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Classification of Colletotrichum coccodes isolates into vegetative compatibility groups using infrared attenuated total reflectance spectroscopy and multivariate analysis
Year:
2014
Source of publication :
Methods
Authors :
Tsror, Leah
;
.
Volume :
68
Co-Authors:
Salman, A., Department of Physics, SCE-Sami Shamoon College of Engineering, Beer-Sheva 84100, Israel
Shufan, E., Department of Physics, SCE-Sami Shamoon College of Engineering, Beer-Sheva 84100, Israel
Tsror, L., Department of Plant Pathology, Institute of Plant Protection, Agricultural Research Organization, Gilat Research Center, M.P. Negev 85250, Israel
Moreh, R., Department of Physics, Ben-Gurion University, Beer-Sheva 84105, Israel
Mordechai, S., Department of Physics, Ben-Gurion University, Beer-Sheva 84105, Israel
Huleihel, M., Department of Microbiology, Immunology and Genetics, Faculty of Health Sciences, Ben-Gurion University of the Negev, Beer-Sheva 84105, Israel
Facilitators :
From page:
325
To page:
330
(
Total pages:
6
)
Abstract:
In this study the potential of infrared (IR) spectroscopy for the classification of Colletotrichum coccodes (C. coccodes) isolates into vegetative compatibility groups (VCGs) was evaluated. Isolates which belong to the same VCG may have similar pathological and physiological traits that differ from those that are not assigned to the same VCG. Early classification of isolates into VCGs is of a great importance for a better understanding of the epidemiology of the disease and improves its control. The main goal of the present study was to classify 14 isolates of C. coccodes into VCGs and differentiate between them, based on their IR absorption spectra as obtained by the FTIR-ATR sampling technique. Advanced statistical and mathematical methods, including Principal Component Analysis (PCA) and Linear Discriminant Analysis (LDA), were applied to the spectra after manipulation. The results show that it is possible to assign the isolates into VCGs with more than 90% success based on the wavenumber low region (1800-800cm-1) and using 15 PCs. However, on the isolate level, the best differentiation results were obtained using PCA (15 PCs) and LDA for the combined regions (2990-2800cm-1, 1800-800cm-1), with identification success rates of 87.2%. © 2014.
Note:
Related Files :
Colletotrichum
Differentiation
fungus isolation
infrared spectroscopy
Show More
Related Content
More details
DOI :
10.1016/j.ymeth.2014.02.021
Article number:
Affiliations:
Database:
Scopus
Publication Type:
article
;
.
Language:
English
Editors' remarks:
ID:
27404
Last updated date:
02/03/2022 17:27
Creation date:
17/04/2018 00:30
You may also be interested in
Scientific Publication
Classification of Colletotrichum coccodes isolates into vegetative compatibility groups using infrared attenuated total reflectance spectroscopy and multivariate analysis
68
Salman, A., Department of Physics, SCE-Sami Shamoon College of Engineering, Beer-Sheva 84100, Israel
Shufan, E., Department of Physics, SCE-Sami Shamoon College of Engineering, Beer-Sheva 84100, Israel
Tsror, L., Department of Plant Pathology, Institute of Plant Protection, Agricultural Research Organization, Gilat Research Center, M.P. Negev 85250, Israel
Moreh, R., Department of Physics, Ben-Gurion University, Beer-Sheva 84105, Israel
Mordechai, S., Department of Physics, Ben-Gurion University, Beer-Sheva 84105, Israel
Huleihel, M., Department of Microbiology, Immunology and Genetics, Faculty of Health Sciences, Ben-Gurion University of the Negev, Beer-Sheva 84105, Israel
Classification of Colletotrichum coccodes isolates into vegetative compatibility groups using infrared attenuated total reflectance spectroscopy and multivariate analysis
In this study the potential of infrared (IR) spectroscopy for the classification of Colletotrichum coccodes (C. coccodes) isolates into vegetative compatibility groups (VCGs) was evaluated. Isolates which belong to the same VCG may have similar pathological and physiological traits that differ from those that are not assigned to the same VCG. Early classification of isolates into VCGs is of a great importance for a better understanding of the epidemiology of the disease and improves its control. The main goal of the present study was to classify 14 isolates of C. coccodes into VCGs and differentiate between them, based on their IR absorption spectra as obtained by the FTIR-ATR sampling technique. Advanced statistical and mathematical methods, including Principal Component Analysis (PCA) and Linear Discriminant Analysis (LDA), were applied to the spectra after manipulation. The results show that it is possible to assign the isolates into VCGs with more than 90% success based on the wavenumber low region (1800-800cm-1) and using 15 PCs. However, on the isolate level, the best differentiation results were obtained using PCA (15 PCs) and LDA for the combined regions (2990-2800cm-1, 1800-800cm-1), with identification success rates of 87.2%. © 2014.
Scientific Publication
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