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Zubova G, Melnyk H, Zaets I, Sergeyeva T, Havryliuk O, Rogalsky S, Khirunenko L, Zaika L, Ruban T, Antonenko S, Kozyrovska N. Halochromic Bacterial Cellulose/Anthocyanins Hybrid Polymer Film with Wound-Healing Potential. Polymers (Basel) 2024; 16:2327. [PMID: 39204547 PMCID: PMC11359050 DOI: 10.3390/polym16162327] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2024] [Revised: 07/09/2024] [Accepted: 07/19/2024] [Indexed: 09/04/2024] Open
Abstract
Polymer-based dressings deriving from natural biomaterials have advantages such as nontoxicity, biocompatibility, and mechanical stability, which are essential for efficient wound healing and microbial infection diagnostics. Here, we designed a prototype of an intelligent hydrogel dressing on the base of bacterial cellulose (BC) for monitoring wound microbial infection due to the uploaded natural pH dye-sensor, anthocyanins (ANC) of elderberry fruit (Sambucus nigra L.). The highest sensor responses to bacterial metabolites for ANC immobilized to BC were observed at pH 5.0 and 6.0. The detection limit of the sensor signals was 3.45 A.U., as it was evaluated with a smartphone-installed application. The FTIR spectral analysis of the hybrid BC/ANC hydrogel films has proved the presence of anthocyanins within the BC matrix. Hybrid films differed from the control ones by thicker microfibrils and larger pores, as detected with scanning electron microscopy. Halochromic BC/ANC films exhibited antimicrobial activities mainly against gram-positive bacteria and yeast. They showed no cytotoxicity for the in vitro human cell lines and mouse fibroblasts within a selected range of anthocyanin concentrations released from the BC/ANC film/dressing prototype. Compared to the control, the in vitro healing test showed overgrowth of primary mouse fibroblasts after applying 0.024-2.4 µg/mL ANC.
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Affiliation(s)
- Ganna Zubova
- Institute of Molecular Biology and Genetics, National Academy of Sciences of Ukraine, 150, Zabolotnogo Str., 03143 Kyiv, Ukraine; (H.M.); (I.Z.); (T.S.); (L.Z.); (S.A.); (N.K.)
| | - Hanna Melnyk
- Institute of Molecular Biology and Genetics, National Academy of Sciences of Ukraine, 150, Zabolotnogo Str., 03143 Kyiv, Ukraine; (H.M.); (I.Z.); (T.S.); (L.Z.); (S.A.); (N.K.)
| | - Iryna Zaets
- Institute of Molecular Biology and Genetics, National Academy of Sciences of Ukraine, 150, Zabolotnogo Str., 03143 Kyiv, Ukraine; (H.M.); (I.Z.); (T.S.); (L.Z.); (S.A.); (N.K.)
| | - Tetyana Sergeyeva
- Institute of Molecular Biology and Genetics, National Academy of Sciences of Ukraine, 150, Zabolotnogo Str., 03143 Kyiv, Ukraine; (H.M.); (I.Z.); (T.S.); (L.Z.); (S.A.); (N.K.)
| | - Olesia Havryliuk
- Department of Extremophilic Microorganisms Biology, D. K. Zabolotny Institute of Microbiology and Virology of the National Academy of Sciences of Ukraine, 154 Zabolotnogo St., 03143 Kyiv, Ukraine;
| | - Sergiy Rogalsky
- V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry, National Academy of Sciences of Ukraine, Academician Kukhar Str. 1, 02094 Kyiv, Ukraine;
| | - Lyudmila Khirunenko
- Institute of Physics, National Academy of Sciences of Ukraine, 46 Nauky Ave., 03680 Kyiv, Ukraine;
| | - Leonid Zaika
- Institute of Molecular Biology and Genetics, National Academy of Sciences of Ukraine, 150, Zabolotnogo Str., 03143 Kyiv, Ukraine; (H.M.); (I.Z.); (T.S.); (L.Z.); (S.A.); (N.K.)
