title: Analysis of SRrp86-regulated alternative splicing: control of c-Jun and IκBβ activity.
abstract: Previous work led to the hypothesis that SRrp86, a related member of the SR protein superfamily, can interact with and modulate the activity of other SR proteins. Here, we sought to test this hypothesis by examining the effect of changing SRrp86 concentrations on overall alternative splicing patterns. SpliceArrays were used to examine 9,854 splicing events in wild-type cells, cells overexpressing SRrp86, and cells treated with siRNAs to knockdown SRrp86. From among the 500 splicing events exhibiting altered splicing under these conditions, the splicing of c-Jun and IκBβ were validated as being regulated by SRrp86 resulting in altered regulation of their downstream targets. In both cases, functionally distinct isoforms were generated that demonstrate the role SRrp86 plays in controlling alternative splicing.
authors.affiliation: Department of Biological Sciences, Vanderbilt University, Nashville, TN USA.
authors.forename: Amanda S
authors.initials: AS
authors.lastname: Solis
authors.forename: James G
authors.initials: JG
authors.lastname: Patton
mesh_terms: D017398:Alternative Splicing; D000818:Animals; D045744:Cell Line, Tumor; D006367:HeLa Cells; D006801:Humans; D020672:I-kappa B Proteins / Q000235:genetics*; D046228:Microarray Analysis; D016328:NF-kappa B / Q000378:metabolism; D009687:Nuclear Proteins; D016755:Proto-Oncogene Proteins c-jun / Q000235:genetics*; D012326:RNA Splicing; D016601:RNA-Binding Proteins / Q000235:genetics / Q000378:metabolism*; D051381:Rats; D000068103:Serine-Arginine Splicing Factors
chemical_list: C083487:I kappa B beta protein; D020672:I-kappa B Proteins; D016328:NF-kappa B; D009687:Nuclear Proteins; D016755:Proto-Oncogene Proteins c-jun; D016601:RNA-Binding Proteins; C458841:SREK1 protein, human; C486754:Srek1 protein, rat; D000068103:Serine-Arginine Splicing Factors
references.citation: Mol Cell Biol. 2000 Sep;20(17):6414-25
references.pmid: 10938119
references.citation: Cell. 1993 Dec 17;75(6):1061-70
references.pmid: 8261509
references.citation: RNA. 2002 Apr;8(4):526-33
references.pmid: 11991645
references.citation: PLoS Biol. 2003 Oct;1(1):E12
references.pmid: 14551910
references.citation: Mol Cell Biol. 2000 May;20(9):3049-57
references.pmid: 10757789
references.citation: Mol Cell Biol. 1996 Apr;16(4):1295-304
references.pmid: 8657102
references.citation: Nature. 1994 Mar 10;368(6467):119-24
references.pmid: 8139654
references.citation: Biochem Pharmacol. 1994 Aug 3;48(3):525-33
references.pmid: 8068039
references.citation: Oncogene. 2006 Oct 30;25(51):6685-705
references.pmid: 17072322
references.citation: Science. 2001 Feb 16;291(5507):1304-51
references.pmid: 11181995
references.citation: Genes Dev. 2004 Sep 15;18(18):2195-224
references.pmid: 15371334
references.citation: J Biol Chem. 1999 May 7;274(19):13010-6
references.pmid: 10224051
references.citation: Nucleic Acids Res. 1988 Nov 11;16(21):9893-908
references.pmid: 3057449
references.citation: Mol Cell Biol. 1990 Jan;10(1):84-94
references.pmid: 2136768
references.citation: Nat Genet. 2008 Dec;40(12):1413-5
references.pmid: 18978789
references.citation: Science. 1988 Oct 28;242(4878):540-6
references.pmid: 3140380
references.citation: Cell. 1998 Dec 11;95(6):759-70
references.pmid: 9865694
references.citation: Genes Dev. 1987 Aug;1(6):532-43
references.pmid: 2824284
references.citation: J Biol Chem. 1995 Jul 14;270(28):16483-6
references.pmid: 7622446
references.citation: Nature. 1993 Sep 9;365(6442):179-81
references.pmid: 8371760
references.citation: Genes Dev. 1993 Nov;7(11):2064-70
references.pmid: 8224838
references.citation: Curr Opin Genet Dev. 1993 Aug;3(4):574-84
references.pmid: 8241769
references.citation: Curr Opin Genet Dev. 1996 Apr;6(2):215-20
references.pmid: 8722179
references.citation: RNA. 1995 Sep;1(7):692-706
references.pmid: 7585254
references.citation: Annu Rev Biochem. 2003;72:291-336
references.pmid: 12626338
references.citation: Cancer Res. 1996 Jan 15;56(2):305-15
references.pmid: 8542585
references.citation: Trends Genet. 1991 Mar;7(3):79-85
references.pmid: 2031287
references.citation: Mol Cell Biol. 1995 Mar;15(3):1302-11
references.pmid: 7862124
references.citation: Mol Cell Biol. 1999 Jan;19(1):261-73
references.pmid: 9858550
references.citation: J Biol Chem. 2003 Jun 20;278(25):23101-6
references.pmid: 12672800
references.citation: Genes Dev. 1993 Jul;7(7B):1309-17
references.pmid: 8330736
references.citation: Mol Cell Biol. 1994 Nov;14(11):7670-82
references.pmid: 7935481
references.citation: Genes Dev. 1993 Jun;7(6):1008-20
references.pmid: 8504926
references.citation: Mol Cell Biol. 1996 Oct;16(10):5444-9
references.pmid: 8816457
references.citation: Nucleic Acids Res. 1995 Aug 25;23(16):3260-7
references.pmid: 7667103
references.citation: Nature. 2008 Nov 27;456(7221):470-6
references.pmid: 18978772
references.citation: Nat Genet. 2002 Jan;30(1):13-9
references.pmid: 11753382
references.citation: Cell. 1994 Feb 25;76(4):735-46
references.pmid: 8124712
references.citation: Nat Rev Cancer. 2003 Nov;3(11):859-68
references.pmid: 14668816
references.citation: RNA. 1995 Mar;1(1):21-35
references.pmid: 7489484
references.citation: Nat Rev Genet. 2002 Apr;3(4):285-98
references.pmid: 11967553
references.citation: J Biol Chem. 2002 Oct 18;277(42):39485-92
references.pmid: 12183448
references.citation: Cell. 1998 Dec 11;95(6):749-58
references.pmid: 9865693
references.citation: Genes Dev. 1995 Jul 1;9(13):1586-97
references.pmid: 7628694
references.citation: Mol Cell Biol. 1990 Dec;10(12):6299-305
references.pmid: 2247057
references.citation: Proc Natl Acad Sci U S A. 1995 Nov 21;92(24):11259-63
references.pmid: 7479976
references.citation: Mol Cell Biol. 1998 May;18(5):2596-607
references.pmid: 9566879
references.citation: Nature. 2001 Feb 15;409(6822):860-921
references.pmid: 11237011
references.citation: Mol Cell Biol. 2003 Nov;23(21):7437-47
references.pmid: 14559993
references.citation: J Biol Chem. 2001 Nov 30;276(48):45225-35
references.pmid: 11571291
references.citation: Mol Cell Biol. 2004 Apr;24(7):3048-56
references.pmid: 15024091
references.citation: Trends Biochem Sci. 2000 Mar;25(3):106-10
references.pmid: 10694877
references.citation: Nucleic Acids Res. 2003 Nov 1;31(21):6321-33
references.pmid: 14576320
references.citation: Nucleic Acids Res. 1993 Dec 25;21(25):5803-16
references.pmid: 8290338