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Rahman MF, Islam A, Islam MM, Mamun MA, Xu L, Sakamoto T, Sato T, Takahashi Y, Kahyo T, Aoyagi S, Kaibuchi K, Setou M. Mass Spectrometry Imaging Combined with Sparse Autoencoder Method Reveals Altered Phosphorylcholine Distribution in Imipramine Treated Wild-Type Mice Brains. Int J Mol Sci 2024; 25:7969. [PMID: 39063212 PMCID: PMC11276679 DOI: 10.3390/ijms25147969] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2024] [Revised: 07/15/2024] [Accepted: 07/19/2024] [Indexed: 07/28/2024] Open
Abstract
Mass spectrometry imaging (MSI) is essential for visualizing drug distribution, metabolites, and significant biomolecules in pharmacokinetic studies. This study mainly focuses on imipramine, a tricyclic antidepressant that affects endogenous metabolite concentrations. The aim was to use atmospheric pressure matrix-assisted laser desorption/ionization (AP-MALDI)-MSI combined with different dimensionality reduction methods to examine the distribution and impact of imipramine on endogenous metabolites in the brains of treated wild-type mice. Brain sections from both control and imipramine-treated mice underwent AP-MALDI-MSI. Dimensionality reduction methods, including principal component analysis, multivariate curve resolution, and sparse autoencoder (SAE), were employed to extract valuable information from the MSI data. Only the SAE method identified phosphorylcholine (ChoP) as a potential marker distinguishing between the control and treated mice brains. Additionally, a significant decrease in ChoP accumulation was observed in the cerebellum, hypothalamus, thalamus, midbrain, caudate putamen, and striatum ventral regions of the treated mice brains. The application of dimensionality reduction methods, particularly the SAE method, to the AP-MALDI-MSI data is a novel approach for peak selection in AP-MALDI-MSI data analysis. This study revealed a significant decrease in ChoP in imipramine-treated mice brains.
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Affiliation(s)
- Md Foyzur Rahman
- Department of Cellular and Molecular Anatomy, Hamamatsu University School of Medicine, 1-20-1 Handayama, Chuo-ku, Hamamatsu 431-3192, Shizuoka, Japan
| | - Ariful Islam
- Department of Cellular and Molecular Anatomy, Hamamatsu University School of Medicine, 1-20-1 Handayama, Chuo-ku, Hamamatsu 431-3192, Shizuoka, Japan
| | - Md. Monirul Islam
- Department of Cellular and Molecular Anatomy, Hamamatsu University School of Medicine, 1-20-1 Handayama, Chuo-ku, Hamamatsu 431-3192, Shizuoka, Japan
| | - Md. Al Mamun
- Department of Cellular and Molecular Anatomy, Hamamatsu University School of Medicine, 1-20-1 Handayama, Chuo-ku, Hamamatsu 431-3192, Shizuoka, Japan
- Preppers Co., Ltd., 1-20-1 Handayama, Chuo-ku, Hamamatsu 431-3192, Shizuoka, Japan
| | - Lili Xu
- Department of Cellular and Molecular Anatomy, Hamamatsu University School of Medicine, 1-20-1 Handayama, Chuo-ku, Hamamatsu 431-3192, Shizuoka, Japan
| | - Takumi Sakamoto
- Department of Cellular and Molecular Anatomy, Hamamatsu University School of Medicine, 1-20-1 Handayama, Chuo-ku, Hamamatsu 431-3192, Shizuoka, Japan
- Preppers Co., Ltd., 1-20-1 Handayama, Chuo-ku, Hamamatsu 431-3192, Shizuoka, Japan
| | - Tomohito Sato
- Department of Cellular and Molecular Anatomy, Hamamatsu University School of Medicine, 1-20-1 Handayama, Chuo-ku, Hamamatsu 431-3192, Shizuoka, Japan
| | - Yutaka Takahashi
