, 329, 25.06.2011.

Research output: Contribution to journalArticle

Zhu, Shijia ; Jiang, Qinghua ; Wang, Guohua ; Liu, Bo ; Teng, Mingxiang ; Wang, Yadong. / Chromatin structure characteristics of pre-miRNA genomic sequences. In: BMC Genomics. 2011 ; Vol. 12.
@article{30b8c59858c543edaa91332a560f5a70,
title = "Chromatin structure characteristics of pre-miRNA genomic sequences",
abstract = "Background: MicroRNAs (miRNAs) are non-coding RNAs with important roles in regulating gene expression. Recent studies indicate that transcription and cleavage of miRNA are coupled, and that chromatin structure may influence miRNA transcription. However, little is known about the relationship between the chromatin structure and cleavage of pre-miRNA from pri-miRNA.Results: By analysis of genome-wide nucleosome positioning data sets from human and Caenorhabditis elegans (C. elegans), we found an enrichment of positioned nucleosome on pre-miRNA genomic sequences, which is highly correlated with GC content within pre-miRNA. In addition, obvious enrichments of three histone modifications (H2BK5me1, H3K36me3 and H4K20me1) as well as RNA Polymerase II (RNAPII) were observed on pre-miRNA genomic sequences corresponding to the active-promoter miRNAs and expressed miRNAs.Conclusion: Our results revealed the chromatin structure characteristics of pre-miRNA genomic sequences, and implied potential mechanisms that can recognize these characteristics, thus improving pre-miRNA cleavage.",
author = "Shijia Zhu and Qinghua Jiang and Guohua Wang and Bo Liu and Mingxiang Teng and Yadong Wang",
year = "2011",
month = "6",
day = "25",
doi = "10.1186/1471-2164-12-329",
language = "English (US)",
volume = "12",
journal = "BMC Genomics",
issn = "1471-2164",
publisher = "BioMed Central",

}

TY - JOUR

T1 - Chromatin structure characteristics of pre-miRNA genomic sequences

AU - Zhu, Shijia

AU - Jiang, Qinghua

AU - Wang, Guohua

AU - Liu, Bo

AU - Teng, Mingxiang

AU - Wang, Yadong

PY - 2011/6/25

Y1 - 2011/6/25

N2 - Background: MicroRNAs (miRNAs) are non-coding RNAs with important roles in regulating gene expression. Recent studies indicate that transcription and cleavage of miRNA are coupled, and that chromatin structure may influence miRNA transcription. However, little is known about the relationship between the chromatin structure and cleavage of pre-miRNA from pri-miRNA.Results: By analysis of genome-wide nucleosome positioning data sets from human and Caenorhabditis elegans (C. elegans), we found an enrichment of positioned nucleosome on pre-miRNA genomic sequences, which is highly correlated with GC content within pre-miRNA. In addition, obvious enrichments of three histone modifications (H2BK5me1, H3K36me3 and H4K20me1) as well as RNA Polymerase II (RNAPII) were observed on pre-miRNA genomic sequences corresponding to the active-promoter miRNAs and expressed miRNAs.Conclusion: Our results revealed the chromatin structure characteristics of pre-miRNA genomic sequences, and implied potential mechanisms that can recognize these characteristics, thus improving pre-miRNA cleavage.

AB - Background: MicroRNAs (miRNAs) are non-coding RNAs with important roles in regulating gene expression. Recent studies indicate that transcription and cleavage of miRNA are coupled, and that chromatin structure may influence miRNA transcription. However, little is known about the relationship between the chromatin structure and cleavage of pre-miRNA from pri-miRNA.Results: By analysis of genome-wide nucleosome positioning data sets from human and Caenorhabditis elegans (C. elegans), we found an enrichment of positioned nucleosome on pre-miRNA genomic sequences, which is highly correlated with GC content within pre-miRNA. In addition, obvious enrichments of three histone modifications (H2BK5me1, H3K36me3 and H4K20me1) as well as RNA Polymerase II (RNAPII) were observed on pre-miRNA genomic sequences corresponding to the active-promoter miRNAs and expressed miRNAs.Conclusion: Our results revealed the chromatin structure characteristics of pre-miRNA genomic sequences, and implied potential mechanisms that can recognize these characteristics, thus improving pre-miRNA cleavage.

UR - http://www.scopus.com/inward/record.url?scp=79959440105&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=79959440105&partnerID=8YFLogxK

U2 - 10.1186/1471-2164-12-329

DO - 10.1186/1471-2164-12-329

M3 - Article

C2 - 21702984

AN - SCOPUS:79959440105

VL - 12

JO - BMC Genomics

JF - BMC Genomics

SN - 1471-2164

M1 - 329

ER -