FixNCut: single-cell genomics through reversible tissue fixation and dissociation.

Autor: Jiménez-Gracia L; Centro Nacional de Análisis Genómico (CNAG), 08028, Barcelona, Spain.; Universitat de Barcelona (UB), Barcelona, Spain., Marchese D; Centro Nacional de Análisis Genómico (CNAG), 08028, Barcelona, Spain.; Universitat de Barcelona (UB), Barcelona, Spain., Nieto JC; Centro Nacional de Análisis Genómico (CNAG), 08028, Barcelona, Spain.; Universitat de Barcelona (UB), Barcelona, Spain., Caratù G; Centro Nacional de Análisis Genómico (CNAG), 08028, Barcelona, Spain.; Universitat de Barcelona (UB), Barcelona, Spain., Melón-Ardanaz E; Inflammatory Bowel Disease Group, Institut d'Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS), Barcelona, Spain.; Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBEREHD), Barcelona, Spain., Gudiño V; Inflammatory Bowel Disease Group, Institut d'Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS), Barcelona, Spain.; Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBEREHD), Barcelona, Spain., Roth S; Cancer Immunology Program, Peter MacCallum Cancer Centre, Melbourne, VIC, Australia.; Sir Peter MacCallum Department of Oncology, The University of Melbourne, Melbourne, VIC, Australia.; Monash University Department of Surgery, Alfred Hospital, Melbourne, VIC, Australia., Wise K; Adelaide Centre for Epigenetics (ACE), University of Adelaide, Adelaide, South Australia, Australia.; South Australian immunoGENomics Cancer Institute (SAiGENCI), University of Adelaide, Adelaide, South Australia, Australia.; Australian Genomics Research Facility, Adelaide, South Australia, Australia., Ryan NK; South Australian immunoGENomics Cancer Institute (SAiGENCI), University of Adelaide, Adelaide, South Australia, Australia.; Freemasons Foundation Centre for Men's Health, University of Adelaide, Adelaide, South Australia, Australia.; South Australian Health and Medical Research Institute, Adelaide, South Australia, Australia., Jensen KB; Adelaide Centre for Epigenetics (ACE), University of Adelaide, Adelaide, South Australia, Australia.; South Australian immunoGENomics Cancer Institute (SAiGENCI), University of Adelaide, Adelaide, South Australia, Australia.; Australian Genomics Research Facility, Adelaide, South Australia, Australia., Hernando-Momblona X; Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology, Barcelona, Spain.; Centro de Investigación Biomédica en Red de Cáncer (CIBERONC), Barcelona, Spain., Bernardes JP; Institute of Clinical Molecular Biology, Kiel University, Kiel, Germany., Tran F; Institute of Clinical Molecular Biology, Kiel University, Kiel, Germany.; Department of Internal Medicine I, University Hospital Schleswig-Holstein (UKSH), Campus Kiel, Kiel, Germany., Sievers LK; Institute of Clinical Molecular Biology, Kiel University, Kiel, Germany.; Department of Internal Medicine I, University Hospital Schleswig-Holstein (UKSH), Campus Kiel, Kiel, Germany., Schreiber S; Institute of Clinical Molecular Biology, Kiel University, Kiel, Germany.; Department of Internal Medicine I, University Hospital Schleswig-Holstein (UKSH), Campus Kiel, Kiel, Germany., van den Berge M; Department of Pulmonary Diseases, University of Groningen, University Medical Center Groningen, Groningen, Netherlands.; Groningen Research Institute for Asthma and COPD, University of Groningen, University Medical Center Groningen, Groningen, Netherlands., Kole T; Department of Pulmonary Diseases, University of Groningen, University Medical Center Groningen, Groningen, Netherlands.; Groningen Research Institute for Asthma and COPD, University of Groningen, University Medical Center Groningen, Groningen, Netherlands., van der Velde PL; Groningen Research Institute for Asthma and COPD, University of Groningen, University Medical Center Groningen, Groningen, Netherlands.; Department of Pathology & Medical Biology, University of Groningen, University Medical Center Groningen, Groningen, Netherlands., Nawijn MC; Groningen Research Institute for Asthma and COPD, University of Groningen, University Medical Center Groningen, Groningen, Netherlands.; Department of Pathology & Medical Biology, University of Groningen, University Medical Center Groningen, Groningen, Netherlands., Rosenstiel P; Institute of Clinical Molecular Biology, Kiel University, Kiel, Germany., Batlle E; Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology, Barcelona, Spain.; Centro de Investigación Biomédica en Red de Cáncer (CIBERONC), Barcelona, Spain.; ICREA, Barcelona, Spain., Butler LM; South Australian immunoGENomics Cancer Institute (SAiGENCI), University of Adelaide, Adelaide, South Australia, Australia.; Freemasons Foundation Centre for Men's Health, University of Adelaide, Adelaide, South Australia, Australia.; South Australian Health and Medical Research Institute, Adelaide, South Australia, Australia., Parish IA; Cancer Immunology Program, Peter MacCallum Cancer Centre, Melbourne, VIC, Australia.; Sir Peter MacCallum Department of Oncology, The University of Melbourne, Melbourne, VIC, Australia., Plummer J; St Jude Children's Research Hospital, Memphis, TN, 38105, USA., Gut I; Centro Nacional de Análisis Genómico (CNAG), 08028, Barcelona, Spain.; Universitat de Barcelona (UB), Barcelona, Spain., Salas A; Inflammatory Bowel Disease Group, Institut d'Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS), Barcelona, Spain.; Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBEREHD), Barcelona, Spain., Heyn H; Centro Nacional de Análisis Genómico (CNAG), 08028, Barcelona, Spain. holger.heyn@cnag.eu.; Universitat de Barcelona (UB), Barcelona, Spain. holger.heyn@cnag.eu.; Omniscope, Barcelona, Spain. holger.heyn@cnag.eu., Martelotto LG; Adelaide Centre for Epigenetics (ACE), University of Adelaide, Adelaide, South Australia, Australia. luciano.martelotto@adelaide.edu.au.; South Australian immunoGENomics Cancer Institute (SAiGENCI), University of Adelaide, Adelaide, South Australia, Australia. luciano.martelotto@adelaide.edu.au.; Omniscope, Barcelona, Spain. luciano.martelotto@adelaide.edu.au.
Jazyk: angličtina
Zdroj: Genome biology [Genome Biol] 2024 Mar 29; Vol. 25 (1), pp. 81. Date of Electronic Publication: 2024 Mar 29.
DOI: 10.1186/s13059-024-03219-5
Abstrakt: The use of single-cell technologies for clinical applications requires disconnecting sampling from downstream processing steps. Early sample preservation can further increase robustness and reproducibility by avoiding artifacts introduced during specimen handling. We present FixNCut, a methodology for the reversible fixation of tissue followed by dissociation that overcomes current limitations. We applied FixNCut to human and mouse tissues to demonstrate the preservation of RNA integrity, sequencing library complexity, and cellular composition, while diminishing stress-related artifacts. Besides single-cell RNA sequencing, FixNCut is compatible with multiple single-cell and spatial technologies, making it a versatile tool for robust and flexible study designs.
(© 2024. Crown.)
Databáze: MEDLINE
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