Rapid identification and discrimination of bacterial strains by laser induced breakdown spectroscopy and neural networks

Manzoor, Sadia; Moncayo, S.; Navarro-Villoslada, Fernando; Ayala, Juan A.; Izquierdo-Hornillos, R.; Villena, F. Javier Manuel de; Cáceres, J. O.

doi:10.1016/j.talanta.2013.12.057

Cited by 61 publications

(34 citation statements)

References 26 publications

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“…In addition to this, little or no sample preparation is needed. Successful discrimination of pathogenic from non-pathogenic bacteria has been achieved, including some multi-drug-resistant strains of bacteria including Staphylococcus aureus and other strains causing hospital-acquired infections (HAI) [112,132]. Another advantage of LIBSbased identification of pathogens is that bacterial LIBS spectra have been revealed not to change with time as the culture ages, or on abiotic surfaces, or in killed or inactivated specimens [133].…”

Section: Biological and Biomedical Applicationsmentioning

confidence: 99%

A critical review of recent progress in analytical laser-induced breakdown spectroscopy

Galbács

2015

Anal Bioanal Chem

161

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Laser-induced breakdown spectroscopy (LIBS) has become an established analytical atomic spectrometry technique and is valued for its very compelling set of advantageous analytical and technical characteristics. It is a rapid, versatile, non-contact technique, which is capable of providing qualitative and quantitative analytical information for practically any sample, in a virtually non-destructive way, without any substantial sample preparation. The instrumentation is simple, robust, compact, and even enables remote analysis. This review attempts to give a critical overview of the diverse progress of the field, focusing on the results of the last five years. The advancement of LIBS instrumentation and data evaluation is discussed in detail and selected results of some prominent applications are also described.

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Section: Biological and Biomedical Applicationsmentioning

confidence: 99%

A critical review of recent progress in analytical laser-induced breakdown spectroscopy

Galbács

2015

Anal Bioanal Chem

161

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“…Many label‐free methods have been implemented to identify bacteria, including laser‐induced breakdown spectroscopy (LIBS) , Fourier transform infrared (FT‐IR) spectroscopy , Raman spectroscopy , and autofluorescence . While each has their advantages, the use of Raman spectroscopy is beneficial as it is a nondestructive, label‐free technique that requires minimal sample preparation unlike other methods such as LIBS or FT‐IR.…”

Section: Introductionmentioning

confidence: 99%

Effect of growth media and phase on Raman spectra and discrimination of mycobacteria

Hanson

Bishop

Barney

et al. 2019

Journal of Biophotonics

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When developing a Raman spectral library to identify bacteria, differences between laboratory and real world conditions must be considered. For example, culturing bacteria in laboratory settings is performed under conditions for ideal bacteria growth. In contrast, culture conditions in the human body may differ and may not support optimized bacterial growth. To address these differences, researchers have studied the effect of conditions such as growth media and phase on Raman spectra. However, the majority of these studies focused on Gram-positive or Gram-negative bacteria. This article focuses on the influence of growth media and phase on Raman spectra and discrimination of mycobacteria, an acid-fast genus. Results showed that spectral differences from growth phase and media can be distinguished by spectral observation and multivariate analysis. Results were comparable to those found for other types of bacteria, such as Gram-positive and Gram-negative. In addition, the influence of growth phase and media had a significant impact on machine learning models and their resulting classification accuracy. This study highlights the need for machine learning models and their associated spectral libraries to account for various growth parameters and stages to further the transition of Raman spectral analysis of bacteria from laboratory to clinical settings. K E Y W O R D S discriminant analysis, environmental microbiology, mycobacteria, Raman spectroscopy

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“…A variety of label-free methods have been implemented to identify bacteria including laser-induced breakdown spectroscopy [16][17][18], Fourier transform infrared spectroscopy [19,20], Raman spectroscopy [1,21], and autofluorescence [22,23].…”

Section: Introductionmentioning

confidence: 99%

The use of microfluidics and dielectrophoresis for separation, concentration, and identification of bacteria

et al. 2016

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Traditional bacterial analyses take one to two days under favorable conditions where the bulk of the time is spent waiting for bacteria to divide and grow until visual colonies can be observed for identification. In the case of bacteria with slow doubling times, this process can take weeks. This delay in analysis is unacceptable, especially in cases of life threatening diseases or emergencies. It is clear that in order to decrease the analysis time of the bacteria, the culturing and growth step must be circumvented. The goal of this research is to design, build, and test a device that could decrease the analysis time of bacteria using label-free methods of dielectrophoresis and Raman spectroscopy.Testing for device design was performed with clinical samples in mind, which consist of bacteria grown in a variety of environmental conditions (i.e. available food sources, growth stage, temperature, etc.) and accompanied by sample debris. Raman spectra of bacteria grown in varying media and metabolic stages were collected and analyzed. Results indicate that growth phase and media have an impact on Raman spectra iv and is distinguishable by linear discriminant analysis (LDA). Despite these spectral differences, it was found that LDA classification of closely related bacteria remains fairly high (90%) regardless of growth phase. Sample debris were also considered in device design and accommodated for by dielectrophoresis. Devices were built with the goal to isolate bacteria from a mixed sample and simultaneously acquire Raman spectra for identification.For this dissertation, a device was designed, built, and tested that incorporates dielectrophoresis for particle isolation and Raman spectroscopy for identification. The device was modeled in COMSOL to ensure that an appropriate electrical field gradient could be obtained to isolate bacteria from 5 µm diameter polystyrene spheres. The device was built and successfully trapped bacteria away from polystyrene spheres and Raman spectra of the bacteria were collected while trapped. These results indicate a clear potential for contactless dielectrophoresis-Raman devices to isolate and identify bacteria from sample debris, and thereby decrease the analysis time of bacteria. Typical bacterial analysis involves culturing and visualizing colonies on an array of agar plates. The growth patterns and colors among the array are used to identify the bacteria. For fast growing bacteria such as Escherichia coli, analysis will take one to two days. However, slow growing bacteria such as mycobacteria can take weeks to identify.In addition, there are some species of bacteria that are viable but nonculturable. This lengthy analysis time is unacceptable for life-threatening infections and emergency situations. It is clear that to decrease the analysis of the bacteria, the culturing and growth steps must be avoided. The goal of this research is to design, build, and test a device that could decrease the analysis time of bacteria.

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Rapid identification and discrimination of bacterial strains by laser induced breakdown spectroscopy and neural networks

Cited by 61 publications

References 26 publications

A critical review of recent progress in analytical laser-induced breakdown spectroscopy

A critical review of recent progress in analytical laser-induced breakdown spectroscopy

Effect of growth media and phase on Raman spectra and discrimination of mycobacteria

The use of microfluidics and dielectrophoresis for separation, concentration, and identification of bacteria

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