ArticleNature communications2024
descSPIM: an affordable and easy-to-build light-sheet microscope optimized for tissue clearing techniques.
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Article in Nature communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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17citing papers in PubMed
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Who cites it
17 citing papers in PubMed.
- Scanning Bessel beam microscopy with a protected and corrective objective for solvent-cleared large samples.iScience · 2026Article
- Protocol for ultrafast immunolabeling and 3D imaging of whole organs and large tissues.STAR protocols · 2026Article
- Article
- Advances in Optical Tissue Clearing for Three-Dimensional Ocular Imaging and Analysis.Journal of ophthalmology · 2026Review
- Rapid 3D Immunolabeling and Light Sheet Microscopy for Quantitative Analysis of Intact Tissues.Computational and structural biotechnology journal · 2026Article
- An Extended DIY Light-sheet Microscope Enabling Four-color Volumetric Imaging of Whole Biological Samples.Juntendo medical journal · 2026Article
- Multiscale 3D Whole Joint Cellular and Molecular Mapping Reveals Disease-Specific Neurovascular Plasticity Underlying the Structure-Pain Relationship.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Isotropic, aberration-corrected light sheet microscopy for rapid high-resolution imaging of cleared tissue.Nature biotechnology · 2025Article
- Altair-LSFM A High-Resolution, Easy-to-Build Light-Sheet Microscope for Sub-Cellular Imaging.bioRxiv : the preprint server for biology · 2025Article
- Unlocking the potential of large-scale 3D imaging with tissue clearing techniques.Microscopy (Oxford, England) · 2025Review
- Advancing Multicolor Super-Resolution Volume Imaging: Illuminating Complex Cellular Dynamics.JACS Au · 2025Review
- Three-dimensional assessments are necessary to determine the true, spatially resolved composition of tissues.Cell reports methods · 2025Article
- Tissue stiffness mapping by light sheet elastography.Science advances · 2025Article
- The regulation of reporter transgene expression for diverse biological imaging applications.Npj imaging · 2025Review
- Strength in numbers: Unleashing the potential of trans-scale scope AMATERAS for massive cell quantification.Biophysics and physicobiology · 2024Review
- The Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for large cleared samples.bioRxiv : the preprint server for biology · 2023Article
- Comprehensive analysis of keloid vasculature by tissue clearing and 3D imaging.Wound repair and regeneration : official publication of the Wound Healing Society [and] the European Tissue Repair SocietyArticle
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Authors and funding
44 authors.
Kohei Otomo *Department of Biochemistry and Systems Biomedicine, Juntendo University Graduate School of Medicine, Tokyo, Japan.ORCID http://orcid.org/0000-0002-5322-6295
Takaki Omura *Department of Biochemistry and Systems Biomedicine, Juntendo University Graduate School of Medicine, Tokyo, Japan.
Yuki NozawaBiochemistry II, Juntendo University School of Medicine, Tokyo, Japan.ORCID http://orcid.org/0009-0002-4571-6232
Steven J EdwardsScience for Life Laboratory, Department of Applied Physics, KTH Royal Institute of Technology, Stockholm, Sweden.
Yukihiko SatoDepartment of Biochemistry and Systems Biomedicine, Juntendo University Graduate School of Medicine, Tokyo, Japan.
Yuri SaitoDepartment of Biochemistry and Systems Biomedicine, Juntendo University Graduate School of Medicine, Tokyo, Japan.
Shigehiro YagishitaDepartment of Pharmacology and Therapeutics, Fundamental Innovative Oncology Core, National Cancer Center Research Institute, Tokyo, Japan.
Hitoshi UchidaDepartment of System Pathology for Neurological Disorders, Brain Research Institute, Niigata University, Niigata, Japan.ORCID http://orcid.org/0000-0002-8952-2061
Yuki WatakabeDivision of Biophotonics, National Institute for Physiological Sciences, National Institutes of Natural Sciences, Okazaki, Japan.ORCID http://orcid.org/0000-0002-6580-1007
Kiyotada NaitouDepartment of Basic Veterinary Science, Joint Faculty of Veterinary Medicine, Kagoshima University, Kagoshima, Japan.ORCID http://orcid.org/0000-0001-8599-2528
Rin YanaiAdvanced Neuroimaging Center, Institute for Quantum Medical Sciences, National Institutes for Quantum Science and Technology, Chiba, Japan.
Naruhiko SaharaAdvanced Neuroimaging Center, Institute for Quantum Medical Sciences, National Institutes for Quantum Science and Technology, Chiba, Japan.