| | - Tetiana Ruban
- Institute of Molecular Biology and Genetics, National Academy of Sciences of Ukraine, 150, Zabolotnogo Str., 03143 Kyiv, Ukraine; (H.M.); (I.Z.); (T.S.); (L.Z.); (S.A.); (N.K.)
| | - Svitlana Antonenko
- Institute of Molecular Biology and Genetics, National Academy of Sciences of Ukraine, 150, Zabolotnogo Str., 03143 Kyiv, Ukraine; (H.M.); (I.Z.); (T.S.); (L.Z.); (S.A.); (N.K.)
| | - Natalia Kozyrovska
- Institute of Molecular Biology and Genetics, National Academy of Sciences of Ukraine, 150, Zabolotnogo Str., 03143 Kyiv, Ukraine; (H.M.); (I.Z.); (T.S.); (L.Z.); (S.A.); (N.K.)
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Robi DT, Mossie T, Temteme S. A Comprehensive Review of the Common Bacterial Infections in Dairy Calves and Advanced Strategies for Health Management. VETERINARY MEDICINE (AUCKLAND, N.Z.) 2024; 15:1-14. [PMID: 38288284 PMCID: PMC10822132 DOI: 10.2147/vmrr.s452925] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 12/02/2023] [Accepted: 01/16/2024] [Indexed: 01/31/2024]
Abstract
Dairy farming faces a significant challenge of bacterial infections in dairy calves, which can have detrimental effects on their health and productivity. This review offers a comprehensive overview of the most prevalent bacterial infections in dairy calves, including Escherichia coli, Salmonella typhimurium, Salmonella dublin, Salmonella enterica, Clostridium perfringens, Pasteurella multocida, Listeria monocytogenes, Mycoplasma bovis, and Haemophilus somnus. These pathogens can cause various clinical signs and symptoms, leading to diarrhea, respiratory distress, septicemia, and even mortality. Factors such as management practices, environmental conditions, and herd health influence the incidence and severity of the infections. Efficient management and prevention strategies include good colostrum and nutrient feeding, early detection, appropriate treatment, hygiene practices, and supportive care. Regular health monitoring and diagnostic tests facilitate early detection and intervention. The use of antibiotics should be judicious to prevent antimicrobial resistance and supportive care such as fluid therapy and nutritional support promotes recovery. Diagnostic methods, including immunological tests, culture, polymerase chain reaction (PCR), and serology, aid in the identification of specific pathogens. This review also explores recent advancements in the diagnosis, treatment, and prevention of bacterial infections in dairy calves, providing valuable insights for dairy farmers, veterinarians, and researchers. By synthesizing pertinent scientific literature, this review contributes to the development of effective strategies aimed at mitigating the impact of bacterial infections on the health, welfare, and productivity of young calves. Moreover, more research is required to enhance the understanding of the epidemiology and characterization of bacterial infections in dairy calves.
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Affiliation(s)
- Dereje Tulu Robi
- Ethiopian Institute of Agricultural Research, Tepi Agricultural Research Center, Tepi, Ethiopia
| | - Tesfa Mossie
- Ethiopian Institute of Agriculture Research, Jimma Agriculture Research Center, Jimma, Ethiopia
| | - Shiferaw Temteme
- Ethiopian Institute of Agricultural Research, Tepi Agricultural Research Center, Tepi, Ethiopia
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Liu J, Lu D, Wang J. A simple, sensitive and colorimetric assay for Pseudomonas aeruginosa infection analysis. Biotechniques 2023; 75:210-217. [PMID: 37881830 DOI: 10.2144/btn-2023-0030] [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] [Indexed: 10/27/2023] Open
Abstract
Skin and soft tissue infections caused by Pseudomonas aeruginosa are common acquired diseases in postpartum care. Many methods have been developed in recent years for detecting P. aeruginosa, but they are criticized for the drawbacks of labor-intensiveness, complicated operation and high cost. Here, a simple, sensitive and colorimetric assay for P. aeruginosa detection is described. The approach displays a green color for positive samples and colorless for target-free samples. The approach exhibits a wide detection range and a low limit of detection of 45 CFU/ml. Thus, the developed ligation-initiated multiple-signal amplification method may be used for on-site testing of pathogenic bacteria and assist in the early diagnosis of postpartum care skin infections.
