{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,12]],"date-time":"2025-10-12T03:50:29Z","timestamp":1760241029318,"version":"build-2065373602"},"reference-count":26,"publisher":"MDPI AG","issue":"12","license":[{"start":{"date-parts":[[2019,11,23]],"date-time":"2019-11-23T00:00:00Z","timestamp":1574467200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["J. Imaging"],"abstract":"<jats:p>As conventional fluorescence microscopy and confocal laser scanning microscopy generally produce images with blurring at the upper and lower planes along the z-axis due to non-focal plane image information, the observation of biological images requires \u201cdeconvolution.\u201d Therefore, a microscope system\u2019s individual blur function (point spread function) is determined theoretically or by actual measurement of microbeads and processed mathematically to reduce noise and eliminate blurring as much as possible. Here the author describes the use of open-source software and open hardware design to build a deconvolution microscope at low cost, using readily available software and hardware. The advantage of this method is its cost-effectiveness and ability to construct a microscope system using commercially available optical components and open-source software. Although this system does not utilize expensive equipment, such as confocal and total internal reflection fluorescence microscopes, decent images can be obtained even without previous experience in electronics and optics.<\/jats:p>","DOI":"10.3390\/jimaging5120088","type":"journal-article","created":{"date-parts":[[2019,11,25]],"date-time":"2019-11-25T03:10:00Z","timestamp":1574651400000},"page":"88","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":5,"title":["Software-Based Three-Dimensional Deconvolution Microscopy of Cytoskeletal Proteins in Cultured Fibroblast Using Open-Source Software and Open Hardware"],"prefix":"10.3390","volume":"5","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-5766-708X","authenticated-orcid":false,"given":"Kazuo","family":"Katoh","sequence":"first","affiliation":[{"name":"Faculty of Health Sciences, Tsukuba University of Technology, Laboratory of Human Anatomy and Cell Biology, 4-12-7 Kasuga, Tsukuba-city, Ibaraki 305-8521, Japan"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"1968","published-online":{"date-parts":[[2019,11,23]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"671","DOI":"10.1038\/nmeth.2089","article-title":"NIH Image to ImageJ: 25 years of image analysis","volume":"9","author":"Schneider","year":"2012","journal-title":"Nat. Methods"},{"key":"ref_2","first-page":"14","article-title":"Computer control of microscopes using \u00b5Manager","volume":"92","author":"Edelstein","year":"2010","journal-title":"Curr. Protoc. Mol. Boil."},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1111\/j.1365-2818.1983.tb04703.x","article-title":"Tandem scanning reflected light microscopy of internal features in whole bone and tooth samples","volume":"132","author":"Boyde","year":"1983","journal-title":"J. Microsc."},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"440","DOI":"10.1111\/j.1749-6632.1986.tb34554.x","article-title":"In vivo microscopy using the tandem scanning microscope","volume":"483","author":"Petran","year":"1986","journal-title":"Ann N Y Acad Sci"},{"key":"ref_5","first-page":"551","article-title":"Tandem scanning microscope--a new tool for three-dimensional microanatomy","volume":"295","author":"Petran","year":"1989","journal-title":"Prog Clin Biol Res"},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"177","DOI":"10.1002\/cm.970310302","article-title":"Focal adhesion proteins associated with apical stress fibers of human fibroblasts","volume":"31","author":"Katoh","year":"1995","journal-title":"Cell Motil. Cytoskelet."},{"key":"ref_7","doi-asserted-by":"crossref","first-page":"27","DOI":"10.1247\/csf.21.27","article-title":"Mutually Exclusive Distribution of the Focal Adhesion Associated Proteins and the Erythrocyte Membrane Skeleton Proteins in the Human Fibroblast Plasma Membrane Undercoat","volume":"21","author":"Katoh","year":"1996","journal-title":"Cell Struct. Funct."},{"key":"ref_8","doi-asserted-by":"crossref","first-page":"425","DOI":"10.1161\/01.RES.86.4.425","article-title":"Lateral zone of cell-cell adhesion as the major fluid shear stress-related signal transduction site","volume":"86","author":"Kano","year":"2000","journal-title":"Circ. Res."},{"key":"ref_9","doi-asserted-by":"crossref","first-page":"554","DOI":"10.1016\/j.cellbi.2006.11.028","article-title":"Morphological differences between guinea pig aortic and venous endothelial cells in situ","volume":"31","author":"Katoh","year":"2007","journal-title":"Cell Boil. Int."