- Department of Cellular and Molecular Anatomy, Hamamatsu University School of Medicine, 1-20-1 Handayama, Chuo-ku, Hamamatsu 431-3192, Shizuoka, Japan
- Preppers Co., Ltd., 1-20-1 Handayama, Chuo-ku, Hamamatsu 431-3192, Shizuoka, Japan
| | - Tomoaki Kahyo
- Department of Cellular and Molecular Anatomy, Hamamatsu University School of Medicine, 1-20-1 Handayama, Chuo-ku, Hamamatsu 431-3192, Shizuoka, Japan
- Quantum Imaging Laboratory, Division of Research and Development in Photonics Technology/International Mass Imaging and Spatial Omics Center, Institute of Photonics Medicine, Hamamatsu University School of Medicine, 1-20-1 Handayama, Chuo-ku, Hamamatsu 431-3192, Shizuoka, Japan
| | - Satoka Aoyagi
- Faculty of Science and Technology, Seikei University, 3-3-1 Kichijoji-kitamachi, Musashino-shi 180-8633, Tokyo, Japan
| | - Kozo Kaibuchi
- Division of Cell Biology, International Center for Brain Science, Fujita Health University, Toyoake 470-1192, Aichi, Japan
| | - Mitsutoshi Setou
- Department of Cellular and Molecular Anatomy, Hamamatsu University School of Medicine, 1-20-1 Handayama, Chuo-ku, Hamamatsu 431-3192, Shizuoka, Japan
- International Mass Imaging and Spatial Omics Center, Institute of Photonics Medicine, Hamamatsu University School of Medicine, 1-20-1 Handayama, Chuo-ku, Hamamatsu 431-3192, Shizuoka, Japan
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Bitto V, Hönscheid P, Besso MJ, Sperling C, Kurth I, Baumann M, Brors B. Enhancing mass spectrometry imaging accessibility using convolutional autoencoders for deriving hypoxia-associated peptides from tumors. NPJ Syst Biol Appl 2024; 10:57. [PMID: 38802379 PMCID: PMC11130291 DOI: 10.1038/s41540-024-00385-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2024] [Accepted: 05/13/2024] [Indexed: 05/29/2024] Open
Abstract
Mass spectrometry imaging (MSI) allows to study cancer's intratumoral heterogeneity through spatially-resolved peptides, metabolites and lipids. Yet, in biomedical research MSI is rarely used for biomarker discovery. Besides its high dimensionality and multicollinearity, mass spectrometry (MS) technologies typically output mass-to-charge ratio values but not the biochemical compounds of interest. Our framework makes particularly low-abundant signals in MSI more accessible. We utilized convolutional autoencoders to aggregate features associated with tumor hypoxia, a parameter with significant spatial heterogeneity, in cancer xenograft models. We highlight that MSI captures these low-abundant signals and that autoencoders can preserve them in their latent space. The relevance of individual hyperparameters is demonstrated through ablation experiments, and the contribution from original features to latent features is unraveled. Complementing MSI with tandem MS from the same tumor model, multiple hypoxia-associated peptide candidates were derived. Compared to random forests alone, our autoencoder approach yielded more biologically relevant insights for biomarker discovery.
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Affiliation(s)
- Verena Bitto
- Division of Applied Bioinformatics, German Cancer Research Center (DKFZ), Heidelberg, Germany.
- Division of Radiooncology/Radiobiology, German Cancer Research Center (DKFZ), Heidelberg, Germany.
- HIDSS4Health - Helmholtz Information and Data Science School for Health, Karlsruhe/Heidelberg, Heidelberg, Germany.
- Faculty for Mathematics and Computer Science, Heidelberg University, Heidelberg, Germany.
