Dimerization confers increased stability to nucleases in 5 halves from glycine and glutamic acid tRNAs

Tosar Rovira, Juan Pablo - Gámbaro, Fabiana - Darré, Leonardo - Pantano, Sergio - Westhof, E. - Cayota, Alfonso

Resumen:

We have previously shown that 5 halves from tRNA Gly GCC and tRNA Glu CUC are the most enriched small RNAs in the extracellular space of human cell lines, and especially in the non-vesicular fraction. Extracellular RNAs are believed to require protection by either encapsulation in vesicles or ribonucleoprotein complex formation. However, deproteinization of non-vesicular tRNA halves does not affect their retention in size-exclusion chromatography. Thus, we considered alternative explanations for their extracellular stability. In-silico analysis of the sequence of these tRNA-derived fragments showed that tRNA Gly 5 halves can form homodimers or heterodimers with tRNA Glu 5 halves. This capacity is virtually unique to glycine tRNAs. By analyzing synthetic oligonucleotides by size exclusion chromatography, we provide evidence that dimerization is possible in vitro. tRNA halves with single point substitutions preventing dimerization are degraded faster both in controlled nuclease digestion assays and after transfection in cells, showing that dimerization can stabilize tRNA halves against the action of cellular nucleases. Finally, we give evidence supporting dimerization of endogenous tRNA Gly GCC 5 halves inside cells. Considering recent reports have shown that 5 tRNA halves from Ala and Cys can form tetramers, our results highlight RNA intermolecular structures as a new layer of complexity in the biology of tRNA-derived fragments.


Detalles Bibliográficos
2018
Amino Acyl-tRNA Synthetases
RNA, Transfer
Genetic code
Inglés
Universidad de la República
COLIBRI
https://hdl.handle.net/20.500.12008/22059
Acceso abierto
Licencia Creative Commons Atribución – No Comercial (CC-BY-NC- 4.0)
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author Tosar Rovira, Juan Pablo
author2 Gámbaro, Fabiana
Darré, Leonardo
Pantano, Sergio
Westhof, E.
Cayota, Alfonso
author2_role author
author
author
author
author
author_facet Tosar Rovira, Juan Pablo
Gámbaro, Fabiana
Darré, Leonardo
Pantano, Sergio
Westhof, E.
Cayota, Alfonso
author_role author
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collection COLIBRI
dc.contributor.filiacion.es.fl_str_mv Tosar Rovira, Juan Pablo. Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Investigaciones Nucleares
Gámbaro, Fabiana. Universidad de la República (Uruguay). Facultad de Ciencias. Centro de Investigaciones Nucleares
Darré, Leonardo. Instituto Pasteur (Montevideo)
Pantano, Sergio. Instituto Pasteur (Montevideo)
Cayota, Alfonso. Instituto Pasteur (Montevideo)
dc.creator.none.fl_str_mv Tosar Rovira, Juan Pablo
Gámbaro, Fabiana
Darré, Leonardo
Pantano, Sergio
Westhof, E.
Cayota, Alfonso
dc.date.accessioned.none.fl_str_mv 2019-10-02T22:12:07Z
dc.date.available.none.fl_str_mv 2019-10-02T22:12:07Z
dc.date.issued.es.fl_str_mv 2018
dc.date.submitted.es.fl_str_mv 20190930
dc.description.abstract.none.fl_txt_mv We have previously shown that 5 halves from tRNA Gly GCC and tRNA Glu CUC are the most enriched small RNAs in the extracellular space of human cell lines, and especially in the non-vesicular fraction. Extracellular RNAs are believed to require protection by either encapsulation in vesicles or ribonucleoprotein complex formation. However, deproteinization of non-vesicular tRNA halves does not affect their retention in size-exclusion chromatography. Thus, we considered alternative explanations for their extracellular stability. In-silico analysis of the sequence of these tRNA-derived fragments showed that tRNA Gly 5 halves can form homodimers or heterodimers with tRNA Glu 5 halves. This capacity is virtually unique to glycine tRNAs. By analyzing synthetic oligonucleotides by size exclusion chromatography, we provide evidence that dimerization is possible in vitro. tRNA halves with single point substitutions preventing dimerization are degraded faster both in controlled nuclease digestion assays and after transfection in cells, showing that dimerization can stabilize tRNA halves against the action of cellular nucleases. Finally, we give evidence supporting dimerization of endogenous tRNA Gly GCC 5 halves inside cells. Considering recent reports have shown that 5 tRNA halves from Ala and Cys can form tetramers, our results highlight RNA intermolecular structures as a new layer of complexity in the biology of tRNA-derived fragments.
