RNA molecules display distinctive organization at nuclear speckles.
Molecular interaction
Molecular physiology
Nucleic acids
Properties of biomolecules
Journal
iScience
ISSN: 2589-0042
Titre abrégé: iScience
Pays: United States
ID NLM: 101724038
Informations de publication
Date de publication:
17 May 2024
17 May 2024
Historique:
received:
09
08
2023
revised:
05
01
2024
accepted:
25
03
2024
medline:
19
4
2024
pubmed:
19
4
2024
entrez:
19
4
2024
Statut:
epublish
Résumé
RNA molecules often play critical roles in assisting the formation of membraneless organelles in eukaryotic cells. Yet, little is known about the organization of RNAs within membraneless organelles. Here, using super-resolution imaging and nuclear speckles as a model system, we demonstrate that different sequence domains of RNA transcripts exhibit differential spatial distributions within speckles. Specifically, we image transcripts containing a region enriched in binding motifs of serine/arginine-rich (SR) proteins and another region enriched in binding motifs of heterogeneous nuclear ribonucleoproteins (hnRNPs). We show that these transcripts localize to the outer shell of speckles, with the SR motif-rich region localizing closer to the speckle center relative to the hnRNP motif-rich region. Further, we identify that this intra-speckle RNA organization is driven by the strength of RNA-protein interactions inside and outside speckles. Our results hint at novel functional roles of nuclear speckles and likely other membraneless organelles in organizing RNA substrates for biochemical reactions.
Identifiants
pubmed: 38638569
doi: 10.1016/j.isci.2024.109603
pii: S2589-0042(24)00825-3
pmc: PMC11024929
doi:
Types de publication
Journal Article
Langues
eng
Pagination
109603Informations de copyright
© 2024 The Authors.
Déclaration de conflit d'intérêts
The authors declare no competing interests.
Références
Mol Cell. 2009 Dec 25;36(6):932-41
pubmed: 20064460
Cell. 2015 Oct 22;163(3):712-23
pubmed: 26496610
EMBO J. 1999 Aug 2;18(15):4308-20
pubmed: 10428969
RNA. 2015 Feb;21(2):213-29
pubmed: 25492963
Science. 2002 Aug 9;297(5583):1007-13
pubmed: 12114529
J Biol Chem. 2006 Mar 31;281(13):8917-26
pubmed: 16418172
Nat Methods. 2006 Oct;3(10):793-5
pubmed: 16896339
J Cell Sci. 2017 Dec 15;130(24):4180-4192
pubmed: 29133588
EMBO J. 1994 Mar 1;13(5):1197-204
pubmed: 7510636
Proc Natl Acad Sci U S A. 2011 May 17;108(20):8233-8
pubmed: 21536904
Nat Commun. 2010 Oct 19;1:97
pubmed: 20981025
Genes Dev. 2006 May 1;20(9):1100-9
pubmed: 16651655
Anat Rec A Discov Mol Cell Evol Biol. 2006 Jul;288(7):664-75
pubmed: 16761280
J Cell Sci. 2017 May 1;130(9):1519-1531
pubmed: 28302904
Mol Biol Cell. 2012 Sep;23(18):3694-706
pubmed: 22855529
Nat Cell Biol. 2019 Feb;21(2):162-168
pubmed: 30664789
J Comput Biol. 2004;11(2-3):377-94
pubmed: 15285897
Mol Biol Cell. 2004 Aug;15(8):3876-90
pubmed: 15169873
Genome Biol. 2009;10(10):242
pubmed: 19857271
Science. 2018 May 25;360(6391):918-921
pubmed: 29650702
Nat Rev Mol Cell Biol. 2017 May;18(5):285-298
pubmed: 28225081
RNA. 2012 Feb;18(2):284-99
pubmed: 22190747
Curr Opin Cell Biol. 2012 Jun;24(3):415-22
pubmed: 22541757
Nat Methods. 2008 Oct;5(10):877-9
pubmed: 18806792
Nucleic Acids Res. 2021 Jan 25;49(2):636-645
pubmed: 33337476
RNA. 2009 Mar;15(3):367-76
pubmed: 19155327
Mol Cell. 2001 Dec;8(6):1351-61
pubmed: 11779509
Cell. 2016 Jul 28;166(3):651-663
pubmed: 27374333
RNA. 2013 Jan;19(1):96-102
pubmed: 23175589
Nat Methods. 2012 Jun 28;9(7):676-82
pubmed: 22743772
Genes Dev. 1997 May 1;11(9):1148-59
pubmed: 9159396
BMC Biotechnol. 2011 Sep 23;11:87
pubmed: 21943395
J Biol Chem. 2008 Jan 18;283(3):1211-5
pubmed: 18024426
Nat Methods. 2012 Jun 03;9(7):743-8
pubmed: 22660740
Noncoding RNA Res. 2021 Apr 28;6(2):92-99
pubmed: 33997539
Bioinformatics. 2014 Aug 15;30(16):2389-90
pubmed: 24771516
Mol Cell. 2015 Oct 15;60(2):208-19
pubmed: 26412307
Mol Biol Cell. 2001 Feb;12(2):393-406
pubmed: 11179423
Cell. 2015 Sep 24;163(1):123-33
pubmed: 26406374
Proc Natl Acad Sci U S A. 1992 Jun 15;89(12):5547-51
pubmed: 1319065
Mol Cell. 2022 Mar 3;82(5):1035-1052.e9
pubmed: 35182477
Science. 2021 Sep 10;373(6560):1218-1224
pubmed: 34516789
EMBO J. 1994 Jul 15;13(14):3356-67
pubmed: 8045264
Annu Rev Cell Dev Biol. 2014;30:39-58
pubmed: 25288112
Mol Cell. 2020 Jun 4;78(5):941-950.e12
pubmed: 32464092
Nat Rev Genet. 2014 Oct;15(10):689-701
pubmed: 25112293
RNA. 2017 Oct;23(10):1582-1591
pubmed: 28698239
Nat Biotechnol. 2009 Jul;27(7):667-70
pubmed: 19561594
J Cell Biol. 2016 Sep 26;214(7):817-30
pubmed: 27646274
Annu Rev Biochem. 2015;84:65-92
pubmed: 26034888
Curr Opin Cell Biol. 2015 Jun;34:23-30
pubmed: 25942753
Mol Cell. 2018 Sep 20;71(6):1012-1026.e3
pubmed: 30174293