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Dolz M, Monterrey DT, Beltrán-Nogal A, Menés-Rubio A, Keser M, González-Pérez D, de Santos PG, Viña-González J, Alcalde M. The colors of peroxygenase activity: Colorimetric high-throughput screening assays for directed evolution. Methods Enzymol 2023; 693:73-109. [PMID: 37977739 DOI: 10.1016/bs.mie.2023.09.006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2023]
Abstract
Fungal unspecific peroxygenases (UPOs) are arising as versatile biocatalysts for C-H oxyfunctionalization reactions. In recent years, several directed evolution studies have been conducted to design improved UPO variants. An essential part of this protein engineering strategy is the design of reliable colorimetric high-throughput screening (HTS) assays for mutant library exploration. Here, we present a palette of 12 colorimetric HTS assays along with their step-by-step protocols, which have been validated for directed UPO evolution campaigns. This array of colorimetric assays will pave the way for the discovery and design of new UPO variants.
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Affiliation(s)
- Mikel Dolz
- Department of Biocatalysis, Institute of Catalysis, CSIC, C/ Marie Curie 2, Cantoblanco, Madrid, Spain
| | - Dianelis T Monterrey
- Department of Biocatalysis, Institute of Catalysis, CSIC, C/ Marie Curie 2, Cantoblanco, Madrid, Spain
| | - Alejandro Beltrán-Nogal
- Department of Biocatalysis, Institute of Catalysis, CSIC, C/ Marie Curie 2, Cantoblanco, Madrid, Spain
| | - Andrea Menés-Rubio
- Department of Biocatalysis, Institute of Catalysis, CSIC, C/ Marie Curie 2, Cantoblanco, Madrid, Spain
| | - Merve Keser
- Department of Biocatalysis, Institute of Catalysis, CSIC, C/ Marie Curie 2, Cantoblanco, Madrid, Spain
| | - David González-Pérez
- Department of Biocatalysis, Institute of Catalysis, CSIC, C/ Marie Curie 2, Cantoblanco, Madrid, Spain
| | | | - Javier Viña-González
- EvoEnzyme S.L., C/ Faraday 7. Parque Científico de Madrid, Cantoblanco, Madrid, Spain
| | - Miguel Alcalde
- Department of Biocatalysis, Institute of Catalysis, CSIC, C/ Marie Curie 2, Cantoblanco, Madrid, Spain.
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Eosin fluorescence: A diagnostic tool for quantification of liver injury. Photodiagnosis Photodyn Ther 2017; 19:37-44. [PMID: 28400340 DOI: 10.1016/j.pdpdt.2017.03.016] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2016] [Revised: 03/02/2017] [Accepted: 03/28/2017] [Indexed: 11/20/2022]
Abstract
Hepatitis is one of the most common life threatening diseases. The diagnosis is mainly based on biochemical analysis such as liver function test. However, histopathological evaluation of liver serves far better for more accurate final diagnosis. The goal of our study was to evaluate the eosin fluorescence pattern in CCl4-induced liver injury model compared with normal and different treatment groups. For this purpose, liver tissues were stained with H/E and examined under bright field microscope but the fluorescence microscopy of H/E stained slides provided an interesting fluorescence pattern and was quite helpful in identifying different structures. Interesting fluorescence patterns were obtained with FITC, Texas Red and Dual channel filter cubes that were quite helpful in identifying different morphological features of the liver. During the course of hepatic injury, liver cells undergo necrosis, apoptosis and overall cellular microenvironment is altered due to the modification of proteins and other intracellular molecules. Intensified eosin fluorescence was observed around the central vein of injured liver compared to normal indicating enhanced binding of eosin to the more exposed amino acid residues. To conclude, eosin fluorescence pattern varies with the health status of a tissue and can be used further for the diagnosis and quantification of severity of various liver diseases.
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Imanishi Y, Tanaka R, Yaguchi T, Shimizu K. Capsule gene CAP64 is involved in the regulation of vacuole acidification in Cryptococcus neoformans. MYCOSCIENCE 2017. [DOI: 10.1016/j.myc.2016.09.001] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Stockert JC, Villanueva A, Cristóbal J, Cañete M. Improving images of fluorescent cell labeling by background signal subtraction. Biotech Histochem 2009; 84:63-8. [PMID: 19267289 DOI: 10.1080/10520290902804357] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022] Open
Abstract
The uptake and selective accumulation of fluorescent labels and drugs into organelles of cultured cells currently are widely investigated in biomedical research. In such studies, co-localization procedures are frequently used to identify the accumulation sites of compounds with biological activity. A drawback with fluorescent labeling is the autofluorescence of some cell organelles, which can hinder the precise assessment of co-localization. We report here labeling of the Golgi apparatus of A-549 cells using the photosensitizer zinc(II)-phthalocyanine (ZnPc) and co-localization with the Golgi probe NBD C6-ceramide. The blue autofluorescence signal of mitochondria can be subtracted easily from the original picture by image processing, after which the co-localization of the isolated red ZnPc signal with the green signal from the Golgi probe is considerably improved.
