دورية أكاديمية
أعرض في EDS

A compendium of Caenorhabditis elegans RNA binding proteins predicts extensive regulation at multiple levels.

التفاصيل البيبلوغرافية
العنوان: A compendium of Caenorhabditis elegans RNA binding proteins predicts extensive regulation at multiple levels.
المؤلفون: Tamburino AM; Program in Systems Biology, University of Massachusetts Medical School, Worcester, Massachusetts 01605, USA., Ryder SP, Walhout AJ
المصدر: G3 (Bethesda, Md.) [G3 (Bethesda)] 2013 Feb; Vol. 3 (2), pp. 297-304. Date of Electronic Publication: 2013 Feb 01.
نوع المنشور: Journal Article; Research Support, N.I.H., Extramural
اللغة: English
بيانات الدورية: Publisher: Oxford University Press Country of Publication: England NLM ID: 101566598 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 2160-1836 (Electronic) Linking ISSN: 21601836 NLM ISO Abbreviation: G3 (Bethesda) Subsets: MEDLINE
أسماء مطبوعة: Publication: 2021- : [Oxford] : Oxford University Press
Original Publication: Bethesda, MD : Genetics Society of America, 2011-
مواضيع طبية MeSH: Caenorhabditis elegans/*genetics , Caenorhabditis elegans Proteins/*metabolism , RNA-Binding Proteins/*metabolism, 3' Untranslated Regions ; Animals ; Caenorhabditis elegans/metabolism ; Caenorhabditis elegans Proteins/genetics ; Gene Expression Regulation ; Genome ; MicroRNAs/metabolism ; Phosphorylation ; RNA, Messenger/metabolism ; RNA-Binding Proteins/genetics ; Software ; Transcription Factors/genetics ; Transcription Factors/metabolism
مستخلص: Gene expression is regulated at multiple levels, including transcription and translation, as well as mRNA and protein stability. Although systems-level functions of transcription factors and microRNAs are rapidly being characterized, few studies have focused on the posttranscriptional gene regulation by RNA binding proteins (RBPs). RBPs are important to many aspects of gene regulation. Thus, it is essential to know which genes encode RBPs, which RBPs regulate which gene(s), and how RBP genes are themselves regulated. Here we provide a comprehensive compendium of RBPs from the nematode Caenorhabditis elegans (wRBP1.0). We predict that as many as 887 (4.4%) of C. elegans genes may encode RBPs ~250 of which likely function in a gene-specific manner. In addition, we find that RBPs, and most notably gene-specific RBPs, are themselves enriched for binding and modification by regulatory proteins, indicating the potential for extensive regulation of RBPs at many different levels. wRBP1.0 will provide a significant contribution toward the comprehensive delineation of posttranscriptional regulatory networks and will provide a resource for further studies regulation by RBPs.
References: PLoS Biol. 2008 Oct 28;6(10):e255. (PMID: 18959479)
Genes Dev. 2008 Sep 15;22(18):2535-49. (PMID: 18794350)
Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W116-20. (PMID: 15980438)
Genome Biol. 2005;6(13):R110. (PMID: 16420670)
Nat Genet. 2000 May;25(1):25-9. (PMID: 10802651)
Bioessays. 2009 Apr;31(4):435-45. (PMID: 19274664)
Cell. 2009 Feb 20;136(4):688-700. (PMID: 19239889)
Nat Methods. 2011 Oct 30;8(12):1059-64. (PMID: 22037705)
FEBS Lett. 2008 Jun 18;582(14):1977-86. (PMID: 18342629)
Genome Res. 2008 Oct;18(10):1660-9. (PMID: 18653799)
Proc Natl Acad Sci U S A. 2010 Feb 23;107(8):3936-41. (PMID: 20142496)
Nat Methods. 2008 Sep;5(9):813-9. (PMID: 19160516)
Science. 2010 Jul 23;329(5990):432-5. (PMID: 20522740)
Cell. 2009 Feb 20;136(4):642-55. (PMID: 19239886)