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Affiliation(s)
- Jie Liu
- Obstetric Clinic, Chatu Hospital, the Fourth Hospital of Shijiazhuang City, Shijiazhuang City, Hebei Province, 050000, China
| | - Dan Lu
- Department of Gynecology, Chatu Hospital, the Fourth Hospital of Shijiazhuang City, Shijiazhuang City, Hebei Province, 050000, China
| | - Junyuan Wang
- Department of Gynecology, Chatu Hospital, the Fourth Hospital of Shijiazhuang City, Shijiazhuang City, Hebei Province, 050000, China
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Kim TY, Kim S, Jung JH, Woo MA. Paper-Based Radial Flow Assay Integrated to Portable Isothermal Amplification Chip Platform for Colorimetric Detection of Target DNA. BIOCHIP JOURNAL 2023; 17:1-11. [PMID: 37363267 PMCID: PMC10134700 DOI: 10.1007/s13206-023-00101-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/30/2022] [Revised: 02/22/2023] [Accepted: 03/21/2023] [Indexed: 06/28/2023]
Abstract
A novel integrated detection system that introduces a paper-chip-based molecular detection strategy into a polydimethylsiloxane (PDMS) microchip and temperature control system was developed for on-site colorimetric detection of DNA. For the paper chip-based detection strategy, a padlock probe DNA (PLP)-mediated rolling circle amplification (RCA) reaction for signal amplification and a radial flow assay according to the Au-probe labeling strategy for visualization were optimized and applied for DNA detection. In the PDMS chip, the reactions for ligation of target-dependent PLP, RCA, and labeling were performed one-step under isothermal temperature in a single chamber, and one drop of the final reaction solution was loaded onto the paper chip to form a radial colorimetric signal. To create an optimal analysis environment, not only the optimization of molecular reactions for DNA detection but also the chamber shape of the PDMS chip and temperature control system were successfully verified. Our results indicate that a detection limit of 14.7 nM of DNA was achieved, and non-specific DNAs with a single-base mismatch at the target DNA were selectively discriminated. This integrated detection system can be applied not only for single nucleotide polymorphism identification, but also for pathogen gene detection. The adoption of inexpensive paper and PDMS chips allows the fabrication of cost-effective detection systems. Moreover, it is very suitable for operation in various resource-limited locations by adopting a highly portable and user-friendly detection method that minimizes the use of large and expensive equipment. Supplementary Information The online version contains supplementary material available at 10.1007/s13206-023-00101-7.