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dc.identifier.citation.es.fl_str_mv Tosar., J.P., et al. Dimerization confers increased stability to nucleases in 5 halves from glycine and glutamic acid tRNAs. Nucleic Acids Research, 2018, 46 (17): 9081-9093. doi: 10.1093/nar/gky495
dc.identifier.doi.es.fl_str_mv 10.1093/nar/gky495
dc.identifier.issn.es.fl_str_mv 0305-1048
dc.identifier.uri.none.fl_str_mv https://hdl.handle.net/20.500.12008/22059
dc.language.iso.none.fl_str_mv en
eng
dc.publisher.es.fl_str_mv Oxford University Press
dc.relation.ispartof.es.fl_str_mv Nucleic Acids Research, 2018, 46 (17): 9081-9093
dc.rights.license.none.fl_str_mv Licencia Creative Commons Atribución – No Comercial (CC-BY-NC- 4.0)
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
dc.source.none.fl_str_mv reponame:COLIBRI
instname:Universidad de la República
instacron:Universidad de la República
dc.subject.es.fl_str_mv Amino Acyl-tRNA Synthetases
RNA, Transfer
Genetic code
dc.title.none.fl_str_mv Dimerization confers increased stability to nucleases in 5 halves from glycine and glutamic acid tRNAs
dc.type.es.fl_str_mv Artículo
dc.type.none.fl_str_mv info:eu-repo/semantics/article
dc.type.version.none.fl_str_mv info:eu-repo/semantics/publishedVersion
description We have previously shown that 5 halves from tRNA Gly GCC and tRNA Glu CUC are the most enriched small RNAs in the extracellular space of human cell lines, and especially in the non-vesicular fraction. Extracellular RNAs are believed to require protection by either encapsulation in vesicles or ribonucleoprotein complex formation. However, deproteinization of non-vesicular tRNA halves does not affect their retention in size-exclusion chromatography. Thus, we considered alternative explanations for their extracellular stability. In-silico analysis of the sequence of these tRNA-derived fragments showed that tRNA Gly 5 halves can form homodimers or heterodimers with tRNA Glu 5 halves. This capacity is virtually unique to glycine tRNAs. By analyzing synthetic oligonucleotides by size exclusion chromatography, we provide evidence that dimerization is possible in vitro. tRNA halves with single point substitutions preventing dimerization are degraded faster both in controlled nuclease digestion assays and after transfection in cells, showing that dimerization can stabilize tRNA halves against the action of cellular nucleases. Finally, we give evidence supporting dimerization of endogenous tRNA Gly GCC 5 halves inside cells. Considering recent reports have shown that 5 tRNA halves from Ala and Cys can form tetramers, our results highlight RNA intermolecular structures as a new layer of complexity in the biology of tRNA-derived fragments.
eu_rights_str_mv openAccess
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id COLIBRI_c090a7e35705a98bf374ba5df2929490
identifier_str_mv Tosar., J.P., et al. Dimerization confers increased stability to nucleases in 5 halves from glycine and glutamic acid tRNAs. Nucleic Acids Research, 2018, 46 (17): 9081-9093. doi: 10.1093/nar/gky495
0305-1048
10.1093/nar/gky495
instacron_str Universidad de la República
institution Universidad de la República
instname_str Universidad de la República
language eng
language_invalid_str_mv en
network_acronym_str COLIBRI
network_name_str COLIBRI
oai_identifier_str oai:colibri.udelar.edu.uy:20.500.12008/22059
publishDate 2018
reponame_str COLIBRI
repository.mail.fl_str_mv mabel.seroubian@seciu.edu.uy
repository.name.fl_str_mv COLIBRI - Universidad de la República
repository_id_str 4771
rights_invalid_str_mv Licencia Creative Commons Atribución – No Comercial (CC-BY-NC- 4.0)
