This is an old revision of the document!
Table of Contents
Publications
Microscopy-Focused
- Reflective imaging improves spatiotemporal resolution and collection efficiency in light sheet microscopy. Nat. Comm. 8:1452 (Nov 2017). doi: 10.1038/s41467-017-01250-8. PMID: 29129912
- iSPIM/diSPIM on reflective substrate for 2/4 simultaneous views
- Using Stage- and Slit-Scanning to Improve Contrast and Optical Sectioning in Dual-View Inverted Light Sheet Microscopy (diSPIM). Biol. Bull. 231:26-39 (Aug 2016). doi: 10.1086/689589. PMID: 27638693
- LabView implementation of both stage scanning and virtual slit on diSPIM
- πSPIM: high NA high resolution isotropic light-sheet imaging in cell culture dishes. Sci. Rep. 6:32880 (2016). doi: 10.1038/srep32880. PMID: 27619647
- independent invention/description of oSPIM concept developed by ASI (see ASI Oblique SPIM Dec 2016)
- take resolution numbers with a grain of salt, authors use large illumination NA (very short beam waist) to get excellent optical sectioning but with impractically narrow field of view
- Simultaneous multiview capture and fusion improves spatial resolution in wide-field and light-sheet microscopy. Optica 3(8):897-910 (2016). doi: 10.1364/OPTICA.3.000897. PMID: 27761486
- diSPIM with addition of capturing fluorescence from inverted microscope objective for improved resolution and light efficiency at cost of significantly increased complexity
- 4D (x-y-z-t) imaging of thick biological samples by means of Two-Photon inverted Selective Plane Illumination Microscopy (2PE-iSPIM) Sci. Rep. 6:23923 (2016). doi: 10.1038/srep23923. PMID: 27033347
- homebuilt iSPIM with 2-photon excitation
- Dual-view plane illumination microscopy for rapid and spatially isotropic imaging. Nat Protoc. 2014 Nov;9(11):2555-73. doi: 10.1038/nprot.2014.172. PMID: 25299154
- detailed protocol for diSPIM, some details different (and much easier) with more modern systems
- Two views on light sheets. Nat Biotechnol. 2013 Nov;31(11):992-3. doi: 10.1038/nbt.2739. PMID: 24213774. External link.
- overview of “Spatially isotropic four-dimensional imaging with dual-view plane illumination microscopy”.
- Spatially isotropic four-dimensional imaging with dual-view plane illumination microscopy. Nat Biotechnol. 2013 Nov;31(11):1032-8. doi: 10.1038/nbt.2713. PMID: 24108093.
- Inverted selective plane illumination microscopy (iSPIM) enables coupled cell identity lineaging and neurodevelopmental imaging in Caenorhabditis elegans. Proc Natl Acad Sci U S A. 2011 Oct 25;108(43):17708-13. doi: 10.1073/pnas.1108494108. PMID: 22006307
- original single-sided implementation
- Guide to light-sheet microscopy for adventurous biologists. Nature Methods 12, 30–34 (2015). doi: 10.1038/nmeth.3222. PMID: 25549268 External link.
- overview and comparison of various SPIM techniques/microscopes, authored by OpenSPIM contributors
- A guide to light-sheet fluorescence microscopy for multiscale imaging. Nature Methods 14, 360–373 (2017). doi: http://dx.doi.org/10.1038/nmeth.4224. PMID: 28362435
- overall excellent review paper
Biology-Focused
- Visualizing Calcium Flux in Freely Moving Nematode Embryos. Biophysical Journal 112, 1975-1983 (2017). doi: 10.1016/j.bpj.2017.02.035. PMID: 28494967
- functional imaging of calcium indicators to correlate neuronal and muscular activity on iSPIM
- associated commentary by Phillip Keller at doi: 10.1016/j.bpj.2017.03.035
- Clustered nuclei maintain autonomy and nucleocytoplasmic ratio control in a syncytium. Mol. Biol. of the Cell 27:13 2000-2007, (2016). doi: 10.1091/mbc.E16-02-0129 . PMID: 27193301
- used diSPIM to track nuclei in Ashbya fungi
- Snapshot Hyperspectral Light-Sheet Imaging of Signal Transduction in Live Pancreatic Islets. Biophysical Journal 111, 409-417 (2016). doi: 10.1016/j.bpj.2016.06.014. PMID: 27463142
- combines iSPIM with hyperspectral imaging
- Untwisting the Caenorhabditis elegans embryo. Nature Cell Biology 17, 397–408 (2015). doi: 10.7554/eLife.10070. PMID: 26633880
- obtained composite model showing average movement of neurons during development of worm embryos despite twitching
- Myosin-II-mediated cell shape changes and cell intercalation contribute to primitive streak formation. Nature Cell Biology 17, 397–408 (2015). doi: 10.1038/ncb3138. PMID: 25812521
- uses a homebuilt instrument that is essentially an iSPIM with Nikon 10x/0.3 objectives and no inverted microscope to study chick embryo development
- Influenza A Virus Assembly Intermediates Fuse in the Cytoplasm. PLoS Pathog. 2014 Mar 6;10(3):e1003971. doi: 10.1371/journal.ppat.1003971. PMID: 24603687
- Inverted selective plane illumination microscopy (iSPIM) enables coupled cell identity lineaging and neurodevelopmental imaging in Caenorhabditis elegans. Proc Natl Acad Sci U S A. 2011 Oct 25;108(43):17708-13. doi: 10.1073/pnas.1108494108. PMID: 22006307
- Mucor circinelloides induces platelet aggregation through integrin αIIbβ3 and FcγRIIA. Platelets. 2018 Jan 3:1-8. doi: 10.1080/09537104.2017.1420152
- Multimodal cell type correspondence by intersectional mFISH in intact tissues. bioRxiv preprint doi: 10.1101/525451.
- mFISH on iSPIM on cleared mouse brain using multi-immersion objective and Micro-Manager diSPIM plugin
- Multiscale three-dimensional pathology findings of COVID-19 diseased lung using high-resolution cleared tissue microscopy. bioRxiv preprint doi: https://doi.org/10.1101/2020.04.11.037473.
- iSPIM imaging of cleared lung tissue using cleared tissue objective (software unspecified)
- Mitotic motor CENP-E cooperates with PRC1 in temporal control of central spindle assembly Journal of Molecular Cell Biology, mjz051, 10 September 2019 https://doi.org/10.1093/jmcb/mjz051
- diSPIM on a 3i - Marianas Platform (Marianas LightSheet), software SlideBook
- hFRUIT: An optimized agent for optical clearing of DiI-stained adult human brain tissue. Sci Rep 10, 9950 (2020). doi: https://doi.org/10.1038/s41598-020-66999-3.
- clearing protocol for human brain tissue and imaging on ct-dSPIM with 54-10-12 objective
- Automated 3D light-sheet screening with high spatiotemporal resolution reveals mitotic phenotypes. J. Cell Sci, 133 (2020). doi: https://doi.org/ 10.1242/jcs.245043.
- adapted diSPIM toward high-throughput screening applications for cell cycle studies
Other
- Rapid and gentle hydrogel encapsulation of living organisms enables long-term microscopy over multiple hours. Communications Biology Vol 1, Article number: 73 (2018); doi: 10.1038/s42003-018-0079-6.
- convenient method of fixing e.g. nematode adults for diSPIM imaging
