Mitochondrial hypoxic stress induces widespread RNA editing by APOBEC3G in natural killer cells

Genome Biology
Shraddha SharmaBora E Baysal

Abstract

Protein recoding by RNA editing is required for normal health and evolutionary adaptation. However, de novo induction of RNA editing in response to environmental factors is an uncommon phenomenon. While APOBEC3A edits many mRNAs in monocytes and macrophages in response to hypoxia and interferons, the physiological significance of such editing is unclear. Here, we show that the related cytidine deaminase, APOBEC3G, induces site-specific C-to-U RNA editing in natural killer cells, lymphoma cell lines, and, to a lesser extent, CD8-positive T cells upon cellular crowding and hypoxia. In contrast to expectations from its anti-HIV-1 function, the highest expression of APOBEC3G is shown to be in cytotoxic lymphocytes. RNA-seq analysis of natural killer cells subjected to cellular crowding and hypoxia reveals widespread C-to-U mRNA editing that is enriched for genes involved in mRNA translation and ribosome function. APOBEC3G promotes Warburg-like metabolic remodeling in HuT78 T cells under similar conditions. Hypoxia-induced RNA editing by APOBEC3G can be mimicked by the inhibition of mitochondrial respiration and occurs independently of HIF-1α. APOBEC3G is an endogenous RNA editing enzyme in primary natural killer cells and lymphoma ...Continue Reading

References

Apr 1, 1990·Proceedings of the National Academy of Sciences of the United States of America·O ThastrupA P Dawson
Jan 11, 2000·Nucleic Acids Research·S T SherryK Sirotkin
Jun 5, 2002·Genome Research·W James KentDavid Haussler
Apr 13, 2004·Proceedings of the National Academy of Sciences of the United States of America·Andrew I SuJohn B Hogenesch
Jun 3, 2004·Genome Research·Gavin E CrooksSteven E Brenner
Jun 17, 2004·Human Molecular Genetics·Jianzhi Zhang, David M Webb
Jul 20, 2004·Nature Biotechnology·Erez Y LevanonMichael F Jantsch
Jul 23, 2004·PLoS Biology·Sara L SawyerHarmit S Malik
Aug 2, 2005·Molecular and Cellular Biology·Marie C MiklCristina Rada
Feb 18, 2006·Molecular Cell·Liping LiuM Celeste Simon
Dec 8, 2007·The Biochemical Journal·Cormac T Taylor
May 24, 2008·Molecular Cell·William G Kaelin, Peter J Ratcliffe
Jan 31, 2009·Science·Lori L AndersonC Michael Crowder
Mar 18, 2009·Bioinformatics·Cole TrapnellSteven L Salzberg
May 23, 2009·Science·Matthew G Vander HeidenCraig B Thompson
Jul 10, 2009·Journal of Virology·Fransje A KoningMichael H Malim
Sep 28, 2010·Journal of Neuroscience Methods·Simon AndrewsMichael P Coleman
Oct 23, 2010·Molecular Cell·Keith A SpriggsAnne E Willis
Jan 25, 2011·Nature Structural & Molecular Biology·Brad R RosenbergF Nina Papavasiliou
Jan 27, 2011·Methods in Enzymology·Christine M Oslowski, Fumihiko Urano
Feb 19, 2011·Shock·Yael Nevo-CaspiGideon Paret
Jan 10, 2012·Science·Sandra Garrett, Joshua J C Rosenthal
Apr 10, 2012·Nature Methods·Gokul RamaswamiJin Billy Li
Jun 30, 2012·Bioinformatics·Liguo WangWei Li
Nov 23, 2012·Nucleic Acids Research·Ales BalikIngo H Greger
Sep 24, 2013·PeerJ·Bora E BaysalRobert T Taggart
Oct 29, 2013·Nucleic Acids Research·Gokul Ramaswami, Jin Billy Li
Sep 28, 2014·Bioinformatics·Simon AndersWolfgang Huber
Nov 5, 2014·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·Erez Y Levanon, Eli Eisenberg
Dec 3, 2014·Biochimica Et Biophysica Acta·John W B Hershey
Dec 18, 2014·Genome Biology·Michael I LoveSimon Anders
Jan 4, 2015·BMC Biology·Leila E RiederRobert A Reenan
Mar 31, 2015·Virology·Reuben S Harris, Jaquelin P Dudley

❮ Previous
Next ❯

Citations

Jul 4, 2019·Die Naturwissenschaften·Jacques Demongeot, Hervé Seligmann
Jul 14, 2020·Molecular Biology and Evolution·David D PollockRichard A Goldstein
Apr 15, 2020·Molecular Biology and Evolution·Xuhua Xia
Aug 20, 2019·Nucleic Acids Research·William C SolomonHiroshi Matsuo
Dec 15, 2019·International Journal of Molecular Sciences·Marta Correia de SousaMichelangelo Foti
Sep 14, 2019·Protein Science : a Publication of the Protein Society·Farshad C Azimi, Jeffrey E Lee
Aug 9, 2020·Molecular Cancer·Song-Yang WuZhi-Ming Shao
Aug 17, 2020·PLoS Pathogens·Florian PoulainNicolas A Gillet
Dec 26, 2019·Genome Biology·Pablo E García-NietoHunter B Fraser
Dec 23, 2020·PloS One·Yulong WeiXuhua Xia
Jan 27, 2021·International Journal of Molecular Sciences·Sidney IrianaNeelam Sharma-Walia
Jan 24, 2021·Communications Biology·Emad Y AlqassimBora E Baysal
Nov 8, 2020·Pathogens·Akshay KanakanRajesh Pandey
Feb 18, 2021·RNA Biology·Małgorzata KurkowiakNatalia Marek-Trzonkowska
Nov 26, 2020·Biochemical and Biophysical Research Communications·Tobias MourierArnab Pain
Mar 25, 2021·OncoTargets and Therapy·Hao WangYayi He
Aug 7, 2021·Trends in Genetics : TIG·Karla Cervantes-GraciaRichard Chahwan
Jan 23, 2022·Molecular Cancer·Xin LianShengtao Zhou

❮ Previous
Next ❯

Datasets Mentioned

BETA
GT10211
GTX110432

Methods Mentioned

BETA
deamination
RNA-seq
electrophoresis
PCR
flow cytometry
transfection

Software Mentioned

Gen5
Bioconductor
Tophat2
Cancer Cell Line Encyclopedia ( CCLE )
SIFT
ENSEMBL VEP tool
HTSeq
PolyPhen
FastQC
DAVID Bioinformatics Resources

Related Concepts

Related Feeds

Cancer Biology: Molecular Imaging

Molecular imaging enables noninvasive imaging of key molecules that are crucial to tumor biology. Discover the latest research in molecular imaging in cancer biology in this feed.