Novel and Annotated Long Noncoding RNAs Associated with Ischemia in the Human Heart.
RNA sequencing
long noncoding RNA
myocardial ischemia
Journal
International journal of molecular sciences
ISSN: 1422-0067
Titre abrégé: Int J Mol Sci
Pays: Switzerland
ID NLM: 101092791
Informations de publication
Date de publication:
20 Oct 2021
20 Oct 2021
Historique:
received:
27
09
2021
revised:
15
10
2021
accepted:
18
10
2021
entrez:
13
11
2021
pubmed:
14
11
2021
medline:
4
1
2022
Statut:
epublish
Résumé
Long noncoding RNAs (lncRNAs) have been implicated in the pathogenesis of cardiovascular diseases. We aimed to identify novel lncRNAs associated with the early response to ischemia in the heart. RNA sequencing data gathered from 81 paired left ventricle samples from patients undergoing cardiopulmonary bypass was collected before and after a period of ischemia. Novel lncRNAs were validated with Oxford Nanopore Technologies long-read sequencing. Gene modules associated with an early ischemic response were identified and the subcellular location of selected lncRNAs was determined with RNAscope. A total of 2446 mRNAs, 270 annotated lncRNAs and one novel lncRNA differed in response to ischemia (adjusted We have identified 10 novel lncRNAs, one of which was associated with myocardial ischemia and may have potential as a novel therapeutic target or early marker for myocardial dysfunction.
Sections du résumé
BACKGROUND
BACKGROUND
Long noncoding RNAs (lncRNAs) have been implicated in the pathogenesis of cardiovascular diseases. We aimed to identify novel lncRNAs associated with the early response to ischemia in the heart.
METHODS AND RESULTS
RESULTS
RNA sequencing data gathered from 81 paired left ventricle samples from patients undergoing cardiopulmonary bypass was collected before and after a period of ischemia. Novel lncRNAs were validated with Oxford Nanopore Technologies long-read sequencing. Gene modules associated with an early ischemic response were identified and the subcellular location of selected lncRNAs was determined with RNAscope. A total of 2446 mRNAs, 270 annotated lncRNAs and one novel lncRNA differed in response to ischemia (adjusted
CONCLUSION
CONCLUSIONS
We have identified 10 novel lncRNAs, one of which was associated with myocardial ischemia and may have potential as a novel therapeutic target or early marker for myocardial dysfunction.
Identifiants
pubmed: 34768754
pii: ijms222111324
doi: 10.3390/ijms222111324
pmc: PMC8583240
pii:
doi:
Substances chimiques
RNA, Long Noncoding
0
RNA, Messenger
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Subventions
Organisme : NHLBI NIH HHS
ID : R01 HL084553
Pays : United States
Organisme : Heart Foundation of New Zealand
ID : 1794
Références
Genes Dev. 2011 Sep 15;25(18):1915-27
pubmed: 21890647
Bioinformatics. 2019 Jun 1;35(11):1966-1967
pubmed: 30346488
Nat Methods. 2016 Sep;13(9):792-8
pubmed: 27502218
Biochem Biophys Res Commun. 2018 Jan 1;495(1):884-891
pubmed: 29158084
Mol Cancer Ther. 2017 Jun;16(6):981-990
pubmed: 28576945
F1000Res. 2015 Dec 30;4:1521
pubmed: 26925227
BMC Bioinformatics. 2008 Dec 29;9:559
pubmed: 19114008
Ann Transl Med. 2016 May;4(10):194
pubmed: 27294090
Cardiovasc Res. 2019 Nov 1;115(13):1886-1906
pubmed: 30924864
Circulation. 2015 Mar 3;131(9):815-26
pubmed: 25561514
J Cell Biochem. 2019 Aug;120(8):12810-12821
pubmed: 30868666
Biochim Biophys Acta Mol Basis Dis. 2020 May 1;1866(5):165659
pubmed: 31891806
Circ Cardiovasc Genet. 2017 Jan;10(1):
pubmed: 28115490
Bioinformatics. 2014 Aug 1;30(15):2114-20
pubmed: 24695404
Genome Biol. 2014;15(12):550
pubmed: 25516281
Genome Res. 2005 Aug;15(8):1034-50
pubmed: 16024819
FEBS Lett. 2009 May 19;583(10):1625-30
pubmed: 19406122
Orphanet J Rare Dis. 2020 Apr 22;15(1):101
pubmed: 32321550
J Mol Cell Cardiol. 2015 Dec;89(Pt A):98-112
pubmed: 26423156
Mol Diagn Ther. 2019 Dec;23(6):735-749
pubmed: 31602567
Nat Biotechnol. 2015 Mar;33(3):290-5
pubmed: 25690850
Free Radic Biol Med. 2016 Aug;97:501-512
pubmed: 27394173
Nature. 2012 Sep 6;489(7414):57-74
pubmed: 22955616
J Vasc Surg. 2018 Dec;68(6S):222S-233S.e1
pubmed: 30126780
Bioinformatics. 2016 Oct 1;32(19):3047-8
pubmed: 27312411
Mol Med Rep. 2018 Sep;18(3):3451-3460
pubmed: 30066872
Genome Res. 2012 Sep;22(9):1760-74
pubmed: 22955987
Genes Genomics. 2020 Nov;42(11):1299-1310
pubmed: 32980991
Bioinformatics. 2013 Jan 1;29(1):15-21
pubmed: 23104886
Circ Res. 2016 Jan 8;118(1):132-44
pubmed: 26837744
FEBS J. 2008 Jan;275(1):138-47
pubmed: 18039331
Oncol Lett. 2019 Dec;18(6):6795-6800
pubmed: 31819778
J Cell Physiol. 2019 Mar;234(3):2997-3006
pubmed: 30146700
PLoS One. 2019 Feb 28;14(2):e0213081
pubmed: 30818334
Front Cell Dev Biol. 2018 Feb 09;6:11
pubmed: 29479529
Mol Ther Nucleic Acids. 2014 Aug 19;3:e188
pubmed: 25137140
Nature. 2009 Mar 12;458(7235):223-7
pubmed: 19182780
Elife. 2019 Dec 04;8:
pubmed: 31789590
Nat Methods. 2017 Apr;14(4):417-419
pubmed: 28263959
Nature. 2017 Mar 9;543(7644):199-204
pubmed: 28241135
Cardiovasc Res. 2016 Jul 1;111(1):56-65
pubmed: 27084844
Bioinformatics. 2018 Sep 15;34(18):3094-3100
pubmed: 29750242
Nucleic Acids Res. 2013 Apr 1;41(6):e74
pubmed: 23335781
EMBO J. 2020 Mar 16;39(6):e103777
pubmed: 32090359
Nat Rev Mol Cell Biol. 2021 Feb;22(2):96-118
pubmed: 33353982