Satoshi TakagiDivision of Experimental Chemotherapy, Cancer Chemotherapy Center, Japanese Foundation for Cancer Research, Tokyo, Japan.ORCID http://orcid.org/0000-0001-9749-1034
Ryohei KatayamaDivision of Experimental Chemotherapy, Cancer Chemotherapy Center, Japanese Foundation for Cancer Research, Tokyo, Japan.ORCID http://orcid.org/0000-0001-7394-895X
Yusuke IwataDepartment of Gastroenterology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.ORCID http://orcid.org/0009-0009-7203-772X
Toshiro ShiokawaDepartment of Gastroenterology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.
Yoku HayakawaDepartment of Gastroenterology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.
Kensuke OtsukaBiology and Environmental Chemistry Division, Sustainable System Research Laboratory, Central Research Institute of Electric Power Industry, Chiba, Japan.
Haruko Watanabe-TakanoDepartment of Molecular Pathophysiology, Institute for Advanced Medical Sciences, Nippon Medical School, Tokyo, Japan.ORCID http://orcid.org/0000-0002-2986-3702
Yuka HanedaDepartment of Molecular Pathophysiology, Institute for Advanced Medical Sciences, Nippon Medical School, Tokyo, Japan.ORCID http://orcid.org/0000-0002-6178-1109
Shigetomo FukuharaDepartment of Molecular Pathophysiology, Institute for Advanced Medical Sciences, Nippon Medical School, Tokyo, Japan.ORCID http://orcid.org/0000-0003-2777-501X
Miku FujiwaraDepartment of Developmental Biology, Graduate School of Medical Sciences, Kyushu University, Fukuoka, Japan.
Takenobu NiiDepartment of Developmental Biology, Graduate School of Medical Sciences, Kyushu University, Fukuoka, Japan.
Chikara MenoDepartment of Developmental Biology, Graduate School of Medical Sciences, Kyushu University, Fukuoka, Japan.ORCID http://orcid.org/0000-0002-0869-6642
Naoki TakeshitaAnatomy and Developmental Biology, Kyoto Prefectural University of Medicine, Kyoto, Japan.ORCID http://orcid.org/0000-0002-1418-9188
Kenta YashiroAnatomy and Developmental Biology, Kyoto Prefectural University of Medicine, Kyoto, Japan.
Juan Marcelo Rosales RocabadoDivision of Bio-prosthodontics, Faculty of Dentistry & Graduate School of Medical and Dental Sciences, Niigata University, Niigata, Japan.ORCID http://orcid.org/0000-0002-8753-2979
Masaru KakuDivision of Bio-prosthodontics, Faculty of Dentistry & Graduate School of Medical and Dental Sciences, Niigata University, Niigata, Japan.ORCID http://orcid.org/0000-0002-7988-6435
Tatsuya YamadaDepartment of Biochemistry, University of Nebraska-Lincoln, Lincoln, USA.ORCID http://orcid.org/0000-0002-6906-9861
Yumiko OishiDepartment of Meidical Biochemistry, Tokyo Medical and Dental University, Tokyo, Japan.
Hiroyuki KoikeDepartment of Meidical Biochemistry, Tokyo Medical and Dental University, Tokyo, Japan.ORCID http://orcid.org/0000-0001-9934-6930
Yinglan ChengDepartment of Meidical Biochemistry, Tokyo Medical and Dental University, Tokyo, Japan.
Keisuke SekineLaboratory of Cancer Cell Systems, National Cancer Center Research Institute, Tokyo, Japan.ORCID http://orcid.org/0000-0001-5133-0876
Jun-Ichiro KogaThe Second Department of Internal Medicine, University of Occupational and Environmental Health, Kitakyushu, Japan.ORCID http://orcid.org/0000-0002-5501-2477
Kaori SugiyamaInstitute for Advanced Research of Biosystem Dynamics, Research Institute for Science and Engineering, Waseda University, Tokyo, Japan.
Kenichi KimuraLife Science Center for Survival Dynamics, Tsukuba Advanced Research Alliance (TARA), University of Tsukuba, Tsukuba, Japan.ORCID http://orcid.org/0000-0002-0363-8865
Fuyuki KarubeLab of Histology and Cytology, Graduate School of Medicine, Hokkaido University, Sapporo, Japan.
Hyeree KimDepartment of Systems Medicine, Graduate School of Medicine, Chiba University, Chiba, Japan.ORCID http://orcid.org/0009-0007-3174-2989
Ichiro ManabeDepartment of Systems Medicine, Graduate School of Medicine, Chiba University, Chiba, Japan.ORCID http://orcid.org/0000-0001-9481-6673
Tomomi NemotoDivision of Biophotonics, National Institute for Physiological Sciences, National Institutes of Natural Sciences, Okazaki, Japan.ORCID http://orcid.org/0000-0001-6102-1495
Kazuki TainakaDepartment of System Pathology for Neurological Disorders, Brain Research Institute, Niigata University, Niigata, Japan.ORCID http://orcid.org/0000-0002-5943-8723
Akinobu HamadaDepartment of Pharmacology and Therapeutics, Fundamental Innovative Oncology Core, National Cancer Center Research Institute, Tokyo, Japan.
