1
|
Kocsis E, Díaz de Tuesta JL, Sánchez J, Santamaría R, Moragas M, Herrera-León S, Cisterna R. Cluster of cases due to Shigella flexneri producing CTX-M-15 in Spain. Acta Microbiol Immunol Hung 2022; 69:345-350. [PMID: 36454544 DOI: 10.1556/030.2022.01902] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2022] [Accepted: 11/15/2022] [Indexed: 12/03/2022]
Abstract
The aim of our study was to delineate an outbreak of gastroenteritis caused by Shigella flexneri and affecting sixteen persons between May and June 2014 in Bilbao, Spain. All patients exhibited symptoms after consuming kebab in the same kebab shop.The outbreak is described through the clinical cases, the microbiological and molecular genetic diagnosis, and the epidemiologic investigation. Minimum inhibitory concentrations for ampicillin, amoxicillin plus clavulanic acid, third and fourth generation cephalosporins, carbapenems, monobactams, aminoglycosides, fluoroquinolones, co-trimoxazole, colistin and tigecycline were measured. The S. flexneri strains were screened by PCR for TEM, SHV, CTX-M beta-lactamases and plasmidic AmpCs and aac(6')-Ib gene. Serotyping, pulsed field gel-electrophoresis, conjugation assay, plasmid sizing by S1 enzyme digestion and Southern blot hybridization were accomplished.All the S. flexneri isolates proved to be serotype 2 and produced extended-spectrum beta-lactamase (ESBL). Carbapenems, fluoroquinolones, tigecycline, colistin, and co-trimoxazole remained active antibiotics. All the strains harboured blaCTX-M-15 and blaOXA-1 genes. The strains hosted two high-molecular weight plasmids of 100 and 230 kb, respectively. According to the hybridization assay blaCTX-M-15 was located on the plasmid of 230 kb. The identical pulsotype verified the presence of outbreak.Remarkable, that one of the food handlers has travelled recently to Pakistan, where ESBL-producing Shigella strains had been reported previously. To the best of our knowledge, this is the first outbreak caused by CTX-M-15-expressing S. flexneri in Spain and as well as in Europe.
Collapse
Affiliation(s)
- Erika Kocsis
- 1Clinical Microbiology and Infection Control, Basurto University Hospital, Avenida Montevideo 18, 48013, Bilbao, Spain.,2Medical Mycology Laboratory, Department of Plant Production and Microbiology, Campus of Sant Joan d'Alacant, University Miguel Hernández, Ctra. Alicante-Valencia N 332, 03550, Alicante, Spain
| | - José Luis Díaz de Tuesta
- 1Clinical Microbiology and Infection Control, Basurto University Hospital, Avenida Montevideo 18, 48013, Bilbao, Spain
| | - Juan Sánchez
- 1Clinical Microbiology and Infection Control, Basurto University Hospital, Avenida Montevideo 18, 48013, Bilbao, Spain
| | - Rosaura Santamaría
- 3Unit of Epidemiology of Bizkaia, Public Health, Basque Government, Alameda de Rekalde 39 A, 48008, Bilbao, Spain
| | - Manuel Moragas
- 4Department of Health and Consumer Affairs, Council of Bilbao, Calle Ugalde 7, 48012, Bilbao, Spain
| | - Silvia Herrera-León
- 5Unit of Enterobacteria, National Centre of Microbiology, Instituto de Salud Carlos III, Carretera de Majadahonda a Pozuelo km 2, 28220, Majadahonda, Madrid, Spain
| | - Ramón Cisterna
- 1Clinical Microbiology and Infection Control, Basurto University Hospital, Avenida Montevideo 18, 48013, Bilbao, Spain
| |
Collapse
|
2
|
Multiple fluorescent saltatory rolling circle amplification (SRCA) for simultaneous and sensitive detection of Salmonella spp. and Shigella spp. in food. Lebensm Wiss Technol 2022. [DOI: 10.1016/j.lwt.2022.113875] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
|
3
|
Chen X, Ma Y, Miao S. Visual detection of
Shigella
in milk by competitive annealing mediated isothermal amplification with paper‐based
DNA
extraction method. Int J Food Sci Technol 2022. [DOI: 10.1111/ijfs.15959] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Xu Chen
- Food Science College Shenyang Agricultural University Shenyang 110866 China
| | - Yue Ma
- Food Science College Shenyang Agricultural University Shenyang 110866 China
| | - Shuangyu Miao
- Food Science College Shenyang Agricultural University Shenyang 110866 China
| |
Collapse
|
4
|
Application of Melting Temperature in Melting Curve of qPCR to Determine Listeria monocytogenes Presence in Golden Needle Mushroom. J FOOD QUALITY 2022. [DOI: 10.1155/2022/1136105] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Abstract
This study developed a method to determine Listeria monocytogenes presence in golden needle mushrooms by melting temperature (Tm) in a melting curve of qPCR. For identical samples (n = 35), the results for L. monocytogenes presence determined by Tm values were compared with the results from a conventional detection method (culture-based procedures). The samples that showed the negative result in the conventional method were subsequently examined with the Tm value of qPCR. Tm values for Escherichia coli (87.5 ± 0.4°C), Salmonella (87.6 ± 0.1°C), Staphylococcus aureus (79.2 ± 0.0°C), Listeria innocua (80.5 ± 0.0°C), Listeria ivanovii (79.0 ± 0.4°C), Listeria welshimeri (78.8 ± 0.4°C), and Listeria monocytogenes (83.7 ± 0.2°C) were different, and thus, no similar Tm values of L. monocytogenes were observed with other bacteria. From 35 golden needle mushrooms, 26 samples (74.3%) were L. monocytogenes positive with Tm value of qPCR, but only 13 samples (37.1%) of 35 samples were L. monocytogenes positive using the conventional detection method. Of the samples that were positive with the Tm value of qPCR, but negative with the conventional detection method, 4 samples were selected randomly, and typical L. monocytogenes colonies were detected in CHROMagar. These results indicate that the Tm value in the melting curve of qPCR can be used to detect L. monocytogenes in golden needle mushrooms.