| | - Pia Hönscheid
- National Center for Tumor Diseases (NCT), Partner Site Dresden, German Cancer Research Center (DKFZ), Heidelberg, Germany
- University Hospital Carl Gustav Carus (UKD), Technische Universität Dresden, Institute of Pathology, Dresden, Germany
- Faculty of Medicine and University Hospital Carl Gustav Carus, Technische Universität Dresden, Dresden, Germany
| | - María José Besso
- Division of Radiooncology/Radiobiology, German Cancer Research Center (DKFZ), Heidelberg, Germany
| | - Christian Sperling
- National Center for Tumor Diseases (NCT), Partner Site Dresden, German Cancer Research Center (DKFZ), Heidelberg, Germany
- University Hospital Carl Gustav Carus (UKD), Technische Universität Dresden, Institute of Pathology, Dresden, Germany
- Faculty of Medicine and University Hospital Carl Gustav Carus, Technische Universität Dresden, Dresden, Germany
| | - Ina Kurth
- Division of Radiooncology/Radiobiology, German Cancer Research Center (DKFZ), Heidelberg, Germany
- OncoRay - National Center for Radiation Research in Oncology, Faculty of Medicine and University Hospital Carl Gustav Carus, Technische Universität Dresden, Helmholtz-Zentrum Dresden - Rossendorf, Dresden, Germany
- German Cancer Consortium (DKTK), Core Center Heidelberg, Heidelberg, Germany
| | - Michael Baumann
- Division of Radiooncology/Radiobiology, German Cancer Research Center (DKFZ), Heidelberg, Germany
- OncoRay - National Center for Radiation Research in Oncology, Faculty of Medicine and University Hospital Carl Gustav Carus, Technische Universität Dresden, Helmholtz-Zentrum Dresden - Rossendorf, Dresden, Germany
- German Cancer Consortium (DKTK), Core Center Heidelberg, Heidelberg, Germany
| | - Benedikt Brors
- Division of Applied Bioinformatics, German Cancer Research Center (DKFZ), Heidelberg, Germany
- German Cancer Consortium (DKTK), Core Center Heidelberg, Heidelberg, Germany
- National Center for Tumor Diseases (NCT), Heidelberg, Germany
- Medical Faculty Heidelberg and Faculty of Biosciences, Heidelberg University, Heidelberg, Germany
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Mohammad N, Naudion P, Dia AK, Boëlle PY, Konaté A, Konaté L, Niang EHA, Piarroux R, Tannier X, Nabet C. Predicting the age of field Anopheles mosquitoes using mass spectrometry and deep learning. SCIENCE ADVANCES 2024; 10:eadj6990. [PMID: 38728404 PMCID: PMC11086620 DOI: 10.1126/sciadv.adj6990] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2023] [Accepted: 04/08/2024] [Indexed: 05/12/2024]
Abstract
Mosquito-borne diseases like malaria are rising globally, and improved mosquito vector surveillance is needed. Survival of Anopheles mosquitoes is key for epidemiological monitoring of malaria transmission and evaluation of vector control strategies targeting mosquito longevity, as the risk of pathogen transmission increases with mosquito age. However, the available tools to estimate field mosquito age are often approximate and time-consuming. Here, we show a rapid method that combines matrix-assisted laser desorption/ionization-time-of-flight mass spectrometry with deep learning for mosquito age prediction. Using 2763 mass spectra from the head, legs, and thorax of 251 field-collected Anopheles arabiensis mosquitoes, we developed deep learning models that achieved a best mean absolute error of 1.74 days. We also demonstrate consistent performance at two ecological sites in Senegal, supported by age-related protein changes. Our approach is promising for malaria control and the field of vector biology, benefiting other disease vectors like Aedes mosquitoes.
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Affiliation(s)
- Noshine Mohammad
- Sorbonne Université, Inserm, Institut Pierre-Louis d’Epidémiologie et de Santé Publique, IPLESP, AP-HP, Groupe Hospitalier Pitié-Salpêtrière, Service de Parasitologie-Mycologie, 75013 Paris, France
| | - Pauline Naudion
- Sorbonne Université, Inserm, Institut Pierre-Louis d’Epidémiologie et de Santé Publique, IPLESP, AP-HP, Groupe Hospitalier Pitié-Salpêtrière, Service de Parasitologie-Mycologie, 75013 Paris, France
| | - Abdoulaye Kane Dia
- Laboratoire d'Ecologie Vectorielle et Parasitaire (LEVP), Faculté des Sciences et Techniques, Université Cheikh Anta Diop de Dakar, BP 5005 Dakar, Senegal
| | - Pierre-Yves Boëlle
