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Pennitz, Peter; Kirsten, Holger; Friedrich, Vincent D.; Wyler, Emanuel; Goekeri, Cengiz; Obermayer, Benedikt; Heinz, Gitta A.; Mashreghi, Mir-Farzin; Büttner, Maren; Trimpert, Jakob; Landthaler, Markus; Suttorp, Norbert; Hocke, Andreas C.; Hippenstiel, Stefan; Tönnies, Mario; Scholz, Markus; Kuebler, Wolfgang M.; Witzenrath, Martin; Hoenzke, Katja; Nouailles, Geraldine

A pulmonologist's guide to perform and analyse cross-species single lung cell transcriptomics

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  • Medientyp: E-Artikel
  • Titel: A pulmonologist's guide to perform and analyse cross-species single lung cell transcriptomics
  • Beteiligte: Pennitz, Peter; Kirsten, Holger; Friedrich, Vincent D.; Wyler, Emanuel; Goekeri, Cengiz; Obermayer, Benedikt; Heinz, Gitta A.; Mashreghi, Mir-Farzin; Büttner, Maren; Trimpert, Jakob; Landthaler, Markus; Suttorp, Norbert; Hocke, Andreas C.; Hippenstiel, Stefan; Tönnies, Mario; Scholz, Markus; Kuebler, Wolfgang M.; Witzenrath, Martin; Hoenzke, Katja; Nouailles, Geraldine
  • Erschienen: European Respiratory Society (ERS), 2022
  • Erschienen in: European Respiratory Review
  • Sprache: Englisch
  • DOI: 10.1183/16000617.0056-2022
  • ISSN: 0905-9180; 1600-0617
  • Schlagwörter: Pulmonary and Respiratory Medicine
  • Entstehung:
  • Anmerkungen:
  • Beschreibung: <jats:p>Single-cell ribonucleic acid sequencing is becoming widely employed to study biological processes at a novel resolution depth. The ability to analyse transcriptomes of multiple heterogeneous cell types in parallel is especially valuable for cell-focused lung research where a variety of resident and recruited cells are essential for maintaining organ functionality. We compared the single-cell transcriptomes from publicly available and unpublished datasets of the lungs in six different species: human (<jats:italic>Homo sapiens</jats:italic>), African green monkey (<jats:italic>Chlorocebus sabaeus</jats:italic>), pig (<jats:italic>Sus domesticus</jats:italic>), hamster (<jats:italic>Mesocricetus auratus</jats:italic>), rat (<jats:italic>Rattus norvegicus</jats:italic>) and mouse (<jats:italic>Mus musculus</jats:italic>) by employing RNA velocity and intercellular communication based on ligand–receptor co-expression, among other techniques. Specifically, we demonstrated a workflow for interspecies data integration, applied a single unified gene nomenclature, performed cell-specific clustering and identified marker genes for each species. Overall, integrative approaches combining newly sequenced as well as publicly available datasets could help identify species-specific transcriptomic signatures in both healthy and diseased lung tissue and select appropriate models for future respiratory research.</jats:p>
  • Zugangsstatus: Freier Zugang