spelling Tosar Rovira, Juan Pablo. Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Investigaciones NuclearesGámbaro, Fabiana. Universidad de la República (Uruguay). Facultad de Ciencias. Centro de Investigaciones NuclearesDarré, Leonardo. Instituto Pasteur (Montevideo)Pantano, Sergio. Instituto Pasteur (Montevideo)Cayota, Alfonso. Instituto Pasteur (Montevideo)2019-10-02T22:12:07Z2019-10-02T22:12:07Z201820190930Tosar., J.P., et al. Dimerization confers increased stability to nucleases in 5 halves from glycine and glutamic acid tRNAs. Nucleic Acids Research, 2018, 46 (17): 9081-9093. doi: 10.1093/nar/gky4950305-1048https://hdl.handle.net/20.500.12008/2205910.1093/nar/gky495We have previously shown that 5 halves from tRNA Gly GCC and tRNA Glu CUC are the most enriched small RNAs in the extracellular space of human cell lines, and especially in the non-vesicular fraction. Extracellular RNAs are believed to require protection by either encapsulation in vesicles or ribonucleoprotein complex formation. However, deproteinization of non-vesicular tRNA halves does not affect their retention in size-exclusion chromatography. Thus, we considered alternative explanations for their extracellular stability. In-silico analysis of the sequence of these tRNA-derived fragments showed that tRNA Gly 5 halves can form homodimers or heterodimers with tRNA Glu 5 halves. This capacity is virtually unique to glycine tRNAs. By analyzing synthetic oligonucleotides by size exclusion chromatography, we provide evidence that dimerization is possible in vitro. tRNA halves with single point substitutions preventing dimerization are degraded faster both in controlled nuclease digestion assays and after transfection in cells, showing that dimerization can stabilize tRNA halves against the action of cellular nucleases. Finally, we give evidence supporting dimerization of endogenous tRNA Gly GCC 5 halves inside cells. Considering recent reports have shown that 5 tRNA halves from Ala and Cys can form tetramers, our results highlight RNA intermolecular structures as a new layer of complexity in the biology of tRNA-derived fragments.Made available in DSpace on 2019-10-02T22:12:07Z (GMT). No. of bitstreams: 5 101093nargky495.pdf: 5892050 bytes, checksum: b2f71661280cb70a7eb7e6317348c90a (MD5) license_text: 38300 bytes, checksum: 098d76773c7b7afafb04cabc04ea8a56 (MD5) license_url: 47 bytes, checksum: 966d4a1cc97b2c4389b5142dd97d3c7f (MD5) license_rdf: 9754 bytes, checksum: ffcba5f515f45166c8d3bb6aa02e3123 (MD5) license.txt: 4194 bytes, checksum: 7f2e2c17ef6585de66da58d1bfa8b5e1 (MD5) Previous issue date: 2018application/pdfenengOxford University PressNucleic Acids Research, 2018, 46 (17): 9081-9093Las obras depositadas en el Repositorio se rigen por la Ordenanza de los Derechos de la Propiedad Intelectual de la Universidad De La República. (Res. Nº 91 de C.D.C. de 8/III/1994 – D.O. 7/IV/1994) y por la Ordenanza del Repositorio Abierto de la Universidad de la República (Res. Nº 16 de C.D.C. de 07/10/2014)info:eu-repo/semantics/openAccessLicencia Creative Commons Atribución – No Comercial (CC-BY-NC- 4.0)Amino Acyl-tRNA SynthetasesRNA, TransferGenetic codeDimerization confers increased stability to nucleases in 5 halves from glycine and glutamic acid tRNAsArtículoinfo:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionreponame:COLIBRIinstname:Universidad de la Repúblicainstacron:Universidad de la RepúblicaTosar Rovira, Juan PabloGámbaro, FabianaDarré, LeonardoPantano, SergioWesthof, E.Cayota, 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- Universidad de la Repúblicafalse
spellingShingle Dimerization confers increased stability to nucleases in 5 halves from glycine and glutamic acid tRNAs
Tosar Rovira, Juan Pablo
Amino Acyl-tRNA Synthetases
RNA, Transfer
Genetic code
status_str publishedVersion
title Dimerization confers increased stability to nucleases in 5 halves from glycine and glutamic acid tRNAs
title_full Dimerization confers increased stability to nucleases in 5 halves from glycine and glutamic acid tRNAs
title_fullStr Dimerization confers increased stability to nucleases in 5 halves from glycine and glutamic acid tRNAs
title_full_unstemmed Dimerization confers increased stability to nucleases in 5 halves from glycine and glutamic acid tRNAs
title_short Dimerization confers increased stability to nucleases in 5 halves from glycine and glutamic acid tRNAs
title_sort Dimerization confers increased stability to nucleases in 5 halves from glycine and glutamic acid tRNAs
topic Amino Acyl-tRNA Synthetases
RNA, Transfer
Genetic code
url https://hdl.handle.net/20.500.12008/22059