Cell Profiler software: An easy screening tool for DNA damage estimation in fish erythrocytes from comet assay image
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DNA fragmentation by single strand breaks (SSBs) or double strand breaks (DSBs) is major concern in genotoxicity research. DNA damages can be easily known through comet assay or single cell gel electrophoresis (SCGE). Since decades, scoring through software for DNA damages in images have been developed by researchers. These softwares depend upon manual scoring on individual comet in a particular interface. The evaluation under software may have biasness and error during scoring by each researcher and few softwares are unable to access easily because many of these are commercial products. However, CellProfiler (CP) image analysis software (Version 2.1.0) is free, easy operation, faster and automated screening by computer itself. An attempt was made to detect DNA damages mainly comet scoring through CP software as whole comet, comet head and comet tail from image of previously studied single cell gel electrophoresis (SCGE) in the peripheral erythrocytes of fish exposed to benzene as experimental image. The results particularly on length and area of whole comet, head and tail were obtained after automated analysis in the CP software. The image processing study was done of the objects present in fluorescence microscopy image to know maximum DNA damage at each cell level for the fish erythrocytes. It was concluded that the present study of image based screening for DNA damages as details of comet and its head and tail evaluation by shape and area in the fish erythrocytes can be a suitable tool for genotoxicity prediction along with risk assessment at DNA level. The shape descriptor as Zernike moments order 0 to 9 can also be suitable parameters to know accuracy of the shape of comet and its head and tail in the image. Finally, high-throughput automated screening of comet test can help in disease diagnosis and repair mechanisms as well as environmental monitoring of genotoxin(s) within short period of time.
- Career Advancement Solutions, Maheshtala, Kolkata - 700142, India
- Department of Botany, Srirampore College, University of Calcutta, William Carey Road, Hooghly, West Bengal, India
- Career Advancement Solutions, Maheshtala, Kolkata - 700142, India
- Career Advancement Solutions, Maheshtala, Kolkata - 700142, India, firstname.lastname@example.org
-  O. Ostling, K.J. Johanson, Biochemical and Biophysical Research Communications 123 (1984) 291-298.
-  N.P. Singh, M.T. McCoy, R.R. Tice, E.L. Schneider, Experimental Cell Research 175(1) (1988) 184-191.
-  P.L. Olive, J.P. Banath, R.E. Durand, Journal of the National Cancer Institute 82 (1990) 779-783.
-  S.N. Talapatra, S. Dey, S.K. Benerjee, Detection of genotoxic effect special reference to micronucleus test and DNA damage by comet assay in fish Labeo bata after acute in vivo exposure of benzene. In: Proceedings of the UGC-Sponsored Regional-Level Seminar on Environmental Issues of Western Part of West Bengal: Problems and Prospects, Organized by Seva-Bharati Mahavidyalaya, Paschim Medinipur, West Bengal, India (2004) p.19.
-  P. Banerjee, S.N. Talapatra, N. Mandal, G. Sundaram, A. Mukhopadhyay, D.J. Chattopadhyay, S.K. Banerjee Food and Chemical Toxicology 46 (2008) 402-407.
-  A.R. Collins, E. Horvathova, Biochemical Society Transactins 29 (2001) 337.
-  A.R. Collins, Molecular Biotechnology 26(3) (2004) 249-260.
-  A. Azqueta, J. Slyskova, S.A.S. Langie, I. O’Neill Gaivão, A. Collins, Frontiers in Genetics 5 Article 288 (2014) doi: 10.3389/fgene.2014.00288.
-  C. Bolognesi, A. Buschini, E. Branchi, P. Carboni, M. Furlini, A. Martino, M. Monteverde, P. Poli, C. Rossi, Science of the Total Environment 333 (2004) 127-136.
-  M. Petriccione, C. Ciniglia, Bulletin of Environmental Contamination and Toxicology 89(1) (2012) 166-171.
-  A. Osipov, E. Arkhangelskaya, A. Vinokurov, N. Smetaninа, A. Zhavoronkov, D. Klokov, International Journal of Molecular Sciences 15 (2014) 6086-6095.
