دورية أكاديمية
أعرض في EDS

The nuclear and organellar tRNA-derived RNA fragment population in Arabidopsis thaliana is highly dynamic.

التفاصيل البيبلوغرافية
العنوان: The nuclear and organellar tRNA-derived RNA fragment population in Arabidopsis thaliana is highly dynamic.
المؤلفون: Cognat V; Institut de biologie moléculaire des plantes, UPR 2357 CNRS, associated with Strasbourg University, 12 rue du Général Zimmer 67084 Strasbourg cedex, France., Morelle G; Institut de biologie moléculaire des plantes, UPR 2357 CNRS, associated with Strasbourg University, 12 rue du Général Zimmer 67084 Strasbourg cedex, France.; Australian Research Council Centre of Excellence in Plant Energy Biology, The University of Western Australia, Crawley WA6009, Australia., Megel C; Institut de biologie moléculaire des plantes, UPR 2357 CNRS, associated with Strasbourg University, 12 rue du Général Zimmer 67084 Strasbourg cedex, France., Lalande S; Institut de biologie moléculaire des plantes, UPR 2357 CNRS, associated with Strasbourg University, 12 rue du Général Zimmer 67084 Strasbourg cedex, France., Molinier J; Institut de biologie moléculaire des plantes, UPR 2357 CNRS, associated with Strasbourg University, 12 rue du Général Zimmer 67084 Strasbourg cedex, France., Vincent T; Institut de biologie moléculaire des plantes, UPR 2357 CNRS, associated with Strasbourg University, 12 rue du Général Zimmer 67084 Strasbourg cedex, France., Small I; Australian Research Council Centre of Excellence in Plant Energy Biology, The University of Western Australia, Crawley WA6009, Australia., Duchêne AM; Institut de biologie moléculaire des plantes, UPR 2357 CNRS, associated with Strasbourg University, 12 rue du Général Zimmer 67084 Strasbourg cedex, France., Maréchal-Drouard L; Institut de biologie moléculaire des plantes, UPR 2357 CNRS, associated with Strasbourg University, 12 rue du Général Zimmer 67084 Strasbourg cedex, France.
المصدر: Nucleic acids research [Nucleic Acids Res] 2017 Apr 07; Vol. 45 (6), pp. 3460-3472.
نوع المنشور: Journal Article; Research Support, Non-U.S. Gov't
اللغة: English
بيانات الدورية: Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print Cited Medium: Internet ISSN: 1362-4962 (Electronic) Linking ISSN: 03051048 NLM ISO Abbreviation: Nucleic Acids Res Subsets: MEDLINE
أسماء مطبوعة: Publication: 1992- : Oxford : Oxford University Press
Original Publication: London, Information Retrieval ltd.
مواضيع طبية MeSH: Arabidopsis/*genetics , Cell Nucleus/*metabolism , RNA, Transfer/*metabolism , RNA, Untranslated/*metabolism, Arabidopsis/metabolism ; Arabidopsis Proteins/metabolism ; Argonaute Proteins/metabolism ; Cell Nucleus/genetics ; Plant Leaves/genetics ; Plant Leaves/metabolism ; Plant Roots/genetics ; Plant Roots/metabolism ; Plastids/metabolism ; RNA/metabolism ; RNA, Chloroplast/metabolism ; RNA, Mitochondrial ; RNA, Transfer/chemistry ; RNA, Untranslated/chemistry ; Stress, Physiological
مستخلص: In the expanding repertoire of small noncoding RNAs (ncRNAs), tRNA-derived RNA fragments (tRFs) have been identified in all domains of life. Their existence in plants has been already proven but no detailed analysis has been performed. Here, short tRFs of 19-26 nucleotides were retrieved from Arabidopsis thaliana small RNA libraries obtained from various tissues, plants submitted to abiotic stress or fractions immunoprecipitated with ARGONAUTE 1 (AGO1). Large differences in the tRF populations of each extract were observed. Depending on the tRNA, either tRF-5D (due to a cleavage in the D region) or tRF-3T (via a cleavage in the T region) were found and hot spots of tRNA cleavages have been identified. Interestingly, up to 25% of the tRFs originate from plastid tRNAs and we provide evidence that mitochondrial tRNAs can also be a source of tRFs. Very specific tRF-5D deriving not only from nucleus-encoded but also from plastid-encoded tRNAs are strongly enriched in AGO1 immunoprecipitates. We demonstrate that the organellar tRFs are not found within chloroplasts or mitochondria but rather accumulate outside the organelles. These observations suggest that some organellar tRFs could play regulatory functions within the plant cell and may be part of a signaling pathway.
(© The Author(s) 2016. Published by Oxford University Press on behalf of Nucleic Acids Research.)