- Sorbonne Université, Inserm, Institut Pierre Louis d'Épidémiologie et de Santé Publique, IPLESP, 75012 Paris, France
| | - Abdoulaye Konaté
- Laboratoire d'Ecologie Vectorielle et Parasitaire (LEVP), Faculté des Sciences et Techniques, Université Cheikh Anta Diop de Dakar, BP 5005 Dakar, Senegal
| | - Lassana Konaté
- Laboratoire d'Ecologie Vectorielle et Parasitaire (LEVP), Faculté des Sciences et Techniques, Université Cheikh Anta Diop de Dakar, BP 5005 Dakar, Senegal
| | - El Hadji Amadou Niang
- Laboratoire d'Ecologie Vectorielle et Parasitaire (LEVP), Faculté des Sciences et Techniques, Université Cheikh Anta Diop de Dakar, BP 5005 Dakar, Senegal
| | - Renaud Piarroux
- Sorbonne Université, Inserm, Institut Pierre-Louis d’Epidémiologie et de Santé Publique, IPLESP, AP-HP, Groupe Hospitalier Pitié-Salpêtrière, Service de Parasitologie-Mycologie, 75013 Paris, France
| | - Xavier Tannier
- Sorbonne Université, Inserm, Université Sorbonne Paris Nord, Laboratoire d’Informatique Médicale et d’Ingénierie des Connaissances pour la e-Santé, LIMICS, 75006 Paris, France
| | - Cécile Nabet
- Sorbonne Université, Inserm, Institut Pierre-Louis d’Epidémiologie et de Santé Publique, IPLESP, AP-HP, Groupe Hospitalier Pitié-Salpêtrière, Service de Parasitologie-Mycologie, 75013 Paris, France
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Dichtl K, Klugherz I, Greimel H, Luxner J, Köberl J, Friedl S, Steinmetz I, Leitner E. A head-to-head comparison of three MALDI-TOF mass spectrometry systems with 16S rRNA gene sequencing. J Clin Microbiol 2023; 61:e0191322. [PMID: 37732759 PMCID: PMC10595064 DOI: 10.1128/jcm.01913-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2023] [Accepted: 07/17/2023] [Indexed: 09/22/2023] Open
Abstract
Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) has revolutionized diagnostics in culture-based microbiology. Commonly used MALDI-TOF MS systems in clinical microbiology laboratories are MALDI Biotyper (Bruker Daltonics) and Vitek MS (bioMérieux), but recently the new EXS2600 (Zybio) has been launched. This study aimed to evaluate the performance of the three devices by comparing the results to 16S rRNA gene sequencing. A set of 356 previously collected difficult-to-identify bacteria was tested in parallel with the three systems. Only the direct smear method and simple formic acid extraction were applied. Valid results were achieved for 98.6%, 94.4%, and 93.3% of all isolates by MALDI Biotyper, EXS2600, and Vitek MS, respectively. Of all valid results, agreement with sequencing data was achieved in 98.9%, 98.5%, and 99.7% by MALDI Biotyper, EXS2600, and Vitek MS, respectively. Considering only the isolates with valid measurements at the single-species level, misidentification rates were 0%, 2.6%, and 1.1% for MALDI Biotyper, EXS2600, and Vitek MS, respectively. Apart from minor performance differences, our data demonstrate that the three systems provide comparable results and are suitable for use in medical diagnostic laboratories.
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Affiliation(s)
- Karl Dichtl
- Diagnostic and Research Institute of Hygiene, Microbiology and Environmental Medicine, Medical University of Graz , Graz, Austria
| | - Isabel Klugherz
- Diagnostic and Research Institute of Hygiene, Microbiology and Environmental Medicine, Medical University of Graz , Graz, Austria
| | - Hanna Greimel
- Diagnostic and Research Institute of Hygiene, Microbiology and Environmental Medicine, Medical University of Graz , Graz, Austria
| | - Josefa Luxner
- Diagnostic and Research Institute of Hygiene, Microbiology and Environmental Medicine, Medical University of Graz , Graz, Austria
| | - Julian Köberl
- Diagnostic and Research Institute of Hygiene, Microbiology and Environmental Medicine, Medical University of Graz , Graz, Austria
| | - Simone Friedl
- Diagnostic and Research Institute of Hygiene, Microbiology and Environmental Medicine, Medical University of Graz , Graz, Austria
| | - Ivo Steinmetz
- Diagnostic and Research Institute of Hygiene, Microbiology and Environmental Medicine, Medical University of Graz , Graz, Austria
| | - Eva Leitner
- Diagnostic and Research Institute of Hygiene, Microbiology and Environmental Medicine, Medical University of Graz , Graz, Austria