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Affiliation(s)
- Tai-Yong Kim
- Research Group of Food Safety and Distribution, Korea Food Research Institution, Wanju-Gun, Jeollabuk-do 55365 Republic of Korea
- Department of Food Science and Technology, Jeonbuk National University, Jeonju-si, Jeollabuk-do 54896 Republic of Korea
| | - Sanha Kim
- Department of Pharmaceutical Engineering, Dankook University, Cheonan-si, Chungcheongnam-do 31116 Republic of Korea
| | - Jae Hwan Jung
- Department of Pharmaceutical Engineering, Dankook University, Cheonan-si, Chungcheongnam-do 31116 Republic of Korea
| | - Min-Ah Woo
- Research Group of Food Safety and Distribution, Korea Food Research Institution, Wanju-Gun, Jeollabuk-do 55365 Republic of Korea
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Qu LL, Ying YL, Yu RJ, Long YT. In situ food-borne pathogen sensors in a nanoconfined space by surface enhanced Raman scattering. Mikrochim Acta 2021; 188:201. [PMID: 34041602 PMCID: PMC8154335 DOI: 10.1007/s00604-021-04864-4] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2021] [Accepted: 05/13/2021] [Indexed: 01/04/2023]
Abstract
The incidence of disease arising from food-borne pathogens is increasing continuously and has become a global public health problem. Rapid and accurate identification of food-borne pathogens is essential for adopting disease intervention strategies and controlling the spread of epidemics. Surface-enhanced Raman spectroscopy (SERS) has attracted increasing interest due to the attractive features including simplicity, rapid measurement, and high sensitivity. It can be used for rapid in situ sensing of single and multicomponent samples within the nanostructure-based confined space by providing molecular fingerprint information and has been demonstrated to be an effective detection strategy for pathogens. This article aims to review the application of SERS to the rapid sensing of food-borne pathogens in food matrices. The mechanisms and advantages of SERS, and detection strategies are briefly discussed. The latest progress on the use of SERS for rapid detection of food-borne bacteria and viruses is considered, including both the labeled and label-free detection strategies. In closing, according to the current situation regarding detection of food-borne pathogens, the review highlights the challenges faced by SERS and the prospects for new applications in food safety. In this review, the advances on the SERS detection of pathogens over the past decades have been reviewed, focusing on the improvements in sensitivity, reproducibility, specificity, and the performance of the SERS-based assay in complex analytical scenarios. ![]()
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Affiliation(s)
- Lu-Lu Qu
- School of Chemistry and Materials Science, Jiangsu Normal University, 221116, Xuzhou, People's Republic of China.
| | - Yi-Lun Ying
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, People's Republic of China
| | - Ru-Jia Yu
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, People's Republic of China.
| | - Yi-Tao Long
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, People's Republic of China
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Kolbeck PJ, Vanderlinden W, Gemmecker G, Gebhardt C, Lehmann M, Lak A, Nicolaus T, Cordes T, Lipfert J. Molecular structure, DNA binding mode, photophysical properties and recommendations for use of SYBR Gold. Nucleic Acids Res 2021; 49:5143-5158. [PMID: 33905507 PMCID: PMC8136779 DOI: 10.1093/nar/gkab265] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2021] [Revised: 03/29/2021] [Accepted: 04/05/2021] [Indexed: 01/08/2023] Open
Abstract
SYBR Gold is a commonly used and particularly bright fluorescent DNA stain, however, its chemical structure is unknown and its binding mode to DNA remains controversial. Here, we solve the structure of SYBR Gold by NMR and mass spectrometry to be [2-[N-(3-dimethylaminopropyl)-N-propylamino]-4-[2,3-dihydro-3-methyl-(benzo-1,3-thiazol-2-yl)-methylidene]-1-phenyl-quinolinium] and determine its extinction coefficient. We quantitate SYBR Gold binding to DNA using two complementary approaches. First, we use single-molecule magnetic tweezers (MT) to determine the effects of SYBR Gold binding on DNA length and twist. The MT assay reveals systematic lengthening and unwinding of DNA by 19.1° ± 0.7° per molecule upon binding, consistent with intercalation, similar to the related dye SYBR Green I. We complement the MT data with spectroscopic characterization of SYBR Gold. The data are well described by a global binding model for dye concentrations ≤2.5 μM, with parameters that quantitatively agree with the MT results. The fluorescence increases linearly with the number of intercalated SYBR Gold molecules up to dye concentrations of ∼2.5 μM, where quenching and inner filter effects become relevant. In summary, we provide a mechanistic understanding of DNA-SYBR Gold interactions and present practical guidelines for optimal DNA detection and quantitative DNA sensing applications using SYBR Gold.
