CRNKL1 Is a Highly Selective Regulator of Intron-Retaining HIV-1 and Cellular mRNAs.
Cell Nucleus
/ genetics
Cytosol
/ metabolism
DEAD-box RNA Helicases
/ genetics
Exons
Gene Regulatory Networks
HIV-1
/ genetics
Host-Pathogen Interactions
/ genetics
Humans
Introns
Jurkat Cells
Nuclear Proteins
/ antagonists & inhibitors
Protein Interaction Mapping
RNA Splicing
RNA Splicing Factors
/ genetics
RNA, Messenger
/ genetics
RNA, Small Interfering
/ genetics
RNA, Viral
/ genetics
Spliceosomes
/ genetics
Transcriptome
rev Gene Products, Human Immunodeficiency Virus
/ genetics
CRNKL1
RNA splicing
association
human immunodeficiency virus
intron-retaining RNA
nuclear retention
Journal
mBio
ISSN: 2150-7511
Titre abrégé: mBio
Pays: United States
ID NLM: 101519231
Informations de publication
Date de publication:
19 01 2021
19 01 2021
Historique:
entrez:
20
1
2021
pubmed:
21
1
2021
medline:
11
9
2021
Statut:
epublish
Résumé
The HIV-1 Rev protein is a nuclear export factor for unspliced and incompletely spliced HIV-1 RNAs. Without Rev, these intron-retaining RNAs are trapped in the nucleus. A genome-wide screen identified nine proteins of the spliceosome, which all enhanced expression from the HIV-1 unspliced RNA after CRISPR/Cas knockdown. Depletion of DHX38, WDR70, and four proteins of the Prp19-associated complex (ISY1, BUD31, XAB2, and CRNKL1) resulted in a more than 20-fold enhancement of unspliced HIV-1 RNA levels in the cytoplasm. Targeting of CRNKL1, DHX38, and BUD31 affected nuclear export efficiencies of the HIV-1 unspliced RNA to a much larger extent than splicing. Transcriptomic analyses further revealed that CRNKL1 also suppresses cytoplasmic levels of a subset of cellular mRNAs, including some with selectively retained introns. Thus, CRNKL1-dependent nuclear retention is a novel cellular mechanism for the regulation of cytoplasmic levels of intron-retaining HIV-1 mRNAs, which HIV-1 may have harnessed to direct its complex splicing pattern.
Identifiants
pubmed: 33468685
pii: mBio.02525-20
doi: 10.1128/mBio.02525-20
pmc: PMC7845644
pii:
doi:
Substances chimiques
BUD31 protein, human
0
CRNKL1 protein, human
0
ISY1 protein, human
0
Nuclear Proteins
0
RNA Splicing Factors
0
RNA, Messenger
0
RNA, Small Interfering
0
RNA, Viral
0
XAB2 protein, human
0
rev Gene Products, Human Immunodeficiency Virus
0
rev protein, Human Immunodeficiency Virus-1
0
DHX38 protein, human
EC 3.6.1.-
DEAD-box RNA Helicases
EC 3.6.4.13
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Informations de copyright
Copyright © 2021 Xiao et al.