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Wang F, Ni W, Liu S, Xu Z, Qiu Z, Wan Z. A 2D image 3D reconstruction function adaptive denoising algorithm. PeerJ Comput Sci 2023; 9:e1604. [PMID: 37810338 PMCID: PMC10557518 DOI: 10.7717/peerj-cs.1604] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2023] [Accepted: 08/29/2023] [Indexed: 10/10/2023]
Abstract
To address the issue of image denoising algorithms blurring image details during the denoising process, we propose an adaptive denoising algorithm for the 3D reconstruction of 2D images. This algorithm takes into account the inherent visual characteristics of human eyes and divides the image into regions based on the entropy value of each region. The background region is subject to threshold denoising, while the target region undergoes processing using an adversarial generative network. This network effectively handles 2D target images with noise and generates a 3D model of the target. The proposed algorithm aims to enhance the noise immunity of 2D images during the 3D reconstruction process and ensure that the constructed 3D target model better preserves the original image's detailed information. Through experimental testing on 2D images and real pedestrian videos contaminated with noise, our algorithm demonstrates stable preservation of image details. The reconstruction effect is evaluated in terms of noise reduction and the fidelity of the 3D model to the original target. The results show an average noise reduction exceeding 95% while effectively retaining most of the target's feature information in the original image. In summary, our proposed adaptive denoising algorithm improves the 3D reconstruction process by preserving image details that are often compromised by conventional denoising techniques. This has significant implications for enhancing image quality and maintaining target information fidelity in 3D models, providing a promising approach for addressing the challenges associated with noise reduction in 2D images during 3D reconstruction.
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Affiliation(s)
- Feng Wang
- Guangzhou Xinhua University, Dongguan, Guangdong, China
| | - Weichuan Ni
- Guangzhou Xinhua University, Dongguan, Guangdong, China
| | - Shaojiang Liu
- Guangzhou Xinhua University, Dongguan, Guangdong, China
| | - Zhiming Xu
- Guangzhou Xinhua University, Dongguan, Guangdong, China
| | - Zemin Qiu
- Guangzhou Xinhua University, Dongguan, Guangdong, China
| | - Zhiping Wan
- Guangzhou Xinhua University, Dongguan, Guangdong, China
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Uvarova YE, Demenkov PS, Kuzmicheva IN, Venzel AS, Mischenko EL, Ivanisenko TV, Efimov VM, Bannikova SV, Vasilieva AR, Ivanisenko VA, Peltek SE. Accurate noise-robust classification of Bacillus species from MALDI-TOF MS spectra using a denoising autoencoder. J Integr Bioinform 2023; 20:jib-2023-0017. [PMID: 37978847 PMCID: PMC10757077 DOI: 10.1515/jib-2023-0017] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2023] [Accepted: 07/10/2023] [Indexed: 11/19/2023] Open
Abstract
Bacillus strains are ubiquitous in the environment and are widely used in the microbiological industry as valuable enzyme sources, as well as in agriculture to stimulate plant growth. The Bacillus genus comprises several closely related groups of species. The rapid classification of these remains challenging using existing methods. Techniques based on MALDI-TOF MS data analysis hold significant promise for fast and precise microbial strains classification at both the genus and species levels. In previous work, we proposed a geometric approach to Bacillus strain classification based on mass spectra analysis via the centroid method (CM). One limitation of such methods is the noise in MS spectra. In this study, we used a denoising autoencoder (DAE) to improve bacteria classification accuracy under noisy MS spectra conditions. We employed a denoising autoencoder approach to convert noisy MS spectra into latent variables representing molecular patterns in the original MS data, and the Random Forest method to classify bacterial strains by latent variables. Comparison of the DAE-RF with the CM method using the artificially noisy test samples showed that DAE-RF offers higher noise robustness. Hence, the DAE-RF method could be utilized for noise-robust, fast, and neat classification of Bacillus species according to MALDI-TOF MS data.