Collapse
|
5
|
Pakbin B, Zolghadr L, Rafiei S, Brück WM, Brück TB. FTIR differentiation based on genomic DNA for species identification of Shigella isolates from stool samples. Sci Rep 2022; 12:2780. [PMID: 35177783 PMCID: PMC8854563 DOI: 10.1038/s41598-022-06746-y] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2021] [Accepted: 02/01/2022] [Indexed: 12/13/2022] Open
Abstract
Shigellosis is one of the major public health concerns in developing and low-income countries caused by four species of Shigella. There is an apparent need to develop rapid, cost-effective, sensitive and specific methods for differentiation of Shigella species to be used in outbreaks and health surveillance systems. We developed a sensitive and specific Fourier-transform infrared spectroscopy (FTIR) based method followed by principal component analysis (PCA) and hierarchical clustering analysis (HCA) assays to differentiate four species of Shigella isolates from stool samples. The FTIR based method was evaluated by differentiation of 91 Shigella species from each other in clinical samples using both gold standards (culture-based and agglutination methods) and developed FTIR assay; eventually, the sensitivity and specificity of the developed method were calculated. In summary, four distinct FTIR spectra associated with four species of Shigella were obtained with wide variations in three definite regions, including 1800–1550 cm−1, 1550–1100 cm−1, and 1100–800 cm−1 distinguish these species from each other. In this study, we found the FTIR method followed by PCA analysis with specificity, sensitivity, differentiation error and correct differentiation rate values of 100, 100, 0 and 100%, respectively, for identification and differentiation of all species of the Shigella in stool samples.
Collapse
Affiliation(s)
- Babak Pakbin
- Medical Microbiology Research Center, Qazvin University of Medical Sciences, Qazvin, Iran.,Institute for Life Technologies, University of Applied Sciences Western Switzerland Valais-Wallis, 1950, Sion 2, Switzerland
| | - Leila Zolghadr
- Chemistry Department, Imam Khomeini International University, Qazvin, Iran
| | - Shahnaz Rafiei
- Chemistry Department, Imam Khomeini International University, Qazvin, Iran
| | - Wolfram Manuel Brück
- Institute for Life Technologies, University of Applied Sciences Western Switzerland Valais-Wallis, 1950, Sion 2, Switzerland.
| | - Thomas B Brück
- Werner Siemens Chair of Synthetic Biotechnology, Department of Chemistry, Technical University of Munich (TUM), Lichtenberg Str. 4, 85748, Garching bei München, Germany
| |
Collapse
|
6
|
He P, Wang H, Yan Y, Zhu G, Chen Z. Development and Application of a Multiplex Fluorescent PCR for Shigella Detection and Species Identification. J Fluoresc 2022; 32:707-713. [PMID: 35044573 DOI: 10.1007/s10895-021-02876-0] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2021] [Accepted: 12/17/2021] [Indexed: 11/25/2022]
Abstract
This study was to develop a multiplex fluorescent PCR for Shigella detection and species identification. Five primer pairs for Shigella detection and species identification were designed by Primer Premier 5.0. The multiplex fluorescent PCR was optimized by varying single parameter while other parameters were maintained. The multiplex fluorescent PCR assay could correctly detect Shigella and identify four Shigella species with a detection limits of 10 pg genomic DNA per reaction. Testing different strains and clinical samples confirmed the sensitivity and specificity of the multiplex fluorescent PCR. The newly developed multiplex fluorescent PCR assay is simple, sensitive and specific for Shigella detection and species identification. It has a potential to be used in routine Shigella detection and species identification in clinical laboratories.