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Affiliation(s)
- Pauline J Kolbeck
- Department of Physics and Center for NanoScience, LMU Munich, Amalienstrasse 54, 80799 Munich, Germany
| | - Willem Vanderlinden
- Department of Physics and Center for NanoScience, LMU Munich, Amalienstrasse 54, 80799 Munich, Germany
| | - Gerd Gemmecker
- Bavarian NMR Center (BNMRZ), Department of Chemistry, Technical University of Munich, Garching, Germany
| | - Christian Gebhardt
- Physical and Synthetic Biology, Faculty of Biology, LMU Munich, Planegg-Martinsried, Germany
| | - Martin Lehmann
- Plant Molecular Biology, Faculty of Biology, LMU Munich, Planegg-Martinsried, Germany
| | - Aidin Lak
- Department of Physics and Center for NanoScience, LMU Munich, Amalienstrasse 54, 80799 Munich, Germany
| | - Thomas Nicolaus
- Department of Physics and Center for NanoScience, LMU Munich, Amalienstrasse 54, 80799 Munich, Germany
| | - Thorben Cordes
- Physical and Synthetic Biology, Faculty of Biology, LMU Munich, Planegg-Martinsried, Germany
| | - Jan Lipfert
- Department of Physics and Center for NanoScience, LMU Munich, Amalienstrasse 54, 80799 Munich, Germany
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Curk T, Brackley CA, Farrell JD, Xing Z, Joshi D, Direito S, Bren U, Angioletti-Uberti S, Dobnikar J, Eiser E, Frenkel D, Allen RJ. Computational design of probes to detect bacterial genomes by multivalent binding. Proc Natl Acad Sci U S A 2020; 117:8719-8726. [PMID: 32241887 PMCID: PMC7183166 DOI: 10.1073/pnas.1918274117] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023] Open
Abstract
Rapid methods for diagnosis of bacterial infections are urgently needed to reduce inappropriate use of antibiotics, which contributes to antimicrobial resistance. In many rapid diagnostic methods, DNA oligonucleotide probes, attached to a surface, bind to specific nucleotide sequences in the DNA of a target pathogen. Typically, each probe binds to a single target sequence; i.e., target-probe binding is monovalent. Here we show using computer simulations that the detection sensitivity and specificity can be improved by designing probes that bind multivalently to the entire length of the pathogen genomic DNA, such that a given probe binds to multiple sites along the target DNA. Our results suggest that multivalent targeting of long pieces of genomic DNA can allow highly sensitive and selective binding of the target DNA, even if competing DNA in the sample also contains binding sites for the same probe sequences. Our results are robust to mild fragmentation of the bacterial genome. Our conclusions may also be relevant for DNA detection in other fields, such as disease diagnostics more broadly, environmental management, and food safety.
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Affiliation(s)
- Tine Curk
- Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China
- Faculty of Chemistry and Chemical Engineering, University of Maribor, Maribor 2000, Slovenia
- School of Physics and Astronomy, University of Edinburgh, Edinburgh EH9 3FD, United Kingdom
| | - Chris A Brackley
- School of Physics and Astronomy, University of Edinburgh, Edinburgh EH9 3FD, United Kingdom
| | - James D Farrell
- Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China
| | - Zhongyang Xing
- Cavendish Laboratory, University of Cambridge, Cambridge CB3 0HE, United Kingdom
| | - Darshana Joshi
- Cavendish Laboratory, University of Cambridge, Cambridge CB3 0HE, United Kingdom
| | - Susana Direito
- School of Physics and Astronomy, University of Edinburgh, Edinburgh EH9 3FD, United Kingdom
| | - Urban Bren
- Faculty of Chemistry and Chemical Engineering, University of Maribor, Maribor 2000, Slovenia
| | | | - Jure Dobnikar
- Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China
- Department of Chemistry, University of Cambridge, Cambridge CB2 1EW, United Kingdom
- Songshan Lake Materials Laboratory, Dongguan, Guangdong 523808, China
| | - Erika Eiser
- Cavendish Laboratory, University of Cambridge, Cambridge CB3 0HE, United Kingdom
| | - Daan Frenkel
- Department of Chemistry, University of Cambridge, Cambridge CB2 1EW, United Kingdom
| | - Rosalind J Allen
- School of Physics and Astronomy, University of Edinburgh, Edinburgh EH9 3FD, United Kingdom;