},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"199","DOI":"10.1006\/nimg.1994.1005","article-title":"Development of Glomerular Structure in Rabbit Olfactory Bulb: Three-Dimensional Reconstruction under the Confocal Laser Scanning Microscopy","volume":"1","author":"Katoh","year":"1994","journal-title":"NeuroImage"},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"413","DOI":"10.1007\/BF02956173","article-title":"Beitr\u00e4ge zur Theorie des Mikroskops und der mikroskopischen Wahrnehmung","volume":"9","author":"Abbe","year":"1873","journal-title":"Arch. Mikrosk. Anat."},{"key":"ref_12","doi-asserted-by":"crossref","unstructured":"Pawley, J.B. (1995). Handbook of Biological Confocal MIcroscopy, Plenum Press. [2nd ed.].","DOI":"10.1007\/978-1-4757-5348-6"},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"124","DOI":"10.1186\/s12918-016-0372-2","article-title":"Superpixel-based segmentation of muscle fibers in multi-channel microscopy","volume":"10","author":"Nguyen","year":"2016","journal-title":"BMC Syst. Boil."},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"429","DOI":"10.1111\/j.1600-0854.2010.01039.x","article-title":"Exocytotic Vesicle Behaviour Assessed by Total Internal Reflection Fluorescence Microscopy","volume":"11","author":"Burchfield","year":"2010","journal-title":"Traffic"},{"key":"ref_15","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.neures.2018.01.008","article-title":"Real-time imaging of synaptic vesicle exocytosis by total internal reflection fluorescence (TIRF) microscopy","volume":"136","author":"Midorikawa","year":"2018","journal-title":"Neurosci. Res."},{"key":"ref_16","doi-asserted-by":"crossref","first-page":"141","DOI":"10.1083\/jcb.89.1.141","article-title":"Cell-substrate contacts illuminated by total internal reflection fluorescence","volume":"89","author":"Axelrod","year":"1981","journal-title":"J. Cell Boil."},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"6440","DOI":"10.1016\/S0021-9258(20)65161-4","article-title":"Stimulation of fluorescence in a small contact region between rat basophil leukemia cells and planar lipid membrane targets by coherent evanescent radiation","volume":"257","author":"Weis","year":"1982","journal-title":"J. Boil. Chem."},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"857","DOI":"10.1016\/S0896-6273(00)80325-6","article-title":"Ca2+-triggered peptide secretion in single cells imaged with green fluorescent protein and evanescent-wave microscopy","volume":"18","author":"Lang","year":"1997","journal-title":"Neuron"},{"key":"ref_19","doi-asserted-by":"crossref","first-page":"2863","DOI":"10.1016\/S0006-3495(00)76828-7","article-title":"Role of actin cortex in the subplasmalemmal transport of secretory granules in PC-12 cells","volume":"78","author":"Lang","year":"2000","journal-title":"Biophys. J."},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"764","DOI":"10.1034\/j.1600-0854.2001.21104.x","article-title":"Total internal reflection fluorescence microscopy in cell biology","volume":"2","author":"Axelrod","year":"2001","journal-title":"Traffic"},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"10488","DOI":"10.1523\/JNEUROSCI.2355-09.2009","article-title":"Negative guidance factor-induced macropinocytosis in the growth cone plays a critical role in repulsive axon turning","volume":"29","author":"Kolpak","year":"2009","journal-title":"J. Neurosci."},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1111\/jmi.12456","article-title":"Software-based measurement of thin filament lengths: An open-source GUI for Distributed Deconvolution analysis of fluorescence images","volume":"265","author":"Gokhin","year":"2017","journal-title":"J. Microsc."},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"676","DOI":"10.1038\/302676a0","article-title":"Three-dimensional architecture of a polytene nucleus","volume":"302","author":"Agard","year":"1983","journal-title":"Nature"},{"key":"ref_24","doi-asserted-by":"crossref","first-page":"10","DOI":"10.14440\/jbm.2014.36","article-title":"Advanced methods of microscope control using \u03bcManager software","volume":"1","author":"Edelstein","year":"2014","journal-title":"J. Boil. Methods"},{"key":"ref_25","doi-asserted-by":"crossref","unstructured":"Dougherty, R. (2005, January 23\u201325). Extensions of DAMAS and Benefits and Limitations of Deconvolution in Beamforming. Proceedings of the 11th AIAA\/CEAS Aeroacoustics Conference, Monterey, CA, USA.","DOI":"10.2514\/6.2005-2961"},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"1000","DOI":"10.1161\/01.RES.79.5.1000","article-title":"Macromolecular Composition of Stress Fiber\u2013Plasma Membrane Attachment Sites in Endothelial Cells In Situ","volume":"79","author":"Kano","year":"1996","journal-title":"Circ. 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