Collapse
Affiliation(s)
- Peiyan He
- Jiaxing Center for Disease Control and Prevention, No. 486, Wen Qiao Road, Zhejiang, Jiaxing, 314050, China
| | - Henghui Wang
- Jiaxing Center for Disease Control and Prevention, No. 486, Wen Qiao Road, Zhejiang, Jiaxing, 314050, China
| | - Yong Yan
- Jiaxing Center for Disease Control and Prevention, No. 486, Wen Qiao Road, Zhejiang, Jiaxing, 314050, China
| | - Guoying Zhu
- Jiaxing Center for Disease Control and Prevention, No. 486, Wen Qiao Road, Zhejiang, Jiaxing, 314050, China
| | - Zhongwen Chen
- Jiaxing Center for Disease Control and Prevention, No. 486, Wen Qiao Road, Zhejiang, Jiaxing, 314050, China.
| |
Collapse
|
7
|
Pakbin B, Basti AA, Khanjari A, Brück WM, Azimi L, Karimi A. Development of high-resolution melting (HRM) assay to differentiate the species of Shigella isolates from stool and food samples. Sci Rep 2022; 12:473. [PMID: 35013489 PMCID: PMC8748861 DOI: 10.1038/s41598-021-04484-1] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2021] [Accepted: 12/23/2021] [Indexed: 11/09/2022] Open
Abstract
Shigella species, a group of intracellular foodborne pathogens, are the main causes of bacillary dysentery and shigellosis in humans worldwide. It is essential to determine the species of Shigella in outbreaks and food safety surveillance systems. The available immunological and molecular methods for identifying Shigella species are relatively complicated, expensive and time-consuming. High resolution melting (HRM) assay is a rapid, cost-effective, and easy to perform PCR-based method that has recently been used for the differentiation of bacterial species. In this study, we designed and developed a PCR-HRM assay targeting rrsA gene to distinguish four species of 49 Shigella isolates from clinical and food samples and evaluated the sensitivity and specificity of the assay. The assay demonstrated a good analytical sensitivity with 0.01–0.1 ng of input DNA template and an analytical specificity of 100% to differentiate the Shigella species. The PCR-HRM assay also was able to identify the species of all 49 Shigella isolates from clinical and food samples correctly. Consequently, this rapid and user-friendly method demonstrated good sensitivity and specificity to differentiate species of the Shigella isolates from naturally contaminated samples and has the potential to be implemented in public health and food safety surveillance systems.
Collapse
Affiliation(s)
- Babak Pakbin
- Institute for Life Technologies, University of Applied Sciences Western Switzerland Valais-Wallis, 1950 Sion 2, Sierre, Switzerland.,Department of Food Hygiene and Quality of Control, Faculty of Veterinary Medicine, University of Tehran, P.O. Box: 14155-6453, Tehran, Iran
| | - Afshin Akhondzadeh Basti
- Department of Food Hygiene and Quality of Control, Faculty of Veterinary Medicine, University of Tehran, P.O. Box: 14155-6453, Tehran, Iran.
| | - Ali Khanjari
- Department of Food Hygiene and Quality of Control, Faculty of Veterinary Medicine, University of Tehran, P.O. Box: 14155-6453, Tehran, Iran
| | - Wolfram Manuel Brück
- Institute for Life Technologies, University of Applied Sciences Western Switzerland Valais-Wallis, 1950 Sion 2, Sierre, Switzerland
| | - Leila Azimi
- Pediatric Infections Research Center, Research Institute of Children's Health, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Abdollah Karimi
- Pediatric Infections Research Center, Research Institute of Children's Health, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| |
Collapse
|
8
|
Selection and Characterization of Cell Surface Specific Aptamer and Development of Fluorescence Assay for Detection of Shigella flexneri from Water Samples. J Fluoresc 2021; 31:685-693. [PMID: 33582948 DOI: 10.1007/s10895-021-02691-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2020] [Accepted: 01/25/2021] [Indexed: 10/22/2022]
Abstract
The present study demonstrates, development of ssDNA aptamers against whole cell of S. flexneri employing a whole bacterium-based Systemic Evolution of Ligands by Exponential Enrichment (SELEX). After ten rounds of SELEX, cell surface specific aptamer pool was cloned, sequenced and divided based on sequence similarities and secondary structure. Binding affinity of FITC labelled aptamer from different group were carried out by flow cytometry analysis. The dissociation constant (Kd) values for specific and higher binder were evaluated to range from 144 to 329 nM. Six high binding aptamers with lower dissociation constant was chosen for selectivity study. Aptamer SHI 23, SHI 37 and SHI 42 showed higher selectivity towards S. flexneri in comparison with other related bacteria. Further applicability of selected aptamer was proven by fluorescence assay for convenience detection of target cell from spiked water sample and natural contaminated water samples. Altogether, aptamer generated in this study can be alternative DNA ligands for detection of S. flexneri compared to available ligands.