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Kim JH, Jung S, Oh SW. Combination of bacteria concentration and DNA concentration for rapid detection of E. coli O157:H7, L. monocytogenes, and S. Typhimurium without microbial enrichment. Lebensm Wiss Technol 2020. [DOI: 10.1016/j.lwt.2019.108609] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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10
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Ohkubo Y, Uchida K, Motoshima H, Katano N. Species-specific real-time PCR assay for enumeration of Anoxybacillus flavithermus and Geobacillus stearothermophilus spores in dairy products. Int Dairy J 2019. [DOI: 10.1016/j.idairyj.2019.01.015] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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11
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Pushpakanth P, John Kennedy Z, Balachandar D. Source tracking of Shiga-like toxin-producing Escherichia coli in the fresh vegetable production system of South India. ANN MICROBIOL 2019. [DOI: 10.1007/s13213-019-01479-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022] Open
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SAMAD ABDUL, ABBAS FERHAT, TANVEER ZUNERA, AHMAD ZAFAR, AHMAD IRSHAD, PATCHING SIMONG, NAWAZ NIGHAT, ASMAT MUHAMMADTAUSEEF, RAZIQ ABDUL, LAH ASADUL, SHEIKH IRFANSHAHZAD, NAEEM MUHAMMAD, POKRYSHKO OLENA, MUSTAFA MOHAMMADZAHID. Prevalence of Salmonella spp. in chicken meat from Quetta retail outlets and typing through multiplex PCR. ROMANIAN BIOTECHNOLOGICAL LETTERS 2019. [DOI: 10.25083/rbl/24.2/271.279] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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13
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Tubia I, Prasad K, Pérez-Lorenzo E, Abadín C, Zumárraga M, Oyanguren I, Barbero F, Paredes J, Arana S. Beverage spoilage yeast detection methods and control technologies: A review of Brettanomyces. Int J Food Microbiol 2018; 283:65-76. [DOI: 10.1016/j.ijfoodmicro.2018.06.020] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2018] [Revised: 06/21/2018] [Accepted: 06/25/2018] [Indexed: 12/28/2022]
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Frasao BDS, Marin VA, Conte-Junior CA. Molecular Detection, Typing, and Quantification ofCampylobacterspp. in Foods of Animal Origin. Compr Rev Food Sci Food Saf 2017; 16:721-734. [DOI: 10.1111/1541-4337.12274] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2017] [Revised: 05/11/2017] [Accepted: 05/17/2017] [Indexed: 01/28/2023]
Affiliation(s)
- Beatriz da Silva Frasao
- Dept. of Food Technology; Fluminense Federal Univ. (UFF) 24.230-340; Niteroi RJ Brazil
- Dept. of Epidemiology and Public Health; Federal Rural Univ. of Rio de Janeiro (UFRRJ), 23.897-000; Seropédica RJ Brazil
| | - Victor Augustus Marin
- Dept. of Food Science; Federal Univ. of the State of Rio de Janeiro (UNIRIO), 22.290-255; Rio de Janeiro RJ Brazil
| | - Carlos Adam Conte-Junior
- Dept. of Food Technology; Fluminense Federal Univ. (UFF) 24.230-340; Niteroi RJ Brazil
- Natl. Inst. for Health Quality Control; Oswaldo Cruz Foundation (FIOCRUZ), 21.040-900; Rio de Janeiro RJ Brazil
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Reddy PN, Srirama K, Dirisala VR. An Update on Clinical Burden, Diagnostic Tools, and Therapeutic Options of Staphylococcus aureus. Infect Dis (Lond) 2017; 10:1179916117703999. [PMID: 28579798 PMCID: PMC5443039 DOI: 10.1177/1179916117703999] [Citation(s) in RCA: 61] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 12/11/2016] [Accepted: 03/18/2017] [Indexed: 12/26/2022] Open
Abstract
Staphylococcus aureus is an important pathogen responsible for a variety of diseases ranging from mild skin and soft tissue infections, food poisoning to highly serious diseases such as osteomyelitis, endocarditis, and toxic shock syndrome. Proper diagnosis of pathogen and virulence factors is important for providing timely intervention in the therapy. Owing to the invasive nature of infections and the limited treatment options due to rampant spread of antibiotic-resistant strains, the trend for development of vaccines and antibody therapy is increasing at rapid rate than development of new antibiotics. In this article, we have discussed elaborately about the host-pathogen interactions, clinical burden due to S aureus infections, status of diagnostic tools, and treatment options in terms of prophylaxis and therapy.
