원정임
2022-05-11T05:55:16Z
2022-05-11T05:55:16Z
2020-09
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES, v. 21, no. 18, article no. 6452
1422-0067
https://www.mdpi.com/1422-0067/21/18/6452
https://repository.hanyang.ac.kr/handle/20.500.11754/170759
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.
This work was supported by the National Research Foundation of Korea (NRF) grant funded by the Korea government (MSIT, No. 2020R1A2C100730311 to J.-I.W.) and by the National Research Foundation of Korea (NRF) grants funded by the Korea government (NRF-2020R1F1A1050128 to J.Y. and NRF-2 2018R1D1A1B07049751 to D.-H.J.). This work was also supported by a grant from the Next-Generation BioGreen 21 Program (Project No. PJ01366801), Rural Development Administration, Republic of Korea to D.-H.J.
en
MDPI
mRNA decay
parallel analysis of RNA ends
XRN1
decapping
Global Analysis of the Human RNA Degradome Reveals Widespread Decapped and Endonucleolytic Cleaved Transcripts
Article
18
21
10.3390/ijms21186452
6452-6467
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
Won, Jung-Im
Shin, JaeMoon
Park, So Young
Yoon, JeeHee
Jeong, Dong-Hoon
2020050347
S
COLLEGE OF ENGINEERING[S]
INNOVATION CENTER FOR ENGINEERING EDUCATION
jiwon