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Single-cell profiling of lncRNA expression during Ebola virus infection in rhesus macaques.
Santus, Luisa; Sopena-Rios, Maria; García-Pérez, Raquel; Lin, Aaron E; Adams, Gordon C; Barnes, Kayla G; Siddle, Katherine J; Wohl, Shirlee; Reverter, Ferran; Rinn, John L; Bennett, Richard S; Hensley, Lisa E; Sabeti, Pardis C; Melé, Marta.
Afiliación
  • Santus L; Life Sciences Department, Barcelona Supercomputing Center, Barcelona, Catalonia, 08034, Spain.
  • Sopena-Rios M; Centre for Genomic Regulation (CRG), The Barcelona Institute for Science and Technology, Barcelona, Spain.
  • García-Pérez R; Life Sciences Department, Barcelona Supercomputing Center, Barcelona, Catalonia, 08034, Spain.
  • Lin AE; Life Sciences Department, Barcelona Supercomputing Center, Barcelona, Catalonia, 08034, Spain.
  • Adams GC; FAS Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, 02138, USA.
  • Barnes KG; Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.
  • Siddle KJ; Harvard Program in Virology, Harvard Medical School, Boston, MA, 02115, USA.
  • Wohl S; FAS Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, 02138, USA.
  • Reverter F; Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.
  • Rinn JL; Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.
  • Bennett RS; Department of Immunology and Infectious Diseases, Harvard T.H. Chan School of Public Health, Harvard University, Boston, MA, 02115, USA.
  • Hensley LE; Liverpool School of Tropical Medicine, Liverpool, L3 5QA, UK.
  • Sabeti PC; FAS Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, 02138, USA.
  • Melé M; Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.
Nat Commun ; 14(1): 3866, 2023 06 30.
Article en En | MEDLINE | ID: mdl-37391481
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.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Fiebre Hemorrágica Ebola / Ebolavirus / ARN Largo no Codificante Límite: Animals Idioma: En Revista: Nat Commun Asunto de la revista: BIOLOGIA / CIENCIA Año: 2023 Tipo del documento: Article País de afiliación: España Pais de publicación: Reino Unido
Texto completo
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Fiebre Hemorrágica Ebola / Ebolavirus / ARN Largo no Codificante Límite: Animals Idioma: En Revista: Nat Commun Asunto de la revista: BIOLOGIA / CIENCIA Año: 2023 Tipo del documento: Article País de afiliación: España Pais de publicación: Reino Unido