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Affiliation(s)
- J C Stockert
- Department of Biology, Faculty of Sciences, Autonomous University of Madrid, Cantoblanco, 28049 Madrid, Spain.
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Das CM, Becker F, Vernon S, Noshari J, Joyce C, Gascoyne PRC. Dielectrophoretic segregation of different human cell types on microscope slides. Anal Chem 2005; 77:2708-19. [PMID: 15859584 PMCID: PMC1542197 DOI: 10.1021/ac048196z] [Citation(s) in RCA: 67] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
A new method for preparing cells for microscopic examination is presented in which cell mixtures are fractionated by dielectrophoretic forces and simultaneously collected into characteristic zones on slides. The method traps cells directly from the suspending medium onto the slide, reducing cell loss. Furthermore, it exploits differences in the dielectric properties of the cells, which sensitively reflect their morphology. Because different cell types are trapped in characteristic zones on the slide, the technique represents an advance over existing methods for slide preparation, such as centrifugation and smears where cells are randomly distributed. In particular, the new method should aid in the detection of rare and anomalous cell subpopulations that might otherwise go unnoticed against a high background of normal cells. As well as being suitable for traditional microscopic examination and automated slide scanning approaches, it is compatible with histochemical and immunochemical techniques, as well as emerging molecular and proteomic methods. This paper describes the rationale and design of this so-called electrosmear instrumentation and shows experimental results that verify the theory and applicability of the method with model cell lines and normal peripheral blood subpopulations.
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Affiliation(s)
- Chandra M Das
- Department of Molecular Pathology, University of Texas M. D. Anderson Cancer Center, 1515 Holcombe Boulevard, Houston, Texas 77030, USA
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Cañete M, Juarranz A, López-Nieva P, Alonso-Torcal C, Villanueva A, Stockert JC. Fixation and permanent mounting of fluorescent probes after vital labelling of cultured cells. Acta Histochem 2001; 103:117-26. [PMID: 11368093 DOI: 10.1078/0065-1281-00594] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
The use of fluorescent probes for the visualization of organelles in living cells and assessment of live/dead cells has an increasing importance in cell biology. However, rapid and irreversible morphological changes of labelled cells (due to the photosensitizing effect of most fluorescent probes) make prolonged observation and detailed analysis of living cells under continuous excitation difficult. In this study, we describe a method for fixing and mounting cultured HeLa and 3T3 cells labelled with acridine orange (lysosomes), rhodamine 123 (mitochondria), Hoechst 33342 (nuclei), and propidium iodide/acridine orange (live/dead HeLa cells subjected to nutrient deprivation). Fixation is performed with vapours of a commercially available formaldehyde solution for 0.5-1 min followed by air drying and permanent mounting in DPX. After this procedure, both the general morphology and selective fluorescent labelling of cells are well preserved. The method of vapour fixation and DPX mounting is simple, rapid and reproducible, allowing definitive preservation of the fluorescence pattern observed in unfixed cell cultures.
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Affiliation(s)
- M Cañete
- Departamento de Biología, Facultad de Ciencias, Universidad Autónoma de Madrid, Canto Blanco, Spain
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Apgar JM, Juarranz A, Espada J, Villanueva A, Cañete M, Stockert JC. Fluorescence microscopy of rat embryo sections stained with haematoxylin-eosin and Masson's trichrome method. J Microsc 1998; 191:20-7. [PMID: 9723188 DOI: 10.1046/j.1365-2818.1998.00348.x] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
The fluorescence pattern induced by haematoxylin-eosin (HE) and Masson's trichrome (MT) staining methods on paraffin sections of rat embryos (from 13 to 18 days old) has been studied. Using optimal excitation (green light, 545 nm), HE- or MT-stained sections showed a selective red emission of the acidophilic tissue components, which was due to eosin Y in the case of HE and to acid fuchsin and/or xylidine ponceau in the case of MT. The fluorescence intensity induced by these anionic dyes was variable and related to the substrate nature and the embryo age. Whereas in young embryos only the immature red blood cells showed a noticeable fluorescence, in the oldest embryos there were also other tissue components that selectively fluoresced with these dyes, in particular fibre lens cells, elastic fibres, zymogen granules and muscle cells. Spectrofluorometric studies on free dyes and densitometric analysis of protein blots confirmed microscopical observations. Our results indicate that the standard HE and MT staining methods can be used in recognizing the appearance of specific protein structures in embryonic tissues by means of fluorescence microscopy.
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Affiliation(s)
- J M Apgar
- Departamento de Biología, Facultad de Ciencias, Universidad Autónoma de Madrid, Cantoblanco, Spain
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