Artificial neural network based identification of Campylobacter species by Fourier transform infrared spectroscopy

Mouwen, D.J.M.; Capita, Rosa; Alonso‐Calleja, Carlos; Prieto-Gómez, J.; Prieto, Miguel

doi:10.1016/j.mimet.2006.03.012

Cited by 40 publications

(15 citation statements)

References 29 publications

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“…1. FT-IR spectral features of C. jejuni but not Raman spectral features of C. jejuni have been investigated (34,35). The complementary (IR and Raman) spectral features provided more useful information about the biochemical components of the bacterial cell membrane than either alone.…”

Section: Resultsmentioning

confidence: 99%

Investigating Antibacterial Effects of Garlic (Allium sativum) Concentrate and Garlic-Derived Organosulfur Compounds on Campylobacter jejuni by Using Fourier Transform Infrared Spectroscopy, Raman Spectroscopy, and Electron Microscopy

Rasco

Jabal

et al. 2011

Appl Environ Microbiol

121

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Fourier transform infrared (FT-IR) spectroscopy and Raman spectroscopy were used to study the cell injury and inactivation of Campylobacter jejuni from exposure to antioxidants from garlic. C. jejuni was treated with various concentrations of garlic concentrate and garlic-derived organosulfur compounds in growth media and saline at 4, 22, and 35°C. The antimicrobial activities of the diallyl sulfides increased with the number of sulfur atoms (diallyl sulfide < diallyl disulfide < diallyl trisulfide). FT-IR spectroscopy confirmed that organosulfur compounds are responsible for the substantial antimicrobial activity of garlic, much greater than those of garlic phenolic compounds, as indicated by changes in the spectral features of proteins, lipids, and polysaccharides in the bacterial cell membranes. Confocal Raman microscopy (532-nm-gold-particle substrate) and Raman mapping of a single bacterium confirmed the intracellular uptake of sulfur and phenolic components. Scanning electron microscopy (SEM) and transmission electron microscopy (TEM) were employed to verify cell damage. Principal-component analysis (PCA), discriminant function analysis (DFA), and soft independent modeling of class analogs (SIMCA) were performed, and results were cross validated to differentiate bacteria based upon the degree of cell injury. Partial least-squares regression (PLSR) was employed to quantify and predict actual numbers of healthy and injured bacterial cells remaining following treatment. PLSR-based loading plots were investigated to further verify the changes in the cell membrane of C. jejuni treated with organosulfur compounds. We demonstrated that bacterial injury and inactivation could be accurately investigated by complementary infrared and Raman spectroscopies using a chemical-based, "whole-organism fingerprint" with the aid of chemometrics and electron microscopy.

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Section: Resultsmentioning

confidence: 99%

Investigating Antibacterial Effects of Garlic (Allium sativum) Concentrate and Garlic-Derived Organosulfur Compounds on Campylobacter jejuni by Using Fourier Transform Infrared Spectroscopy, Raman Spectroscopy, and Electron Microscopy

Rasco

Jabal

et al. 2011

Appl Environ Microbiol

121

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“…Since the two groundbreaking publications in Nature about the use of infrared spectroscopy (57) and Raman spectroscopy (61) to study microorganisms, these two techniques have been extensively employed to detect and discriminate different microorganisms and have been shown to be useful as real-time typing methods in bacterial epidemiology (3,7,33,34,36,37,48,49,59,60,65,77). Fourier-transformed infrared (FT-IR) spectroscopy, in combination with multivariate analyses, has been used to identify and discriminate C. jejuni and C. coli (54,55). Recently, complementary infrared and Raman spectral features of C. jejuni planktonic cells, sessile cells in biofilm, and biofilm extracellular polymeric substance were characterized by our lab (42,44).…”

mentioning

confidence: 99%

Comprehensive Detection and Discrimination of Campylobacter Species by Use of Confocal Micro-Raman Spectroscopy and Multilocus Sequence Typing

