Single-cell profiling of lncRNA expression during Ebola virus infection in rhesus macaques

Mostra el registre complet Registre parcial de l'ítem

• dc.contributor.author Santus, Luisa
• dc.contributor.author Sopena Rios, Maria
• dc.contributor.author García Pérez, Raquel, 1989-
• dc.contributor.author Lin, Aaron E.
• dc.contributor.author Adams, Gordon C.
• dc.contributor.author Barnes, Kayla G.
• dc.contributor.author Siddle, Katherine J.
• dc.contributor.author Wohl, Shirlee
• dc.contributor.author Reverter, Ferran
• dc.contributor.author Rinn, John L.
• dc.contributor.author Bennett, Richard S.
• dc.contributor.author Hensley, Lisa E.
• dc.contributor.author Sabeti, Pardis C.
• dc.contributor.author Melé Messeguer, Marta, 1982-
• dc.date.accessioned 2023-11-02T07:26:31Z
• dc.date.available 2023-11-02T07:26:31Z
• dc.date.issued 2023
• dc.description.abstract Long non-coding RNAs (lncRNAs) are involved in numerous biological processes and are pivotal mediators of the immune response, yet little is known about their properties at the single-cell level. Here, we generate a multi-tissue bulk RNAseq dataset from Ebola virus (EBOV) infected and not-infected rhesus macaques and identified 3979 novel lncRNAs. To profile lncRNA expression dynamics in immune circulating single-cells during EBOV infection, we design a metric, Upsilon, to estimate cell-type specificity. Our analysis reveals that lncRNAs are expressed in fewer cells than protein-coding genes, but they are not expressed at lower levels nor are they more cell-type specific when expressed in the same number of cells. In addition, we observe that lncRNAs exhibit similar changes in expression patterns to those of protein-coding genes during EBOV infection, and are often co-expressed with known immune regulators. A few lncRNAs change expression specifically upon EBOV entry in the cell. This study sheds light on the differential features of lncRNAs and protein-coding genes and paves the way for future single-cell lncRNA studies.
• dc.description.sponsorship This material was based upon work supported by Grant RYC-2017-22249 funded by MCIN/AEI/10.13039/501100011033 and Grant PID2019-107937GA-I00 funded by MCIN/AEI/10.13039/501100011033 (M.M.), the Howard Hughes Medical Institute Investigator Award (P.C.S.), the National Institute of Allergy and Infectious Diseases (NIAID) U19AI110818, the US Food and Drug Administration (FDA) contract HHSF223201810172C.
• dc.format.mimetype application/pdf
• dc.identifier.citation Santus L, Sopena-Rios M, García-Pérez R, Lin AE, Adams GC, Barnes KG, Siddle KJ, Wohl S, Reverter F, Rinn JL, Bennett RS, Hensley LE, Sabeti PC, Melé M. Single-cell profiling of lncRNA expression during Ebola virus infection in rhesus macaques. Nat Commun. 2023 Jun 30;14(1):3866. DOI: 10.1038/s41467-023-39627-7
• dc.identifier.doi http://dx.doi.org/10.1038/s41467-023-39627-7
• dc.identifier.issn 2041-1723
• dc.identifier.uri http://hdl.handle.net/10230/58199
• dc.language.iso eng
• dc.publisher Nature Research
• dc.relation.ispartof Nat Commun. 2023 Jun 30;14(1):3866
• dc.relation.projectID info:eu-repo/grantAgreement/ES/2PE/PID2019-107937GA-I00
• dc.rights © The Author(s) 2023. Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
• dc.rights.accessRights info:eu-repo/semantics/openAccess
• dc.rights.uri http://creativecommons.org/licenses/by/4.0/
• dc.subject.keyword Ebola virus
• dc.subject.keyword Gene regulation
• dc.subject.keyword Genetics
• dc.subject.keyword Rhesus macaque
• dc.subject.keyword Transcriptomics
• dc.title Single-cell profiling of lncRNA expression during Ebola virus infection in rhesus macaques
• dc.type info:eu-repo/semantics/article
• dc.type.version info:eu-repo/semantics/publishedVersion