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Affiliation(s)
- Yulia E. Uvarova
- Federal Research Center Institute of Cytology and Genetics SB RAS, 630090Novosibirsk, Russia
| | - Pavel S. Demenkov
- Federal Research Center Institute of Cytology and Genetics SB RAS, 630090Novosibirsk, Russia
- Kurchatov Center for Genome Research, Institute of Cytology and Genetics SB RAS, 630090Novosibirsk, Russia
- Novosibirsk State University, 630090Novosibirsk, Russia
| | | | - Artur S. Venzel
- Federal Research Center Institute of Cytology and Genetics SB RAS, 630090Novosibirsk, Russia
- Novosibirsk State University, 630090Novosibirsk, Russia
| | - Elena L. Mischenko
- Federal Research Center Institute of Cytology and Genetics SB RAS, 630090Novosibirsk, Russia
| | - Timofey V. Ivanisenko
- Federal Research Center Institute of Cytology and Genetics SB RAS, 630090Novosibirsk, Russia
- Kurchatov Center for Genome Research, Institute of Cytology and Genetics SB RAS, 630090Novosibirsk, Russia
| | - Vadim M. Efimov
- Federal Research Center Institute of Cytology and Genetics SB RAS, 630090Novosibirsk, Russia
| | - Svetlana V. Bannikova
- Federal Research Center Institute of Cytology and Genetics SB RAS, 630090Novosibirsk, Russia
| | - Asya R. Vasilieva
- Federal Research Center Institute of Cytology and Genetics SB RAS, 630090Novosibirsk, Russia
| | - Vladimir A. Ivanisenko
- Federal Research Center Institute of Cytology and Genetics SB RAS, 630090Novosibirsk, Russia
- Kurchatov Center for Genome Research, Institute of Cytology and Genetics SB RAS, 630090Novosibirsk, Russia
- Novosibirsk State University, 630090Novosibirsk, Russia
| | - Sergey E. Peltek
- Federal Research Center Institute of Cytology and Genetics SB RAS, 630090Novosibirsk, Russia
- Kurchatov Center for Genome Research, Institute of Cytology and Genetics SB RAS, 630090Novosibirsk, Russia
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Osek J, Lachtara B, Wieczorek K. Listeria monocytogenes in foods-From culture identification to whole-genome characteristics. Food Sci Nutr 2022; 10:2825-2854. [PMID: 36171778 PMCID: PMC9469866 DOI: 10.1002/fsn3.2910] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2022] [Revised: 04/06/2022] [Accepted: 04/19/2022] [Indexed: 12/03/2022] Open
Abstract
Listeria monocytogenes is an important foodborne pathogen, which is able to persist in the food production environments. The presence of these bacteria in different niches makes them a potential threat for public health. In the present review, the current information on the classical and alternative methods used for isolation and identification of L. monocytogenes in food have been described. Although these techniques are usually simple, standardized, inexpensive, and are routinely used in many food testing laboratories, several alternative molecular-based approaches for the bacteria detection in food and food production environments have been developed. They are characterized by the high sample throughput, a short time of analysis, and cost-effectiveness. However, these methods are important for the routine testing toward the presence and number of L. monocytogenes, but are not suitable for characteristics and typing of the bacterial isolates, which are crucial in the study of listeriosis infections. For these purposes, novel approaches, with a high discriminatory power to genetically distinguish the strains during epidemiological studies, have been developed, e.g., whole-genome sequence-based techniques such as NGS which provide an opportunity to perform comparison between strains of the same species. In the present review, we have shown a short description of the principles of microbiological, alternative, and modern methods of detection of L. monocytogenes in foods and characterization of the isolates for epidemiological purposes. According to our knowledge, similar comprehensive papers on such subject have not been recently published, and we hope that the current review may be interesting for research communities.
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Affiliation(s)
- Jacek Osek
- Department of Hygiene of Food of Animal OriginNational Veterinary Research InstitutePuławyPoland
| | - Beata Lachtara
- Department of Hygiene of Food of Animal OriginNational Veterinary Research InstitutePuławyPoland
| | - Kinga Wieczorek
- Department of Hygiene of Food of Animal OriginNational Veterinary Research InstitutePuławyPoland
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Zhang Y, Li Z, Su W, Zhong G, Zhang X, Wu Y, Situ B, Xiao Y, Yan X, Zheng L. A highly sensitive and versatile fluorescent biosensor for pathogen nucleic acid detection based on toehold-mediated strand displacement initiated primer exchange reaction. Anal Chim Acta 2022; 1221:340125. [DOI: 10.1016/j.aca.2022.340125] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2022] [Revised: 05/25/2022] [Accepted: 06/23/2022] [Indexed: 01/03/2023]
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