Collapse
|
9
|
Elahi N, Kamali M, Baghersad MH, Amini B. A fluorescence Nano-biosensors immobilization on Iron (MNPs) and gold (AuNPs) nanoparticles for detection of Shigella spp. MATERIALS SCIENCE & ENGINEERING. C, MATERIALS FOR BIOLOGICAL APPLICATIONS 2019; 105:110113. [DOI: 10.1016/j.msec.2019.110113] [Citation(s) in RCA: 49] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/10/2019] [Revised: 08/19/2019] [Accepted: 08/21/2019] [Indexed: 12/11/2022]
|
10
|
Foley DA, Tan CE, Donaldson A, Vos J, Hutton S, Balm MND. The design, validation and clinical verification of an in-house qualitative PCR to detect Yersinia enterocolitica and Yersinia pseudotuberculosis in faeces. Pathology 2019; 51:733-736. [PMID: 31607377 DOI: 10.1016/j.pathol.2019.08.001] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/01/2019] [Revised: 07/31/2019] [Accepted: 08/07/2019] [Indexed: 10/25/2022]
Abstract
Yersiniosis is a zoonotic foodborne infection of public health significance. The aim of this study was to design and validate a simple, accurate and cost-effective polymerase chain reaction (PCR) to detect pathogenic Yersinia spp. in faecal samples. An intercalating dye (EvaGreen)-based real-time multiplex PCR assay was designed to detect yadA, ystB and inv by melt curve analysis, allowing undifferentiated detection of all Yersinia enterocolitica biotypes, including biotype 1A, and Yersinia pseudotuberculosis. The assay was validated using cultured bacteria and clinical samples. A total of 107 positive and 51 negative samples were tested. The sensitivity and specificity was 98% and 100%. The limit of detection was 104-105 CFU/g faeces. A total of 605 samples (9 positive) were tested in the clinical verification with an accuracy and negative predictive value of 99% [95% confidence interval (CI) 97.9-99.6%] and 99.8% (95% CI 97.9-99.6%), respectively. This is an accurate, simple and cost-effective assay for the detection of pathogenic Yersinia spp.
Collapse
Affiliation(s)
- David Anthony Foley
- Wellington Southern Community Laboratories, Wellington Hospital, Wellington, New Zealand.
| | - Chor Ee Tan
- Wellington Southern Community Laboratories, Wellington Hospital, Wellington, New Zealand
| | - Arleen Donaldson
- Wellington Southern Community Laboratories, Wellington Hospital, Wellington, New Zealand
| | - Jade Vos
- Wellington Southern Community Laboratories, Wellington Hospital, Wellington, New Zealand
| | - Samantha Hutton
- Wellington Southern Community Laboratories, Wellington Hospital, Wellington, New Zealand
| | - Michelle N D Balm
- Wellington Southern Community Laboratories, Wellington Hospital, Wellington, New Zealand
| |
Collapse
|
11
|
Elahi N, Baghersad MH, Kamali M. Precise, direct, and rapid detection of Shigella Spa gene by a novel unmodified AuNPs-based optical genosensing system. J Microbiol Methods 2019; 162:42-49. [PMID: 31100315 DOI: 10.1016/j.mimet.2019.05.007] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2019] [Revised: 05/11/2019] [Accepted: 05/13/2019] [Indexed: 11/29/2022]
Abstract
Early detection of infectious bacteria is a necessity for combating infectious diseases. Due to low infectious dose of Shigella, rapid and sensitive detection is needed. Compared to the presented genes, Spa gene can be introduced as a novel sequence for all species of Shigella detection. Herein, the possibility of Spa genes for detection of four species of Shigella was investigated for the first time by AuNPs-based optical genosensing system. In this method, AuNP-DNA probes were hybridized with Spa gene sequence. When the complementary target is present, it prevents the aggregation of the complex under acid environment and the solution remains red whereas in the absence of the specific sequence, it turns to purple. Therefore, visual detection is possible with bare eye. The comparison of this Optical DNA biosensor and PCR-based method showed that the proposed method is simple, cost-effective, rapid operation, with high or comparable detection limit of (LOD and LOQ: 8.14 and 26.6 ng mLl-1, respectively), without need of any expensive techniques, and equipments compared to the conventional methods. In conclusion, the described method may develop into a platform that could be utilized for detection of various bacterial species with high accuracy and prompt screening of samples.
Collapse
Affiliation(s)
- Narges Elahi
- Nanobiotechnology Research Center, Baqiyatallah University of Medical Sciences, Tehran, Iran
| | - Mohammad Hadi Baghersad
- Applied Biotechnology Research Center, Baqiyatallah University of Medical Sciences, Tehran, Iran
| | - Mehdi Kamali
- Nanobiotechnology Research Center, Baqiyatallah University of Medical Sciences, Tehran, Iran.
