Inelastic scattering imaging system for Pseudocercospora fijiensis detection
- Published
- Accepted
- Subject Areas
- Spectroscopy, Biophysical Chemistry, Physical Chemistry (other)
- Keywords
- Inelastic Scattering, detection, banana crops, pseudocercospora fijiensis
- Copyright
- © 2019 Velez Alvarez et al.
- Licence
- This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ Preprints) and either DOI or URL of the article must be cited.
- Cite this article
- 2019. Inelastic scattering imaging system for Pseudocercospora fijiensis detection. PeerJ Preprints 7:e27808v1 https://doi.org/10.7287/peerj.preprints.27808v1
Abstract
This work sought to develop an inelastic scattering imaging system based on Raman spectroscopy for the detection of the fungal phytopathogen, Pseudocercospora fijiensis, which causes Black Sigatoka disease in banana crops, very important in Colombian agro-industrial economy. This system consists of a modified stereoscope with an optical setup able to simultaneously capture spectral images together with its Raman spectra. The camera has two different bandpass filters attached, centered in the spectral region of C=O stretching of Chitin and the equatorial bending vibration of beta-1,3-glucan, molecules of the fungal cell wall. In this way, the system can get images with unique spectral features, suitable for training a convolutional neural network in order to get a recognition pattern of the fungal strain growing in the PDA agar. As a result, the instrument was able to detect the presence of P.fijiensis over the culture media.
Author Comment
This work aims to produce a technological solution to the Colombian agricultural sector by developing an instrument based on inelastic scattering imaging, able to detect the presence of P.fijiensis a fungal phytopathogen that affects plantains crops in order to reduce the abuse of the fumigations with fungicides, this activity reduces the competitiveness of the product in environmental and health terms.
Supplemental Information
P.fijiensis spectral data
Raw spectrometer data
Python Code to Process Spectral Data
Spectral data processing tool
Image Processing Script
Image analysis and processing tool.