Detection of Fusarium oxysporum fungal isolates using ATR spectroscopy

A. Salman; I. Lapidot; A. Pomerantz; L. Tsror; Z. Hammody; R. Moreh; M. Huleihel; S. Mordechai

doi:10.3233/978-1-61499-184-7-047

Detection of Fusarium oxysporum fungal isolates using ATR spectroscopy

A. Salman, I. Lapidot, A. Pomerantz, L. Tsror, Z. Hammody, R. Moreh, M. Huleihel, S. Mordechai

Research output: Chapter in Book/Report/Conference proceeding › Chapter › peer-review

Abstract

Fungi are considered as serious pathogens for many plants, potentially causing severe economic damage. Early detection and identification of these pathogens is crucial for their timely control. The methods available for identification of fungi are time consuming and not always very specific. In this study, the potential of FTIR-ATR spectroscopy was examined together with advanced mathematical principle component analysis (PCA) and statistical linear discriminant analysis (LDA) to differentiate among 10 isolates of Fusarium oxysporum. The results are encouraging and indicate that FTIR-ATR can successfully detect different isolates of Fusarium oxysporum. Based on PCA and LDA calculations in the region 850-1775 cm^-1 with 16 PCs, the different strains from the same fungal genus could be classified with 75.3 and 69.5% success rates using the 'leave one out' method and '20-80% algorithm' respectively.

Original language	English
Title of host publication	Spectroscopy of Biological Molecules. Proceedings from the 14th European Conference on the Spectroscopy of Biological Molecules 2011
Editors	Maria Marques, Luis Batista de Carvalho, Parvez Haris
Pages	47-51
Number of pages	5
DOIs	https://doi.org/10.3233/978-1-61499-184-7-047
State	Published - 27 Nov 2013

Publication series

Name	Advances in Biomedical Spectroscopy
Volume	7
ISSN (Print)	1875-0656

Keywords

FTIR-ATR
Fusarium
LDA
PCA
fungal detection

ASJC Scopus subject areas

Radiology Nuclear Medicine and imaging

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10.3233/978-1-61499-184-7-047

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Salman, A., Lapidot, I., Pomerantz, A., Tsror, L., Hammody, Z., Moreh, R., Huleihel, M., & Mordechai, S. (2013). Detection of Fusarium oxysporum fungal isolates using ATR spectroscopy. In M. Marques, L. Batista de Carvalho, & P. Haris (Eds.), Spectroscopy of Biological Molecules. Proceedings from the 14th European Conference on the Spectroscopy of Biological Molecules 2011 (pp. 47-51). (Advances in Biomedical Spectroscopy; Vol. 7). https://doi.org/10.3233/978-1-61499-184-7-047

Salman, A. ; Lapidot, I. ; Pomerantz, A. et al. / Detection of Fusarium oxysporum fungal isolates using ATR spectroscopy. Spectroscopy of Biological Molecules. Proceedings from the 14th European Conference on the Spectroscopy of Biological Molecules 2011. editor / Maria Marques ; Luis Batista de Carvalho ; Parvez Haris. 2013. pp. 47-51 (Advances in Biomedical Spectroscopy).

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abstract = "Fungi are considered as serious pathogens for many plants, potentially causing severe economic damage. Early detection and identification of these pathogens is crucial for their timely control. The methods available for identification of fungi are time consuming and not always very specific. In this study, the potential of FTIR-ATR spectroscopy was examined together with advanced mathematical principle component analysis (PCA) and statistical linear discriminant analysis (LDA) to differentiate among 10 isolates of Fusarium oxysporum. The results are encouraging and indicate that FTIR-ATR can successfully detect different isolates of Fusarium oxysporum. Based on PCA and LDA calculations in the region 850-1775 cm-1 with 16 PCs, the different strains from the same fungal genus could be classified with 75.3 and 69.5% success rates using the 'leave one out' method and '20-80% algorithm' respectively.",

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Salman, A, Lapidot, I, Pomerantz, A, Tsror, L, Hammody, Z, Moreh, R , Huleihel, M & Mordechai, S 2013, Detection of Fusarium oxysporum fungal isolates using ATR spectroscopy. in M Marques, L Batista de Carvalho & P Haris (eds), Spectroscopy of Biological Molecules. Proceedings from the 14th European Conference on the Spectroscopy of Biological Molecules 2011. Advances in Biomedical Spectroscopy, vol. 7, pp. 47-51. https://doi.org/10.3233/978-1-61499-184-7-047

Detection of Fusarium oxysporum fungal isolates using ATR spectroscopy. / Salman, A.; Lapidot, I.; Pomerantz, A. et al.
Spectroscopy of Biological Molecules. Proceedings from the 14th European Conference on the Spectroscopy of Biological Molecules 2011. ed. / Maria Marques; Luis Batista de Carvalho; Parvez Haris. 2013. p. 47-51 (Advances in Biomedical Spectroscopy; Vol. 7).

Research output: Chapter in Book/Report/Conference proceeding › Chapter › peer-review

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T1 - Detection of Fusarium oxysporum fungal isolates using ATR spectroscopy

AU - Salman, A.

AU - Lapidot, I.

AU - Pomerantz, A.

AU - Tsror, L.

AU - Hammody, Z.

AU - Moreh, R.

AU - Huleihel, M.

AU - Mordechai, S.

PY - 2013/11/27

Y1 - 2013/11/27

N2 - Fungi are considered as serious pathogens for many plants, potentially causing severe economic damage. Early detection and identification of these pathogens is crucial for their timely control. The methods available for identification of fungi are time consuming and not always very specific. In this study, the potential of FTIR-ATR spectroscopy was examined together with advanced mathematical principle component analysis (PCA) and statistical linear discriminant analysis (LDA) to differentiate among 10 isolates of Fusarium oxysporum. The results are encouraging and indicate that FTIR-ATR can successfully detect different isolates of Fusarium oxysporum. Based on PCA and LDA calculations in the region 850-1775 cm-1 with 16 PCs, the different strains from the same fungal genus could be classified with 75.3 and 69.5% success rates using the 'leave one out' method and '20-80% algorithm' respectively.

AB - Fungi are considered as serious pathogens for many plants, potentially causing severe economic damage. Early detection and identification of these pathogens is crucial for their timely control. The methods available for identification of fungi are time consuming and not always very specific. In this study, the potential of FTIR-ATR spectroscopy was examined together with advanced mathematical principle component analysis (PCA) and statistical linear discriminant analysis (LDA) to differentiate among 10 isolates of Fusarium oxysporum. The results are encouraging and indicate that FTIR-ATR can successfully detect different isolates of Fusarium oxysporum. Based on PCA and LDA calculations in the region 850-1775 cm-1 with 16 PCs, the different strains from the same fungal genus could be classified with 75.3 and 69.5% success rates using the 'leave one out' method and '20-80% algorithm' respectively.

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Salman A, Lapidot I, Pomerantz A, Tsror L, Hammody Z, Moreh R et al. Detection of Fusarium oxysporum fungal isolates using ATR spectroscopy. In Marques M, Batista de Carvalho L, Haris P, editors, Spectroscopy of Biological Molecules. Proceedings from the 14th European Conference on the Spectroscopy of Biological Molecules 2011. 2013. p. 47-51. (Advances in Biomedical Spectroscopy). doi: 10.3233/978-1-61499-184-7-047

Detection of Fusarium oxysporum fungal isolates using ATR spectroscopy

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