Mostrar el registro sencillo del ítem

dc.contributor.authorScheepbouwe, Chantal
dc.contributor.authorAparicio Puerta, Ernesto
dc.contributor.authorGiannoukakos, Stavros Panagiotis 
dc.contributor.authorHackenberg, Michael 
dc.date.accessioned2023-11-08T11:08:09Z
dc.date.available2023-11-08T11:08:09Z
dc.date.issued2023-02-21
dc.identifier.citationScheepbouwer, C., Aparicio-Puerta, E., Gomez-Martin, C., Verschueren, H., van Eijndhoven, M., Wedekind, L. E., ... & Koppers-Lalic, D. (2023). ALL-tRNAseq enables robust tRNA profiling in tissue samples. Genes & Development. [10.1101/gad.350233.122]es_ES
dc.identifier.urihttps://hdl.handle.net/10481/85528
dc.descriptionThis work was supported by the Dutch Cancer Society (KWF 2016-10476 to D.K.-L.), the Cancer Center Amsterdam Foundation (CCA2017-2-16 to D.K.-L.), and “Stichting MRD Hodgkin Lymphoma” (to D.M.P.). C.S was supported by a Cancer Center Amsterdam Foundation grant (CCA2021-5-26 to A.G.). A.G. was supported by the Nederlandse Organisatie voorWetenschappelijk Onderzoek (NWO) Talent Programme Vidi grant (VI.Vidi. 193.107). S.G., M.H., D.K.-L., and T.W. received funding from the European Union’s Horizon 2020 research and innovation programunder the Marie Skłodowska-Curie grant agreement number 765492. We thank Disa Tehler for stimulating discussions, and we are grateful to Hakan Kalay for assistance with the purification of AlkB enzymes.We thank Bram van den Broek for his contribution to the graphical images.es_ES
dc.description.abstractTransfer RNAs (tRNAs) are small adaptor RNAs essential for mRNA translation. Alterations in the cellular tRNA population can directly affect mRNA decoding rates and translational efficiency during cancer development and progression. To evaluate changes in the composition of the tRNA pool, multiple sequencing approaches have been developed to overcome reverse transcription blocks caused by the stable structures of these molecules and their numerous base modifications. However, it remains unclear whether current sequencing protocols faithfully capture tRNAs existing in cells or tissues. This is specifically challenging for clinical tissue samples that often present variable RNA qualities. For this reason, we developed ALL-tRNAseq, which combines the highly processive MarathonRT and RNA demethylation for the robust assessment of tRNA expression, together with a randomized adapter ligation strategy prior to reverse transcription to assess tRNA fragmentation levels in both cell lines and tissues. Incorporation of tRNA fragments not only informed on sample integrity but also significantly improved tRNA profiling of tissue samples. Our data showed that our profiling strategy effectively improves classification of oncogenic signatures in glioblastoma and diffuse large B-cell lymphoma tissues, particularly for samples presenting higher levels of RNA fragmentation, further highlighting the utility of ALL-tRNAseq for translational research.es_ES
dc.description.sponsorshipDutch Cancer Society (KWF 2016-10476 to D.K.-L.)es_ES
dc.description.sponsorshipCancer Center Amsterdam Foundation (CCA2017-2-16 to D.K.-L.)es_ES
dc.description.sponsorship“Stichting MRD Hodgkin Lymphoma”es_ES
dc.description.sponsorshipCancer Center Amsterdam Foundation grant (CCA2021-5-26 to A.G.)es_ES
dc.description.sponsorshipNederlandse Organisatie voor Wetenschappelijk Onderzoek (NWO) Talent Programme Vidi grant (VI.Vidi. 193.107)es_ES
dc.description.sponsorshipEuropean Union’s Horizon 2020 research and innovation programunder the Marie Skłodowska-Curie grant agreement number 765492es_ES
dc.language.isoenges_ES
dc.publisherCold Spring Harbor Laboratory Presses_ES
dc.rightsAtribución-NoComercial 4.0 Internacional*
dc.rights.urihttp://creativecommons.org/licenses/by-nc/4.0/*
dc.subjectCancer es_ES
dc.subjectHigh-throughput sequencinges_ES
dc.subjectTissue sampleses_ES
dc.subjectTransfer RNAes_ES
dc.titleALL-tRNAseq enables robust tRNA profiling in tissue sampleses_ES
dc.typejournal articlees_ES
dc.relation.projectIDinfo:eu-repo/grantAgreement/EC/H2020/Marie Skłodowska-Curie 765492es_ES
dc.rights.accessRightsopen accesses_ES
dc.identifier.doi10.1101/gad.350233.122
dc.type.hasVersionVoRes_ES


Ficheros en el ítem

[PDF]

Este ítem aparece en la(s) siguiente(s) colección(ones)

Mostrar el registro sencillo del ítem

Atribución-NoComercial 4.0 Internacional
Excepto si se señala otra cosa, la licencia del ítem se describe como Atribución-NoComercial 4.0 Internacional