Nucleic Acids Res. 2012 Jan;40(Database issue):D302-5. (PMID: 22053084)
Methods Cell Biol. 2011;106:271-88. (PMID: 22118281)
Nat Rev Mol Cell Biol. 2008 Mar;9(3):242-53. (PMID: 18292779)
Cell. 2006 Jul 14;126(1):37-47. (PMID: 16839875)
EMBO J. 2011 Feb 2;30(3):533-45. (PMID: 21169991)
Proc Natl Acad Sci U S A. 2003 Sep 30;100(20):11429-34. (PMID: 13679573)
Nucleic Acids Res. 2009 Jan;37(Database issue):D211-5. (PMID: 18940856)
Nature. 2011 Jan 6;469(7328):97-101. (PMID: 21085120)
Nat Rev Genet. 2009 Apr;10(4):252-63. (PMID: 19274049)
Cell. 2009 Feb 20;136(4):701-18. (PMID: 19239890)
BMC Genomics. 2007 Jan 23;8:27. (PMID: 17244357)
Cell. 2009 Jul 23;138(2):314-27. (PMID: 19632181)
EMBO J. 1992 Jul;11(7):2655-64. (PMID: 1628625)
Proc Natl Acad Sci U S A. 2009 Dec 1;106(48):20252-7. (PMID: 19915141)
Nat Struct Mol Biol. 2005 Nov;12(11):945-51. (PMID: 16244662)
Nature. 2009 Nov 5;462(7269):65-70. (PMID: 19890324)
Science. 2009 Jun 26;324(5935):1720-3. (PMID: 19443739)
Cell. 2009 Jan 23;136(2):215-33. (PMID: 19167326)
Nucleic Acids Res. 2006 Jan 1;34(Database issue):D74-81. (PMID: 16381970)
Proc Natl Acad Sci U S A. 2009 Dec 1;106(48):20300-5. (PMID: 19918083)
Nature. 2003 Nov 6;426(6962):96-100. (PMID: 14603324)
Nucleic Acids Res. 2009 Jan;37(Database issue):D169-74. (PMID: 18836194)
Nat Struct Mol Biol. 2004 Jan;11(1):20-8. (PMID: 14718919)
Proc Natl Acad Sci U S A. 2010 Oct 5;107(40):17445-50. (PMID: 20855596)
Cell. 2006 Jun 16;125(6):1193-205. (PMID: 16777607)
WormBook. 2007 May 03;:1-16. (PMID: 18050494)
Nucleic Acids Res. 2012 Jan;40(Database issue):D290-301. (PMID: 22127870)
Cell. 2009 Aug 21;138(4):673-84. (PMID: 19703394)
Nucleic Acids Res. 2010 Jan;38(Database issue):D161-6. (PMID: 19858104)
RNA. 2008 Dec;14(12):2685-97. (PMID: 18952820)
Mol Cell. 2011 Dec 9;44(5):828-40. (PMID: 22152485)
Mol Syst Biol. 2010 May 11;6:367. (PMID: 20461074)
Science. 2010 Dec 24;330(6012):1775-87. (PMID: 21177976)
Nat Struct Mol Biol. 2010 Jun;17(6):666-72. (PMID: 20495563)
J Mol Biol. 2011 Jun 10;409(3):466-79. (PMID: 21501624)
Nucleic Acids Res. 2009 Jan;37(Database issue):D380-6. (PMID: 19036790)
Nat Rev Genet. 2003 Aug;4(8):626-37. (PMID: 12897774)
Nucleic Acids Res. 2011 Jan;39(Database issue):D301-8. (PMID: 21036867)
J Biol Chem. 2007 Mar 23;282(12):8883-94. (PMID: 17264081)
BMC Genomics. 2009 May 09;10:213. (PMID: 19426519)
RNA. 2005 Apr;11(4):447-58. (PMID: 15769874)
Nat Struct Mol Biol. 2010 Feb;17(2):173-9. (PMID: 20062054)
Cell. 1992 Nov 13;71(4):679-90. (PMID: 1423623)
Brief Funct Genomics. 2010 Jan;9(1):4-12. (PMID: 20008400)
J Proteome Res. 2009 Aug;8(8):4039-49. (PMID: 19530675)
Nature. 2004 Sep 2;431(7004):99-104. (PMID: 15343339)
Science. 2008 Jun 20;320(5883):1643-7. (PMID: 18566288)
معلومات مُعتمدة: R01 GM081422 United States GM NIGMS NIH HHS; R21 HG006234 United States HG NHGRI NIH HHS; GM081422 United States GM NIGMS NIH HHS; HG006234 United States HG NHGRI NIH HHS
فهرسة مساهمة: Keywords: C. elegans; RBP; RNA binding protein; gene expression; regulation; systems biology
المشرفين على المادة: 0 (3' Untranslated Regions)
0 (Caenorhabditis elegans Proteins)
0 (MicroRNAs)
0 (RNA, Messenger)
0 (RNA-Binding Proteins)
0 (Transcription Factors)
تواريخ الأحداث: Date Created: 20130208 Date Completed: 20130814 Latest Revision: 20211021
رمز التحديث: 20221213
مُعرف محوري في PubMed: PMC3564989
DOI: 10.1534/g3.112.004390
PMID: 23390605
قاعدة البيانات: MEDLINE
الوصف
تدمد:2160-1836
DOI:10.1534/g3.112.004390