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Development of a Polymerase Chain Reaction-Temporal Temperature Gradient Gel Electrophoresis Assay for Identification of Salmonella enterica Subspecies enterica Using a Hypothetical Non-specific Endonucleas S. entericae Gene Sequence. Jundishapur J Microbiol 2017. [DOI: 10.5812/jjm.42021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
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17
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Takahashi H, Gao Y, Miya S, Kuda T, Kimura B. Discrimination of live and dead cells of Escherichia coli using propidium monoazide after sodium dodecyl sulfate treatment. Food Control 2017. [DOI: 10.1016/j.foodcont.2016.06.022] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Haring AP, Cesewski E, Johnson BN. Piezoelectric Cantilever Biosensors for Label-free, Real-time Detection of DNA and RNA. Methods Mol Biol 2017; 1572:247-262. [PMID: 28299693 DOI: 10.1007/978-1-4939-6911-1_17] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
This chapter reviews the design, fabrication, characterization, and application of piezoelectric-excited millimeter-sized cantilever (PEMC) sensors. The sensor transduction mechanism, sensing principle, and mode of operation are discussed. Bio-recognition strategies and surface functionalization methods for detection of DNA and RNA are discussed with a focus on self-assembly-based approaches. Methods for the verification of biosensor response via secondary binding assays, reversible binding assays, and the integration of complementary transduction mechanisms are presented. Sensing applications for medical diagnostics, food safety, and environmental monitoring are provided. PEMC sensor technology provides a robust platform for the real-time, label-free detection of DNA and RNA in complex matrices over nanomolar (nM) to attomolar (aM) concentration ranges.
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Affiliation(s)
- Alexander P Haring
- Department of Industrial and Systems Engineering, School of Neuroscience, Macromolecules Innovation Institute, Virginia Tech, 1145 Perry Street, Blacksburg, VA, 24061, USA
| | - Ellen Cesewski
- Department of Industrial and Systems Engineering, School of Neuroscience, Macromolecules Innovation Institute, Virginia Tech, 1145 Perry Street, Blacksburg, VA, 24061, USA
| | - Blake N Johnson
- Department of Industrial and Systems Engineering, School of Neuroscience, Macromolecules Innovation Institute, Virginia Tech, 1145 Perry Street, Blacksburg, VA, 24061, USA.
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Wang Y, Wang Y, Xu J, Ye C. Development of Multiple Cross Displacement Amplification Label-Based Gold Nanoparticles Lateral Flow Biosensor for Detection of Shigella spp. Front Microbiol 2016; 7:1834. [PMID: 27917160 PMCID: PMC5114309 DOI: 10.3389/fmicb.2016.01834] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2016] [Accepted: 11/01/2016] [Indexed: 11/16/2022] Open
Abstract
Shigella spp., the etiological agent of shigellosis or “bacillary dysentery,” are responsible for considerable morbidity and mortality in excess of a million deaths globally per year. Although PCR-based techniques (such as PCR-based dipstick biosensors) have been used for the molecular diagnosis of infectious disease, these assays were restricted due to the need for a sophisticated thermal cycling apparatus to denature target templates. To facilitate simple and rapid detection of target pathogens, we successfully devised an inexpensive, reliable and nearly instrument-free molecular technique, which incorporates multiple cross displacement amplification (MCDA) combined with a newly designed lateral flow biosensor (LFB) for visual, sensitive and specific detection of Shigella. The MCDA-LFB assay was conducted at 65°C for only 20 min during the amplification stage, and then products were directly analyzed on the biosensor, alleviating the use of special reagents, electrophoresis equipment and amplicon detection instruments. The entire process, including specimen processing (35 min), amplification (20) and detection (2–5 min), can be finished within 1 h. The MCDA-LFB assay demonstrated high specificity for Shigella detection. The analytical sensitivity of the assay was 10 fg of genomic templates per reaction in pure culture and 5.86 CFU per tube in human fecal samples, which was consistent with MCDA by colorimetric indicator, gel electrophoresis, real time turbidity and fluorescence detection. Hence, the simplicity, rapidity and nearly instrument-free platform of the MCDA-LFB assay make it practical for ‘on-site’ diagnosis, point-of-care testing and more. Moreover, the proof-of-concept approach can be reconfigured to detect a wide variety of target sequences by re-designing the specific MCDA primers.