| |
Collapse
|
12
|
Wei S, Park BJ, Kim SH, Seo KH, Jin YG, Oh DH. Detection of Listeria monocytogenes using Dynabeads® anti-Listeria combined with real-time PCR in soybean sprouts. Lebensm Wiss Technol 2019. [DOI: 10.1016/j.lwt.2018.10.023] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
|
13
|
Wang Z, Yang Q, Zhang Y, Meng Z, Ma X, Zhang W. Saltatory Rolling Circle Amplification (SRCA): a Novel Nucleic Acid Isothermal Amplification Technique Applied for Rapid Detection of Shigella Spp. in Vegetable Salad. FOOD ANAL METHOD 2017. [DOI: 10.1007/s12161-017-1021-0] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
|
14
|
Abia ALK, Ubomba-Jaswa E, Momba MNB. Competitive Survival of Escherichia coli, Vibrio cholerae, Salmonella typhimurium and Shigella dysenteriae in Riverbed Sediments. MICROBIAL ECOLOGY 2016; 72:881-889. [PMID: 27193001 DOI: 10.1007/s00248-016-0784-y] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/08/2016] [Accepted: 05/08/2016] [Indexed: 06/05/2023]
Abstract
Studies on the survival of bacterial enteric pathogens in riverbed sediments have mostly focused on individual organisms. Reports on the competitive survival of these pathogens in riverbed sediments under the same experimental setup are limited. We investigated the survival of Escherichia coli, Salmonella enterica ser. Typhimurium, Vibrio cholerae and Shigella dysenteriae in riverbed sediments of the Apies River. Experiments were performed in flow chambers containing three sediment types and connected to aquarium pumps immersed in river water to maintain continuous water circulation. Each chamber was inoculated with ~107 CFU/mL (final concentration) of each microorganism and kept at 4, 20 and 30 °C. Chambers were sampled on days 0, 1, 2, 7, 14 and 28. At 4 °C, only E. coli and S. typhimurium survived throughout the 28 experimental days. V. cholerae had the shortest survival time at this temperature and was not detected in any of the sediment chambers 24 h after inoculation. S. dysenteriae only survived until day 7. At an increased temperature of 20 °C, only S. dysenteriae was not detected on day 28 of the experiment. At 30 °C, V. cholerae and Salmonella survived longer (28 days) than E. coli (14 days) and S. dysenteriae (4 days). Vibrio cholerae was shown to have the highest T 90 values (32 days) in all sediment types at 20 and 30 °C. We conclude that the sediments of the Apies River present a favourable environment for the survival of indicator and pathogenic bacteria depending on the prevailing temperature.
Collapse
Affiliation(s)
- Akebe Luther King Abia
- Department of Environmental, Water and Earth Science, Tshwane University of Technology, Arcadia Campus, 175 Nelson Mandela Drive, Pretoria, 0001, South Africa.
| | - Eunice Ubomba-Jaswa
- Natural Resources and the Environment, CSIR, PO Box 395, Pretoria, 0001, South Africa
| | - Maggy Ndombo Benteke Momba
- Department of Environmental, Water and Earth Science, Tshwane University of Technology, Arcadia Campus, 175 Nelson Mandela Drive, Pretoria, 0001, South Africa.
| |
Collapse
|
15
|
Julian TR. Environmental transmission of diarrheal pathogens in low and middle income countries. ENVIRONMENTAL SCIENCE. PROCESSES & IMPACTS 2016; 18:944-955. [PMID: 27384220 DOI: 10.1039/c6em00222f] [Citation(s) in RCA: 51] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Every year, more than half a million children die due to diarrheal diseases. Recent studies have identified the most important etiologies of diarrheal disease are enterotoxigenic and enteropathogenic E. coli, Shigella spp., rotavirus, norovirus and Cryptosporidium spp. These etiologies are unsurprisingly characterized by a combination of high shedding, high infectivity, and transmissibility through multiple environmental reservoirs. The relative importance of the transmission routes is likely site-specific. So the impact of interventions, which typically target only one or two environmental reservoirs, is likely also site-specific. The factors influencing the transmission routes most important for diarrheal disease are complex, including - at a minimum - etiology of endemic disease; and water, sanitation, and hygiene infrastructure and practices. The site-specific nature - and complexity of transmission - helps explain the observed variation in impacts of water, sanitation, and hygiene interventions. It may also render efforts to estimate or quantify global means for interventions' impacts irrelevant. The theme of this Perspective is that greater reductions in diarrheal disease transmission in LMICs can be achieved by designing interventions to interrupt the most important environmental transmission pathways. Intervention choice should be informed by site-specific conditions, most notably: diarrheal etiology and existing water, sanitation, and hygiene infrastructure and practices. The theme is discussed through the lens of the characteristics of the most important diarrheal diseases (shedding, infectivity, growth, and persistence) and the general characteristics of environmental reservoirs (exposure pathways and fecal contamination). The discussion highlights when interventions - and combinations of interventions - will be most effective at reducing diarrheal disease burden.