التعليقات: Erratum in: Nucleic Acids Res. 2020 Sep 4;48(15):8812-8813. (PMID: 32735649)
References: Nucleic Acids Res. 2014 Feb;42(3):1414-26. (PMID: 24198247)
Int J Mol Sci. 2014 May 05;15(5):7624-38. (PMID: 24802874)
Nucleic Acids Res. 2013 Jan;41(Database issue):D273-9. (PMID: 23066098)
Proc Natl Acad Sci U S A. 2011 Feb 22;108(8):3430-5. (PMID: 21282611)
Bioinformatics. 2008 Jul 1;24(13):1530-1. (PMID: 18467344)
RNA Biol. 2013 Apr;10(4):553-63. (PMID: 23563448)
Nat Struct Mol Biol. 2012 Sep;19(9):900-5. (PMID: 22885326)
RNA Biol. 2011 May-Jun;8(3):538-47. (PMID: 21525786)
Methods Enzymol. 1995;260:310-27. (PMID: 8592456)
Int J Mol Sci. 2015 Jan 15;16(1):1873-93. (PMID: 25599528)
Biol Direct. 2013 Feb 12;8:6. (PMID: 23402430)
Proc Natl Acad Sci U S A. 2013 Jan 22;110(4):1404-9. (PMID: 23297232)
PLoS One. 2016 Mar 10;11(3):e0150933. (PMID: 26963812)
J Exp Bot. 2005 Mar;56(413):787-97. (PMID: 15699062)
Nucleic Acids Res. 2005 Jan 1;33(Database issue):D139-40. (PMID: 15608164)
BMC Plant Biol. 2010 Sep 14;10:201. (PMID: 20836892)
J Cell Biol. 2009 Apr 6;185(1):43-50. (PMID: 19332891)
Mol Genet Genomics. 2010 Apr;283(4):381-96. (PMID: 20182746)
RNA. 2008 Oct;14(10):2095-103. (PMID: 18719243)
BMC Genet. 2015 Jul 14;16:83. (PMID: 26168920)
BMC Bioinformatics. 2016 Mar 10;17:123. (PMID: 26961774)
Cell. 2009 Jul 23;138(2):215-9. (PMID: 19632169)
Plant Cell. 2011 Oct;23 (10 ):3842-52. (PMID: 22028460)
Cell. 2015 May 7;161(4):790-802. (PMID: 25957686)
Front Genet. 2014 Jun 11;5:171. (PMID: 24966867)
Mol Cell. 2011 Aug 19;43(4):613-23. (PMID: 21855800)
Biochimie. 2014 May;100:95-106. (PMID: 24440477)
Plant Physiol. 2009 May;150(1):378-87. (PMID: 19261735)
RNA Biol. 2013 Dec;10 (12 ):1798-806. (PMID: 24351723)
RNA Biol. 2011 Jan-Feb;8(1):158-77. (PMID: 21282978)
Science. 2016 Jan 22;351(6271):391-6. (PMID: 26721685)
Plant Mol Biol. 2013 Oct;83(3):191-204. (PMID: 23708952)
Plant Physiol. 2009 Dec;151(4):2120-32. (PMID: 19854858)
Plant J. 2011 Apr;66(1):80-93. (PMID: 21443625)
BMC Genomics. 2011 Jun 03;12:289. (PMID: 21639890)
Plant Signal Behav. 2010 May;5(5):537-9. (PMID: 20404547)
Mol Cell. 2012 Nov 30;48(4):509-20. (PMID: 23084833)
RNA. 2010 Apr;16(4):673-95. (PMID: 20181738)
Proc Natl Acad Sci U S A. 2008 Apr 29;105(17):6481-5. (PMID: 18441100)
Cell. 2014 Mar 27;157(1):77-94. (PMID: 24679528)
BMC Biol. 2014 Oct 01;12:78. (PMID: 25270025)
Science. 2016 Jan 22;351(6271):397-400. (PMID: 26721680)
DNA Res. 2013 Apr;20(2):109-25. (PMID: 23266877)
Nucleic Acids Res. 2015 Nov 16;43(20):9950-64. (PMID: 26365242)
Archaea. 2012;2012:260909. (PMID: 23326205)
J Cell Biol. 2009 Apr 6;185(1):35-42. (PMID: 19332886)
Oncotarget. 2015 Sep 22;6(28):24797-822. (PMID: 26325506)
J Virol. 2014 Apr;88(7):3612-22. (PMID: 24403582)
RNA. 2009 Dec;15(12):2147-60. (PMID: 19850906)
Genes Dev. 2009 Nov 15;23(22):2639-49. (PMID: 19933153)
BMC Genomics. 2009 Apr 09;10:155. (PMID: 19358740)
Proc Natl Acad Sci U S A. 2000 Jul 18;97(15):8278-83. (PMID: 10880568)
Proc Natl Acad Sci U S A. 2005 Aug 16;102(33):11928-33. (PMID: 16081530)
Proc Natl Acad Sci U S A. 2014 Dec 23;111(51):18201-6. (PMID: 25404306)
Science. 2012 Nov 2;338(6107):655-9. (PMID: 23118188)
Wiley Interdiscip Rev RNA. 2011 Nov-Dec;2(6):853-62. (PMID: 21976287)
Nucleic Acids Res. 1990 Sep 11;18(17):5027-30. (PMID: 1698276)
Life (Basel). 2015 Nov 27;5(4):1638-51. (PMID: 26703738)
PLoS One. 2010 May 14;5(5):e10563. (PMID: 20498841)
Methods Mol Biol. 2015;1305:45-60. (PMID: 25910726)
Biol Direct. 2015 Sep 16;10:51. (PMID: 26374501)
المشرفين على المادة: 0 (AGO1 protein, Arabidopsis)
0 (Arabidopsis Proteins)
0 (Argonaute Proteins)
0 (RNA, Chloroplast)
0 (RNA, Mitochondrial)
0 (RNA, Untranslated)
63231-63-0 (RNA)
9014-25-9 (RNA, Transfer)
تواريخ الأحداث: Date Created: 20161201 Date Completed: 20170814 Latest Revision: 20190513
رمز التحديث: 20240628
مُعرف محوري في PubMed: PMC5389709
DOI: 10.1093/nar/gkw1122
PMID: 27899576
قاعدة البيانات: MEDLINE
الوصف
تدمد:1362-4962
DOI:10.1093/nar/gkw1122