Huang

Miller

et al. 2012

J Clin Microbiol

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A novel strategy for the rapid detection and identification of traditional and emerging Campylobacter strains based upon Raman spectroscopy (532 nm) is presented here. A total of 200 reference strains and clinical isolates of 11 different Campylobacter species recovered from infected animals and humans from China and North America were used to establish a global Raman spectroscopy-based dendrogram model for Campylobacter identification to the species level and cross validated for its feasibility to predict Campylobacter -associated food-borne outbreaks. Bayesian probability coupled with Monte Carlo estimation was employed to validate the established Raman classification model on the basis of the selected principal components, mainly protein secondary structures, on the Campylobacter cell membrane. This Raman spectroscopy-based typing technique correlates well with multilocus sequence typing and has an average recognition rate of 97.21%. Discriminatory power for the Raman classification model had a Simpson index of diversity of 0.968. Intra- and interlaboratory reproducibility with different instrumentation yielded differentiation index values of 4.79 to 6.03 for wave numbers between 1,800 and 650 cm −1 and demonstrated the feasibility of using this spectroscopic method at different laboratories. Our Raman spectroscopy-based partial least-squares regression model could precisely discriminate and quantify the actual concentration of a specific Campylobacter strain in a bacterial mixture (regression coefficient, >0.98; residual prediction deviation, >7.88). A standard protocol for sample preparation, spectral collection, model validation, and data analyses was established for the Raman spectroscopic technique. Raman spectroscopy may have advantages over traditional genotyping methods for bacterial epidemiology, such as detection speed and accuracy of identification to the species level.

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“…Biovars FTIRS PCA, LDA [78] Xanthomonas oryzae Pathovars FTIRS - [79] Campilobacter spp. Genotype FTIRS ANN [82] www.advancedsciencenews.com www.biotechnology-journal.com (CVA) combined approach. [5,21] Some years later, Rebuffo et al [22] used a large and diverse collection of 277 isolates from five Listeria species and proved that this technique was able to successfully discriminate 96% of the isolates resourcing to an ANN.…”

Section: Bacteria Discrimination Level Infrared Technique Chemometricmentioning

confidence: 99%

“…genotypes. [82] Other studies successfully discriminated vegetative from sporulated Bacillus, [83] live and dead Salmonella cells, [63] intact and injured L. monocytogenes, [76,84] and P. mirabilis according to the lipopolyssacharide structure. [85] …”

Section: Bacterial Typing At the Subspecies Levelmentioning

confidence: 99%

An Overview of the Evolution of Infrared Spectroscopy Applied to Bacterial Typing

Quintelas

Ferreira

Lopes

et al. 2017

Biotechnology Journal

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The sustained emergence of new declared bacterial species makes typing a continuous challenge for microbiologists. Molecular biology techniques have a very significant role in the context of bacterial typing, but they are often very laborious, time consuming, and eventually fail when dealing with very closely related species. Spectroscopic-based techniques appear in some situations as a viable alternative to molecular methods with advantages in terms of analysis time and cost. Infrared and mass spectrometry are among the most exploited techniques in this context: particularly, infrared spectroscopy emerged as a very promising method with multiple reported successful applications. This article presents a systematic review on infrared spectroscopy applications for bacterial typing, highlighting fundamental aspects of infrared spectroscopy, a detailed literature review (covering different taxonomic levels and bacterial species), advantages, and limitations of the technique over molecular biology methods and a comparison with other competing spectroscopic techniques such as MALDI-TOF MS, Raman, and intrinsic fluorescence. Infrared spectroscopy possesses a high potential for bacterial typing at distinct taxonomic levels and worthy of further developments and systematization. The development of databases appears fundamental toward the establishment of infrared spectroscopy as a viable method for bacterial typing.

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Artificial neural network based identification of Campylobacter species by Fourier transform infrared spectroscopy

Cited by 40 publications

References 29 publications

Investigating Antibacterial Effects of Garlic (Allium sativum) Concentrate and Garlic-Derived Organosulfur Compounds on Campylobacter jejuni by Using Fourier Transform Infrared Spectroscopy, Raman Spectroscopy, and Electron Microscopy

Investigating Antibacterial Effects of Garlic (Allium sativum) Concentrate and Garlic-Derived Organosulfur Compounds on Campylobacter jejuni by Using Fourier Transform Infrared Spectroscopy, Raman Spectroscopy, and Electron Microscopy

Comprehensive Detection and Discrimination of Campylobacter Species by Use of Confocal Micro-Raman Spectroscopy and Multilocus Sequence Typing

An Overview of the Evolution of Infrared Spectroscopy Applied to Bacterial Typing

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