Collapse
Affiliation(s)
- Timothy R Julian
- Pathogens and Human Health, Department of Environmental Microbiology, Swiss Federal Research Institute of Aquatic Science and Technology, Eawag, BU-F08, Überlandstrasse 133, 8600 Dübendorf, Switzerland.
| |
Collapse
|
16
|
He P, Zhu G, Luo J, Wang H, Yan Y, Chen L, Gao W, Chen Z. Development and Application of a One-Tube Multiplex Real-Time PCR with Melting Curve Analysis for Simultaneous Detection of Five Foodborne Pathogens in Food Samples. J Food Saf 2016. [DOI: 10.1111/jfs.12297] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Affiliation(s)
- Peiyan He
- Jiaxing Center for Disease Control and Prevention; Jiaxing 314050 P.R. China
| | - Guoying Zhu
- Jiaxing Center for Disease Control and Prevention; Jiaxing 314050 P.R. China
| | - Jianyong Luo
- Jiaxing Center for Disease Control and Prevention; Jiaxing 314050 P.R. China
| | - Henghui Wang
- Jiaxing Center for Disease Control and Prevention; Jiaxing 314050 P.R. China
| | - Yong Yan
- Jiaxing Center for Disease Control and Prevention; Jiaxing 314050 P.R. China
| | - Lixia Chen
- Jiaxing Center for Disease Control and Prevention; Jiaxing 314050 P.R. China
| | - Wenjie Gao
- Jiaxing Center for Disease Control and Prevention; Jiaxing 314050 P.R. China
| | - Zhongwen Chen
- Jiaxing Center for Disease Control and Prevention; Jiaxing 314050 P.R. China
| |
Collapse
|
17
|
Liang H, Zhang A, Wu Z, Cheng S, Yu W, Zhang W. Microbial Community Characteristics in Industrial Matured Chinese paocai, a Fermented Vegetable Food, from Different Factories. FOOD SCIENCE AND TECHNOLOGY RESEARCH 2016. [DOI: 10.3136/fstr.22.595] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Affiliation(s)
- Huipeng Liang
- College of Light Industry, Textile and Food Engineering, Sichuan University
| | - An Zhang
- College of Light Industry, Textile and Food Engineering, Sichuan University
| | - Zhengyun Wu
- College of Light Industry, Textile and Food Engineering, Sichuan University
| | - Shupin Cheng
- College of Light Industry, Textile and Food Engineering, Sichuan University
| | - Wenping Yu
- College of Light Industry, Textile and Food Engineering, Sichuan University
| | - Wenxue Zhang
- College of Light Industry, Textile and Food Engineering, Sichuan University
- School of Liquor-Making Engineering, Sichuan University Jinjiang College
| |
Collapse
|
18
|
Wang Y, Wang Y, Luo L, Liu D, Luo X, Xu Y, Hu S, Niu L, Xu J, Ye C. Rapid and Sensitive Detection of Shigella spp. and Salmonella spp. by Multiple Endonuclease Restriction Real-Time Loop-Mediated Isothermal Amplification Technique. Front Microbiol 2015; 6:1400. [PMID: 26697000 PMCID: PMC4677097 DOI: 10.3389/fmicb.2015.01400] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2015] [Accepted: 11/24/2015] [Indexed: 11/13/2022] Open
Abstract
Shigella and Salmonella are frequently isolated from various food samples and can cause human gastroenteritis. Here, a novel multiple endonuclease restriction real-time loop-mediated isothermal amplification technology (MERT-LAMP) were successfully established and validated for simultaneous detection of Shigella strains and Salmonella strains in only a single reaction. Two sets of MERT-LAMP primers for 2 kinds of pathogens were designed from ipaH gene of Shigella spp. and invA gene of Salmonella spp., respectively. Under the constant condition at 63°C, the positive results were yielded in as short as 12 min with the genomic DNA extracted from the 19 Shigella strains and 14 Salmonella strains, and the target pathogens present in a sample could be simultaneously identified based on distinct fluorescence curves in real-time format. Accordingly, the multiplex detection assay significantly reduced effort, materials and reagents used, and amplification and differentiation were conducted at the same time, obviating the use of postdetection procedures. The analytical sensitivity of MERT-LAMP was found to be 62.5 and 125 fg DNA/reaction with genomic templates of Shigella strains and Salmonella strains, which was consist with normal LAMP assay, and at least 10- and 100-fold more sensitive than that of qPCR and conventional PCR approaches. The limit of detection of MERT-LAMP for Shigella strains and Salmonella strains detection in artificially contaminated milk samples was 5.8 and 6.4 CFU per vessel. In conclusion, the MERT-LAMP methodology described here demonstrated a potential and valuable means for simultaneous screening of Shigella and Salmonella in a wide variety of samples.