Hjalmar BrismarScience for Life Laboratory, Department of Applied Physics, KTH Royal Institute of Technology, Stockholm, Sweden.ORCID http://orcid.org/0000-0003-0578-4003
Etsuo A SusakiDepartment of Biochemistry and Systems Biomedicine, Juntendo University Graduate School of Medicine, Tokyo, Japan. suishess-kyu@umin.ac.jp.ORCID http://orcid.org/0000-0001-5621-7311
Funding
The role of stress in the fetal origin of obesity and metabolic dysfunctionP20GM104320 · NIGMS · UNIVERSITY OF NEBRASKA LINCOLN · PI ZEMPLENI, JANOS · 2014 to 2024
$24.9MJapan Agency for Medical Research and Development (AMED) JP19dm0207078Japan Agency for Medical Research and Development (AMED) JP20gm6210027Japan Agency for Medical Research and Development (AMED) JP21ak0101181Japan Agency for Medical Research and Development (AMED) JP21cm0106286Japan Agency for Medical Research and Development (AMED) JP21gm1410009Japan Agency for Medical Research and Development (AMED) JP21wm0425001Japan Agency for Medical Research and Development (AMED) JP21zf0127004Japan Agency for Medical Research and Development (AMED) JP223fa827004Japan Agency for Medical Research and Development (AMED) JP22ama221517Japan Agency for Medical Research and Development (AMED) JP23ama221220Japan Agency for Medical Research and Development (AMED) JP23bm1123032Japan Agency for Medical Research and Development (AMED) JP23bm1423012Japan Agency for Medical Research and Development (AMED) JP23gm6510018Japan Agency for Medical Research and Development (AMED) JP23nk0101665MEXT | Japan Science and Technology Agency (JST) JPMJMS2023MEXT | Japan Science and Technology Agency (JST) JPMJTR22UAMEXT | Japan Society for the Promotion of Science (JSPS) JP19K06896MEXT | Japan Society for the Promotion of Science (JSPS) JP20H03549MEXT | Japan Society for the Promotion of Science (JSPS) JP20H05669MEXT | Japan Society for the Promotion of Science (JSPS) JP21H02665MEXT | Japan Society for the Promotion of Science (JSPS) JP21H03127MEXT | Japan Society for the Promotion of Science (JSPS) JP21H05241MEXT | Japan Society for the Promotion of Science (JSPS) JP21K19346MEXT | Japan Society for the Promotion of Science (JSPS) JP21K19358MEXT | Japan Society for the Promotion of Science (JSPS) JP21K19895MEXT | Japan Society for the Promotion of Science (JSPS) JP21K20703MEXT | Japan Society for the Promotion of Science (JSPS) JP22H02523MEXT | Japan Society for the Promotion of Science (JSPS) JP22H02756MEXT | Japan Society for the Promotion of Science (JSPS) JP22H02824MEXT | Japan Society for the Promotion of Science (JSPS) JP22H04926MEXT | Japan Society for the Promotion of Science (JSPS) JP22K06810MEXT | Japan Society for the Promotion of Science (JSPS) JP22K18383MEXT | Japan Society for the Promotion of Science (JSPS) JP22KK0100MEXT | Japan Society for the Promotion of Science (JSPS) JP23K18081MEXT | Japan Society for the Promotion of Science (JSPS) JP23K20044MEXT | JST | Core Research for Evolutional Science and Technology (CREST) JPMJCR20E4MEXT | JST | Core Research for Evolutional Science and Technology (CREST) JPMJCR23B7NIGMS NIH HHS P20 GM104320U.S. Department of Health & Human Services | National Institutes of Health (NIH) GM104320
Abstract
Despite widespread adoption of tissue clearing techniques in recent years, poor access to suitable light-sheet fluorescence microscopes remains a major obstacle for biomedical end-users. Here, we present descSPIM (desktop-equipped SPIM for cleared specimens), a low-cost ($20,000-50,000), low-expertise (one-day installation by a non-expert), yet practical do-it-yourself light-sheet microscope as a solution for this bottleneck. Even the most fundamental configuration of descSPIM enables multi-color imaging of whole mouse brains and a cancer cell line-derived xenograft tumor mass for the visualization of neurocircuitry, assessment of drug distribution, and pathological examination by false-colored hematoxylin and eosin staining in a three-dimensional manner. Academically open-sourced ( https://github.com/dbsb-juntendo/descSPIM ), descSPIM allows routine three-dimensional imaging of cleared samples in minutes. Thus, the dissemination of descSPIM will accelerate biomedical discoveries driven by tissue clearing technologies.
Indexed as
BrainImaging, Three-DimensionalMicroscopy, FluorescenceAnimalsCell Line, TumorHumansMice
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