Whole-brain spatial transcriptional analysis at cellular resolution.

Autor: Kanatani S; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden., Kreutzmann JC; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden., Li Y; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden., West Z; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden., Larsen LL; Gubra ApS, Hørsholm, Denmark., Nikou DV; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden., Eidhof I; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden., Walton A; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden., Zhang S; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden., Rodríguez-Kirby LR; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden., Skytte JL; Gubra ApS, Hørsholm, Denmark., Salinas CG; Gubra ApS, Hørsholm, Denmark., Takamatsu K; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden.; Department of Urology, Keio University School of Medicine, Tokyo, Japan., Li X; Division of Neurogeriatrics, Department of Neurobiology, Care Sciences and Society, Karolinska Institutet, Stockholm, Sweden., Tanaka DH; Department of Pharmacology and Neurobiology, Graduate School of Medical and Dental Sciences, Tokyo Medical and Dental University (TMDU), Tokyo, Japan.; Department of Cognitive Neurobiology, Graduate School of Medical and Dental Sciences, Institute of Science Tokyo, Tokyo, Japan., Kaczynska D; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden., Fukumoto K; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden.; Department of Urology, Keio University School of Medicine, Tokyo, Japan., Karamzadeh R; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden., Xiang Y; Institute of Environmental Medicine, Karolinska Institutet, Stockholm, Sweden., Uesaka N; Department of Cognitive Neurobiology, Graduate School of Medical and Dental Sciences, Institute of Science Tokyo, Tokyo, Japan., Tanabe T; Department of Pharmacology and Neurobiology, Graduate School of Medical and Dental Sciences, Tokyo Medical and Dental University (TMDU), Tokyo, Japan., Adner M; Institute of Environmental Medicine, Karolinska Institutet, Stockholm, Sweden., Hartman J; Department of Oncology-Pathology, Karolinska Institutet, Stockholm, Sweden.; Department of Clinical Pathology and Cancer Diagnostics, Karolinska University Hospital, Stockholm, Sweden., Miyakawa A; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden.; Division of Urology, Department of Molecular Medicine and Surgery, Karolinska University Hospital, Stockholm, Sweden., Sundström E; Division of Neurogeriatrics, Department of Neurobiology, Care Sciences and Society, Karolinska Institutet, Stockholm, Sweden., Castelo-Branco G; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden., Roostalu U; Gubra ApS, Hørsholm, Denmark., Hecksher-Sørensen J; Gubra ApS, Hørsholm, Denmark., Uhlén P; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden.
Jazyk: angličtina
Zdroj: Science (New York, N.Y.) [Science] 2024 Nov 22; Vol. 386 (6724), pp. 907-915. Date of Electronic Publication: 2024 Nov 21.
DOI: 10.1126/science.adn9947
Abstrakt: Recent advances in RNA analysis have deepened our understanding of cellular states in biological tissues. However, a substantial gap remains in integrating RNA expression data with spatial context across organs, primarily owing to the challenges associated with RNA detection within intact tissue volumes. Here, we developed Tris buffer-mediated retention of in situ hybridization chain reaction signal in cleared organs (TRISCO), an effective tissue-clearing method designed for whole-brain spatial three-dimensional (3D) RNA imaging. TRISCO resolved several crucial issues, including the preservation of RNA integrity, achieving uniform RNA labeling, and enhancing tissue transparency. We tested TRISCO using a broad range of cell-identity markers, noncoding and activity-dependent RNAs, within diverse organs of varying sizes and species. TRISCO thus emerges as a powerful tool for single-cell, whole-brain, 3D imaging that enables comprehensive transcriptional spatial analysis across the entire brain.
Databáze: MEDLINE
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