Références
J Virol. 2015 Apr;89(7):3557-67
pubmed: 25589658
Nat Methods. 2014 Aug;11(8):783-784
pubmed: 25075903
Curr Biol. 1996 Mar 1;6(3):315-24
pubmed: 8805248
RNA. 2005 May;11(5):533-57
pubmed: 15840809
Hum Gene Ther. 2000 Nov 20;11(17):2403-13
pubmed: 11096444
J Mol Biol. 2018 Sep 14;430(18 Pt B):3111-3128
pubmed: 30131116
J Cell Biol. 2013 Oct 14;203(1):149-64
pubmed: 24127217
J Gen Virol. 2010 Aug;91(Pt 8):1893-1897
pubmed: 20538907
J Biol Chem. 2010 May 28;285(22):16495-503
pubmed: 20353939
Cell Cycle. 2015;14(12):1873-83
pubmed: 25892155
J Virol. 2004 Feb;78(4):2082-7
pubmed: 14747573
Proc Natl Acad Sci U S A. 1994 Aug 30;91(18):8314-8
pubmed: 8078879
Cell Host Microbe. 2008 Jun 12;3(6):388-98
pubmed: 18541215
Neuron. 2006 Dec 21;52(6):969-80
pubmed: 17178401
Genes Dev. 1991 Jun;5(6):1080-91
pubmed: 2044955
Nature. 2016 Dec 22;540(7634):593-596
pubmed: 27951587
PLoS Pathog. 2007 Apr;3(4):e54
pubmed: 17432934
Science. 2014 Jan 3;343(6166):84-87
pubmed: 24336571
EMBO J. 1997 Aug 1;16(15):4531-9
pubmed: 9303297
J Comput Biol. 2004;11(2-3):377-94
pubmed: 15285897
Cold Spring Harb Perspect Med. 2012 Feb;2(2):a006916
pubmed: 22355797
Mol Cell Biol. 1993 Oct;13(10):6180-9
pubmed: 8105371
RNA. 2011 Jul;17(7):1344-56
pubmed: 21613532
Nat Rev Drug Discov. 2017 Nov;16(11):773-786
pubmed: 29026209
PLoS One. 2011 Feb 28;6(2):e16719
pubmed: 21386897
J Mol Biol. 1996 Mar 29;257(2):246-64
pubmed: 8609621
Hum Genet. 2017 Sep;136(9):1043-1057
pubmed: 28391524
Genome Res. 2014 Nov;24(11):1774-86
pubmed: 25258385
Cell Rep. 2015 Feb 3;10(4):586-99
pubmed: 25620704
Biochim Biophys Acta. 2012 Jun;1819(6):507-13
pubmed: 22178508
Cell. 2018 Dec 13;175(7):1958-1971.e15
pubmed: 30449619
PLoS Comput Biol. 2010 Nov 24;6(11):e1001016
pubmed: 21124863
Nat Biotechnol. 2019 Aug;37(8):907-915
pubmed: 31375807
Annu Rev Microbiol. 1998;52:491-532
pubmed: 9891806
Science. 2015 Nov 27;350(6264):1096-101
pubmed: 26472758
Biochem Biophys Res Commun. 2018 Mar 4;497(2):597-604
pubmed: 29454968
Cell. 2017 May 18;169(5):918-929.e14
pubmed: 28502770
Proc Natl Acad Sci U S A. 1994 Feb 15;91(4):1256-60
pubmed: 8108397
J Virol. 1991 Oct;65(10):5305-13
pubmed: 1895385
Virus Genes. 1996;12(3):275-85
pubmed: 8883365
J Virol. 1998 Apr;72(4):2855-64
pubmed: 9525605
EMBO J. 2004 Dec 8;23(24):4847-56
pubmed: 15565172
Nucleic Acids Res. 2017 Oct 13;45(18):10350-10368
pubmed: 28977640
J Virol. 2010 Jul;84(13):6598-604
pubmed: 20427541
RNA Biol. 2009 Apr-Jun;6(2):149-52
pubmed: 19229134
J Virol. 2015 Sep;89(18):9601-15
pubmed: 26178996
Retrovirology. 2011 Jul 20;8:61
pubmed: 21771347
Science. 2018 Feb 2;359(6375):537-545
pubmed: 29301961
Genes Cells. 2011 Oct;16(10):1035-49
pubmed: 21929696