-  A.V. de Carvalho, I. Lübeck, M.B. da Rocha, C.M. Güez, M.M. Machado, L.F.S. de Oliveira, Acta Scientiarum. Biological Sciences 37(4) (2015) 491-497.
-  P. Roy, A. Mukherjee, S. Giri, Ecotoxicology and Environment Safety 124 (2016) 169-176.
-  C. Charles, M. Chemais, C. Stevigny, J. Dubois, A. Nachtergael, P. Duez, Food Chemistry 135(4) (2012) 2974-2981.
-  C. Charles, A. Nachtergael, M. Quedraogo, A. Belayew, P. Duez, Mutation Research/ Genetic Toxicology and Environmental Mutagenesis 768(1) (2014) 33-48.
-  T.S. Kumaravel, A.N. Jha, Mutation Research 605 (2006) 7-16.
-  B.M. Gyori, G. Venkatachalam, P.S. Thiagarajan, D. Hsu, M-V. Clement, OpenComet: Redox Biology 2 (2014) 457-465.
-  K. Konca, A. Lankoff, A. Banasik, H. Lisowska, T. Kuszewski, S. Gózdz, Z. Koza, A. Wojcik, Mutation Research 534 (2003) 15-20.
-  G. Sreelatha, A. Muraleedharan, P. Chand, R.P. Rajkumar, P.S. Sathidevi, Procedia Computer Science 46 (2015) 135-142.
-  S. Ganapathy, A. Muraleedharan, P.S. Sathidevi, P. Chand, R.P. Rajkumar, Computer Methods and Programs in Biomedicine 133 (2016)143-154.
-  A.E. Carpenter, T.R. Jones, M.R. Lamprecht, C. Clarke, I.H. Kang, O. Friman, D.A. Guertin, J.H. Chang, R.A. Lindquist, J. Moffat, P. Golland, D.M. Sabatini, Genome Biology 7 (2006) R100.
-  M. R. Lamprecht, D.M. Sabatini, A.E. Carpenter, Biotechniques 42 (2007) 71-75.
-  L. Kamentsky, T.R. Jones, A. Fraser, M.-A. Bray, D.J. Logan, K.L. Madden, V. Ljosa, C. Rueden, K.W. Eliceiri, A.E. Carpenter, Bioinformatics 27 (2011) 1179-1180.
-  M.-A. Bray, M.S. Vokes, A.E. Carpenter, Current Protocols in Molecular Biology 109 (2015) 14.17.1-14.17.13 (doi: 10.1002/0471142727.mb1417s109).
-  S.N. Talapatra, P. Mitra, S. Swarnakar, S. International Letters of Natural Sciences 54 (2016) 27-41.
-  J.E. Gonzáleza, I. Romeroa, J.F. Barquinerob, O. Garcíaa. Mutation Research/Genetic Toxicology and Environmental Mutagenesis 748(1-2) (2012) 60-64.
-  T.R. Jones, A.E. Carpenter, D.M. Sabatini, P. Golland, Methods for high-content, high-throughput image-based cell screening. In: D.N. Metaxas, R.T. Whitaker, J. Rittcher, T. Sebastian T, editor. Proceedings of the Workshop on Microscopic Image Analysis with Applications in Biology held in association with MICCAI06 (Medical Image Computing and Computer-Assisted Intervention) held in Copenhagen, Denmark, October 5, 2006. pp. 65-72.
-  T.R. Jones, A.E. Carpenter, M.R. Lamprecht, J. Moffat, S.J. Silver, J.K. Grenier, B. Adam, A.D. Castoreno, U.S. Eggert, D.E. Root, P. Golland, D.M. Sabatini, Proceedings of the National Academy of Sciences USA 106(6) (2009) 1826-1831.
-  A. Khotanzad, Y.H. Hong, IEEE Transactions on Pattern Analysis and Machine Intelligence 12 (5) (1990) 489-497.
-  D. Zhang, G. Lu, IEEE IEEE International Conference on Multimedia and Expo 1 (2002) 205-208.
-  T. Suk, J. Flusser, B. Zitova, Moments and moment invariants in pattern recognition, Wiley and Sons Ltd (2009).
-  M. Vorobyov, Shape classification using Zernike moments, iCamp at University of California Irvine, August 5 (2011).
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