Collapse
Affiliation(s)
- Yi Wang
- State Key Laboratory of Infectious Disease Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Chinese Center for Disease Control and Prevention, National Institute for Communicable Disease Control and Prevention Beijing, China
| | - Yan Wang
- State Key Laboratory of Infectious Disease Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Chinese Center for Disease Control and Prevention, National Institute for Communicable Disease Control and Prevention Beijing, China
| | - Lijuan Luo
- State Key Laboratory of Infectious Disease Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Chinese Center for Disease Control and Prevention, National Institute for Communicable Disease Control and Prevention Beijing, China
| | - Dongxin Liu
- Pathogenic Biology Institute, University of South China Hengyang, China
| | - Xia Luo
- State Key Laboratory of Infectious Disease Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Chinese Center for Disease Control and Prevention, National Institute for Communicable Disease Control and Prevention Beijing, China
| | - Yanmei Xu
- State Key Laboratory of Infectious Disease Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Chinese Center for Disease Control and Prevention, National Institute for Communicable Disease Control and Prevention Beijing, China
| | - Shoukui Hu
- State Key Laboratory of Infectious Disease Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Chinese Center for Disease Control and Prevention, National Institute for Communicable Disease Control and Prevention Beijing, China
| | - Lina Niu
- State Key Laboratory of Infectious Disease Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Chinese Center for Disease Control and Prevention, National Institute for Communicable Disease Control and Prevention Beijing, China ; School of Tropical and Laboratory Medicine, Hainan Medical University Haikou, China
| | - Jianguo Xu
- State Key Laboratory of Infectious Disease Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Chinese Center for Disease Control and Prevention, National Institute for Communicable Disease Control and Prevention Beijing, China
| | - Changyun Ye
- State Key Laboratory of Infectious Disease Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Chinese Center for Disease Control and Prevention, National Institute for Communicable Disease Control and Prevention Beijing, China
| |
Collapse
|
19
|
Wang L, Ye C, Xu H, Aguilar ZP, Xiong Y, Lai W, Wei H. Development of an SD-PMA-mPCR assay with internal amplification control for rapid and sensitive detection of viable Salmonella spp., Shigella spp. and Staphylococcus aureus in food products. Food Control 2015. [DOI: 10.1016/j.foodcont.2015.04.016] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
|
20
|
Efficient and Specific Detection of Salmonella in Food Samples Using a stn-Based Loop-Mediated Isothermal Amplification Method. BIOMED RESEARCH INTERNATIONAL 2015; 2015:356401. [PMID: 26543859 PMCID: PMC4620276 DOI: 10.1155/2015/356401] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Download PDF] [Subscribe] [Scholar Register] [Received: 12/18/2014] [Revised: 04/09/2015] [Accepted: 05/01/2015] [Indexed: 11/17/2022]
Abstract
The Salmonella enterotoxin (stn) gene exhibits high homology among S. enterica serovars and S. bongori. A set of 6 specific primers targeting the stn gene were designed for detection of Salmonella spp. using the loop-mediated isothermal amplification (LAMP) method. The primers amplified target sequences in all 102 strains of 87 serovars of Salmonella tested and no products were detected in 57 non-Salmonella strains. The detection limit in pure cultures was 5 fg DNA/reaction when amplified at 65°C for 25 min. The LAMP assay could detect Salmonella in artificially contaminated food samples as low as 220 cells/g of food without a preenrichment step. However, the sensitivity was increased 100-fold (~2 cells/g) following 5 hr preenrichment at 35°C. The LAMP technique, with a preenrichment step for 5 and 16 hr, was shown to give 100% specificity with food samples compared to the reference culture method in which 67 out of 90 food samples gave positive results. Different food matrixes did not interfere with LAMP detection which employed a simple boiling method for DNA template preparation. The results indicate that the LAMP method, targeting the stn gene, has great potential for detection of Salmonella in food samples with both high specificity and high sensitivity.
Collapse
|
21
|
Zhu W, Li Z, Liu X, Yan X, Deng L. Determination ofShigella flexneriby a Novel Fluorescent Aptasensor. ANAL LETT 2015. [DOI: 10.1080/00032719.2015.1052974] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
|
22
|
Schofield DA, Wray DJ, Molineux IJ. Isolation and development of bioluminescent reporter phages for bacterial dysentery. Eur J Clin Microbiol Infect Dis 2014; 34:395-403. [DOI: 10.1007/s10096-014-2246-0] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2014] [Accepted: 09/04/2014] [Indexed: 01/19/2023]
|
23
|
Zheng Q, Mikš-Krajnik M, Yang Y, Xu W, Yuk HG. Real-time PCR method combined with immunomagnetic separation for detecting healthy and heat-injured Salmonella Typhimurium on raw duck wings. Int J Food Microbiol 2014; 186:6-13. [PMID: 24974274 DOI: 10.1016/j.ijfoodmicro.2014.06.005] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2014] [Revised: 05/23/2014] [Accepted: 06/08/2014] [Indexed: 11/16/2022]
Abstract