Science. 2019 Feb 15;363(6428):710-714
pubmed: 30705154
J Biol Chem. 2003 Jan 10;278(2):1086-93
pubmed: 12370191
Virology. 2013 Jan 20;435(2):329-40
pubmed: 23158102
Nat Commun. 2020 Jun 9;11(1):2907
pubmed: 32518300
Proc Natl Acad Sci U S A. 2012 Apr 10;109(15):5651-6
pubmed: 22451905
Mol Cell Biol. 2003 Sep;23(18):6618-30
pubmed: 12944487
Genome Biol. 2014;15(12):554
pubmed: 25476604
Genes Dev. 2011 Jun 1;25(11):1147-58
pubmed: 21576257
mBio. 2018 Nov 13;9(6):
pubmed: 30425153
J Virol. 2004 May;78(9):4389-96
pubmed: 15078920
PLoS Genet. 2018 Jul 3;14(7):e1007473
pubmed: 29969449
Science. 2017 Jan 13;355(6321):149-155
pubmed: 27980089
Cold Spring Harb Protoc. 2010 Jun;2010(6):pdb.prot5439
pubmed: 20516177
Mol Cell Biol. 2000 Jun;20(12):4181-7
pubmed: 10825183
BMC Bioinformatics. 2011 Aug 04;12:323
pubmed: 21816040
Curr HIV Res. 2009 Jan;7(1):91-100
pubmed: 19149558
J Virol. 1991 Nov;65(11):5732-43
pubmed: 1656066
Bioinformatics. 2011 Nov 1;27(21):2987-93
pubmed: 21903627
Proc Natl Acad Sci U S A. 1989 Aug;86(16):6111-5
pubmed: 2788283
Cell Rep. 2012 May 31;1(5):543-56
pubmed: 22832277
Nucleic Acids Res. 2015 Apr 30;43(8):4249-61
pubmed: 25845599
J Cell Biol. 2017 Jul 3;216(7):1875-1877
pubmed: 28600433
Curr Opin Cell Biol. 2003 Jun;15(3):326-31
pubmed: 12787775
Curr Pharm Des. 2017;23(28):4079-4090
pubmed: 28641539
Nat Biotechnol. 2011 Jan;29(1):24-6
pubmed: 21221095
Nucleic Acids Res. 2019 Sep 5;47(15):8239-8254
pubmed: 31216022
RNA Biol. 2016;13(2):128-33
pubmed: 26479714
Retrovirology. 2006 Mar 17;3:18
pubmed: 16545126
J Virol. 2000 Nov;74(22):10822-6
pubmed: 11044131
RNA Biol. 2013 Nov;10(11):1714-25
pubmed: 24157614
Nucleic Acids Res. 2013 Feb 1;41(4):2517-25
pubmed: 23275560
Retrovirology. 2011 Jul 20;8:60
pubmed: 21771346
Biochim Biophys Acta. 2002 Jul 19;1576(3):287-97
pubmed: 12084575
Curr Protoc Hum Genet. 2015 Oct 06;87:11.16.1-11.16.14
pubmed: 26439713
Science. 2016 Sep 9;353(6304):1101-2
pubmed: 27609877
Biochim Biophys Acta. 2013 Oct;1833(10):2126-34
pubmed: 23742842
J Clin Invest. 2009 Nov;119(11):3473-86
pubmed: 19805909
J Virol. 2012 Mar;86(6):2990-3002
pubmed: 22258250
Mol Biol Evol. 2017 Oct 1;34(10):2453-2468
pubmed: 28957512
Proc Natl Acad Sci U S A. 2008 Mar 4;105(9):3386-91
pubmed: 18287003
Nature. 1988 Sep 8;335(6186):181-3
pubmed: 3412474
Nucleic Acids Res. 2014 Jun;42(10):6645-58
pubmed: 24753416
mBio. 2013 Jan 29;4(1):e00596-12
pubmed: 23362321
Proc Natl Acad Sci U S A. 1999 Oct 12;96(21):12039-43
pubmed: 10518572
Cell. 2004 Jan 9;116(1):63-73
pubmed: 14718167
Mol Cell. 2011 Oct 7;44(1):108-19
pubmed: 21981922
RNA. 2015 Sep;21(9):1521-31
pubmed: 26179515
Mol Cell. 2019 Feb 21;73(4):803-814.e6
pubmed: 30639243