133 28

Global Analysis of the Human RNA Degradome Reveals Widespread Decapped and Endonucleolytic Cleaved Transcripts

Title
Global Analysis of the Human RNA Degradome Reveals Widespread Decapped and Endonucleolytic Cleaved Transcripts
Author
원정임
Keywords
mRNA decay; parallel analysis of RNA ends; XRN1; decapping
Issue Date
2020-09
Publisher
MDPI
Citation
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES, v. 21, no. 18, article no. 6452
Abstract
RNA decay is an important regulatory mechanism for gene expression at the posttranscriptional level. Although the main pathways and major enzymes that facilitate this process are well defined, global analysis of RNA turnover remains under-investigated. Recent advances in the application of next-generation sequencing technology enable its use in order to examine various RNA decay patterns at the genome-wide scale. In this study, we investigated human RNA decay patterns using parallel analysis of RNA end-sequencing (PARE-seq) data fromXRN1-knockdown HeLa cell lines, followed by a comparison of steady state and degraded mRNA levels from RNA-seq and PARE-seq data, respectively. The results revealed 1103 and 1347 transcripts classified as stable and unstable candidates, respectively. Of the unstable candidates, we found that a subset of thereplication-dependent histonetranscripts was polyadenylated and rapidly degraded. Additionally, we identified 380 endonucleolytically cleaved candidates by analyzing the most abundant PARE sequence on a transcript. Of these, 41.4% of genes were classified as unstable genes, which implied that their endonucleolytic cleavage might affect their mRNA stability. Furthermore, we identified 1877 decapped candidates, includingHSP90B1andSWI5,having the most abundant PARE sequences at the 5 '-end positions of the transcripts. These results provide a useful resource for further analysis of RNA decay patterns in human cells.
URI
https://www.mdpi.com/1422-0067/21/18/6452https://repository.hanyang.ac.kr/handle/20.500.11754/170759
ISSN
1422-0067
DOI
10.3390/ijms21186452
Appears in Collections:
COLLEGE OF ENGINEERING[S](공과대학) > ETC
Files in This Item:
Global Analysis of the Human RNA Degradome Reveals Widespread Decapped and Endonucleolytic Cleaved Transcripts.pdfDownload
Export
RIS (EndNote)
XLS (Excel)
XML


qrcode

Items in DSpace are protected by copyright, with all rights reserved, unless otherwise indicated.

BROWSE