Conventional culture detection methods are time consuming and labor-intensive. For this reason, an alternative rapid method combining real-time PCR and immunomagnetic separation (IMS) was investigated in this study to detect both healthy and heat-injured Salmonella Typhimurium on raw duck wings. Firstly, the IMS method was optimized by determining the capture efficiency of Dynabeads(®) on Salmonella cells on raw duck wings with different bead incubation (10, 30 and 60 min) and magnetic separation (3, 10 and 30 min) times. Secondly, three Taqman primer sets, Sal, invA and ttr, were evaluated to optimize the real-time PCR protocol by comparing five parameters: inclusivity, exclusivity, PCR efficiency, detection probability and limit of detection (LOD). Thirdly, the optimized real-time PCR, in combination with IMS (PCR-IMS) assay, was compared with a standard ISO and a real-time PCR (PCR) method by analyzing artificially inoculated raw duck wings with healthy and heat-injured Salmonella cells at 10(1) and 10(0) CFU/25 g. Finally, the optimized PCR-IMS assay was validated for Salmonella detection in naturally contaminated raw duck wing samples. Under optimal IMS conditions (30 min bead incubation and 3 min magnetic separation times), approximately 85 and 64% of S. Typhimurium cells were captured by Dynabeads® from pure culture and inoculated raw duck wings, respectively. Although Sal and ttr primers exhibited 100% inclusivity and exclusivity for 16 Salmonella spp. and 36 non-Salmonella strains, the Sal primer showed lower LOD (10(3) CFU/ml) and higher PCR efficiency (94.1%) than the invA and ttr primers. Moreover, for Sal and invA primers, 100% detection probability on raw duck wings suspension was observed at 10(3) and 10(4) CFU/ml with and without IMS, respectively. Thus, the Sal primer was chosen for further experiments. The optimized PCR-IMS method was significantly (P=0.0011) better at detecting healthy Salmonella cells after 7-h enrichment than traditional PCR method. However there was no significant difference between the two methods with longer enrichment time (14 h). The diagnostic accuracy of PCR-IMS was shown to be 98.3% through the validation study. These results indicate that the optimized PCR-IMS method in this study could provide a sensitive, specific and rapid detection method for Salmonella on raw duck wings, enabling 10-h detection. However, a longer enrichment time could be needed for resuscitation and reliable detection of heat-injured cells.
Collapse
Affiliation(s)
- Qianwang Zheng
- Food Science & Technology Programme, Department of Chemistry, National University of Singapore, Science Drive 4, 117543, Singapore
| | - Marta Mikš-Krajnik
- Food Science & Technology Programme, Department of Chemistry, National University of Singapore, Science Drive 4, 117543, Singapore; Chair of Industrial and Food Microbiology, Faculty of Food Science, University of Warmia and Mazury in Olsztyn, Plac Cieszyński 1, 10-726 Olsztyn, Poland
| | - Yishan Yang
- Food Science & Technology Programme, Department of Chemistry, National University of Singapore, Science Drive 4, 117543, Singapore
| | - Wang Xu
- Department of Chemistry, National University of Singapore, Science Drive 4, 117543, Singapore
| | - Hyun-Gyun Yuk
- Food Science & Technology Programme, Department of Chemistry, National University of Singapore, Science Drive 4, 117543, Singapore; National University of Singapore (Suzhou) Research Institute, No. 377 Linquan Street, Suzhou Industrial Park, Suzhou, Jiangsu 215123, China.
| |
Collapse
|
24
|
Rapid detection of Shigella and enteroinvasive Escherichia coli in produce enrichments by a conventional multiplex PCR assay. Food Microbiol 2014; 40:48-54. [DOI: 10.1016/j.fm.2013.12.001] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2013] [Revised: 12/03/2013] [Accepted: 12/10/2013] [Indexed: 11/21/2022]
|
25
|
Wang Y, Zhao P, Zhang H, Chen W, Su X, Suo B. A simple and rapid realtime PCR assay for the detection of Shigella and Escherichia coli species in raw milk. J Verbrauch Lebensm 2013. [DOI: 10.1007/s00003-013-0837-9] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
|
26
|
Multiplex real-time PCR for detection of Campylobacter, Salmonella, and Shigella. J Clin Microbiol 2013; 51:2822-9. [PMID: 23761159 DOI: 10.1128/jcm.01397-13] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022] Open
Abstract
Infectious diarrhea can be classified based on its clinical presentation as noninflammatory or inflammatory disease. In developing countries, among inflammatory diarrhea cases, Shigella is the most common cause, followed by Campylobacter and Salmonella. Because the time frame in which treatment choices must be made is short and conventional stool cultures lack good sensitivity, there is a need for a rapid, sensitive, and inexpensive detection technique. The purpose of our study was to develop a multiplex real-time PCR procedure to simultaneously identify Campylobacter spp., Salmonella spp., and Shigella spp. Primers were designed to amplify the invA, ipaH, and 16S rRNA genes simultaneously in a single reaction to detect Salmonella, Shigella, and Campylobacter, respectively. Using this approach, we correctly identified 102 of 103 strains of the targeted enteropathogens and 34 of 34 other pathogens. The melting temperatures were 82.96 ± 0.05 °C for invA, 85.56 ± 0.28 °C for ipaH, and 89.21 ± 0.24 °C for 16S rRNA. The limit of accurate quantification for the assay in stool samples was 10(4) CFU g(-1); however, the limit of detection was 10(3) CFU g(-1). This assay is a simple, rapid, inexpensive, and reliable system for the practical detection of these three enteropathogens in clinical specimens.
Collapse
|