Identification of Hfq-binding RNAs in Caulobacter crescentus.
None
Hfq
RNA
Journal
RNA biology
ISSN: 1555-8584
Titre abrégé: RNA Biol
Pays: United States
ID NLM: 101235328
Informations de publication
Date de publication:
06 2019
06 2019
Historique:
pubmed:
15
3
2019
medline:
18
12
2019
entrez:
15
3
2019
Statut:
ppublish
Résumé
Small RNAs are important for post-transcriptional regulation of gene expression, affecting stability and activity of their target mRNAs. The bacterial Sm-like protein Hfq is required to promote pairing between both RNAs when their sequence complementarity is limited. To provide a first global view on the post-transcriptional landscape of the α-proteobacterium Caulobacter crescentus, we have identified the Hfq-binding RNAs employing High-throughput sequencing of RNA isolated by cross-linking immunoprecipitation (HITS-CLIP). A total of 261 RNAs, including 3 unannotated RNAs, were successfully identified and classified according to putative function. Moreover, possible interactions between the identified sRNAs with mRNA targets were postulated through computational target predictions.
Identifiants
pubmed: 30870072
doi: 10.1080/15476286.2019.1593091
pmc: PMC6546397
doi:
Substances chimiques
Host Factor 1 Protein
0
RNA, Messenger
0
RNA, Small Untranslated
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
719-726Références
Nucleic Acids Res. 2000 Jan 1;28(1):27-30
pubmed: 10592173
Mol Cell. 2002 Jan;9(1):11-22
pubmed: 11804582
EMBO J. 2002 Jul 1;21(13):3546-56
pubmed: 12093755
RNA. 2003 Nov;9(11):1308-14
pubmed: 14561880
Nat Struct Mol Biol. 2004 Dec;11(12):1206-14
pubmed: 15531892
Genes Dev. 2005 Sep 15;19(18):2176-86
pubmed: 16166379
Nucleic Acids Res. 2006 Jan 1;34(Database issue):D354-7
pubmed: 16381885
Methods Enzymol. 1991;204:372-84
pubmed: 1658564
Mol Microbiol. 2007 Jun;64(5):1260-73
pubmed: 17542919
Mol Microbiol. 2008 May;68(3):600-14
pubmed: 18373523
Bioinformatics. 2008 Dec 15;24(24):2849-56
pubmed: 18940824
Nucleic Acids Res. 2009 Jan;37(1):1-13
pubmed: 19033363
Mol Cell. 2008 Dec 26;32(6):827-37
pubmed: 19111662
Nat Protoc. 2009;4(1):44-57
pubmed: 19131956
Infect Immun. 2009 May;77(5):1866-80
pubmed: 19223477
Genome Biol. 2009;10(3):R25
pubmed: 19261174
Bioinformatics. 2009 Aug 15;25(16):2078-9
pubmed: 19505943
J Bacteriol. 2009 Sep;191(17):5553-62
pubmed: 19561130
Mol Microbiol. 2010 Mar;75(5):1215-31
pubmed: 20070527
Cold Spring Harb Perspect Biol. 2011 Dec 01;3(12):null
pubmed: 20980440
Mol Microbiol. 2011 Jun;80(6):1479-95
pubmed: 21535243
Proc Natl Acad Sci U S A. 2011 Aug 9;108(32):13065-70
pubmed: 21737752
PLoS One. 2011;6(7):e22248
pubmed: 21779404
Mol Cell. 2011 Sep 16;43(6):880-91
pubmed: 21925377
Algorithms Mol Biol. 2011 Nov 24;6:26
pubmed: 22115189
Proc Natl Acad Sci U S A. 2012 Jun 12;109(24):9396-401
pubmed: 22645344
Nat Protoc. 2012 Sep;7(9):1728-40
pubmed: 22936215
RNA. 2013 Aug;19(8):1089-104
pubmed: 23804244
Bioinformatics. 2014 Aug 1;30(15):2114-20
pubmed: 24695404
Mol Microbiol. 2014 Jun;92(5):945-58
pubmed: 24708042
RNA Biol. 2014;11(5):641-54
pubmed: 24922322
PLoS Genet. 2014 Jul 31;10(7):e1004463
pubmed: 25078267
PLoS Genet. 2015 Jan 08;11(1):e1004831
pubmed: 25569173
EMBO J. 2015 Oct 14;34(20):2557-73
pubmed: 26373314
EMBO J. 2016 May 2;35(9):991-1011
pubmed: 27044921
BMC Microbiol. 2016 Apr 12;16:66
pubmed: 27072651
Curr Opin Microbiol. 2016 Oct;33:131-139
pubmed: 27517351
Mol Cell. 2016 Sep 1;63(5):884-97
pubmed: 27588604
Nat Microbiol. 2016 Dec 22;2:16239
pubmed: 28005055
Nucleic Acids Res. 2017 May 5;45(8):e60
pubmed: 28108657
PLoS Genet. 2017 Aug 21;13(8):e1006978
pubmed: 28827812
Curr Opin Microbiol. 2018 Apr;42:53-61
pubmed: 29125938
J Bacteriol. 1977 Oct;132(1):294-301
pubmed: 334726
Proc Natl Acad Sci U S A. 1995 Sep 12;92(19):8793-7
pubmed: 7568019
Mol Microbiol. 1994 Jul;13(1):35-49
pubmed: 7984093
Genes Dev. 1996 May 1;10(9):1143-51
pubmed: 8654929
J Bacteriol. 1996 Jul;178(13):3763-70
pubmed: 8682778