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Affiliation(s)
- Yi Wang
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Chinese Center for Disease Control and Prevention Beijing, China
| | - Yan Wang
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Chinese Center for Disease Control and Prevention Beijing, China
| | - Jianguo Xu
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Chinese Center for Disease Control and Prevention Beijing, China
| | - Changyun Ye
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Chinese Center for Disease Control and Prevention Beijing, China
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Factors affecting cell population density during enrichment and subsequent molecular detection of Salmonella enterica and Escherichia coli O157:H7 on lettuce contaminated during field production. Food Control 2015. [DOI: 10.1016/j.foodcont.2015.01.041] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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21
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Oketič K, Matijašić BB, Obermajer T, Radulović Z, Lević S, Mirković N, Nedović V. Evaluation of propidium monoazide real-time PCR for enumeration of probiotic lactobacilli microencapsulated in calcium alginate beads. Benef Microbes 2015; 6:573-81. [DOI: 10.3920/bm2014.0095] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
The aim of the study was to evaluate real-time PCR coupled with propidium monoazide (PMA) treatment for enumeration of microencapsulated probiotic lactobacilli microencapsulated in calcium alginate beads. Lactobacillus gasseri K7 (CCM 7710) and Lactobacillus delbrueckii subsp. bulgaricus (CCM 7712) were analysed by plate counting and PMA real-time PCR during storage at 4 °C for 90 days. PMA was effective in preventing PCR amplification of the target sequences of DNA released from heat-compromised bacteria. The values obtained by real-time PCR of non-treated samples were in general higher than those obtained by real-time PCR of PMA-treated samples or by plate counting, indicating the presence of sub-lethally injured cells. This study shows that plate count could not be completely replaced by culture independent method PMA real-time PCR for enumeration of probiotics, but may rather complement the well-established plate counting, providing useful information about the ratio of compromised bacteria in the samples.
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Affiliation(s)
- K. Oketič
- University of Ljubljana, Biotechnical Faculty, Department of Animal Science, Institute of Dairy Science and Probiotics, Groblje 3, 1230 Domžale, Slovenia
| | - B. Bogovič Matijašić
- University of Ljubljana, Biotechnical Faculty, Department of Animal Science, Institute of Dairy Science and Probiotics, Groblje 3, 1230 Domžale, Slovenia
| | - T. Obermajer
- University of Ljubljana, Biotechnical Faculty, Department of Animal Science, Institute of Dairy Science and Probiotics, Groblje 3, 1230 Domžale, Slovenia
| | - Z. Radulović
- University of Belgrade, Faculty of Agriculture, Department of Food Technology, Nemanjina 6, 11080 Belgrade, Serbia
| | - S. Lević
- University of Belgrade, Faculty of Agriculture, Department of Food Technology, Nemanjina 6, 11080 Belgrade, Serbia
| | - N. Mirković
- University of Belgrade, Faculty of Agriculture, Department of Food Technology, Nemanjina 6, 11080 Belgrade, Serbia
| | - V. Nedović
- University of Belgrade, Faculty of Agriculture, Department of Food Technology, Nemanjina 6, 11080 Belgrade, Serbia
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22
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Review of Salmonella detection and identification methods: Aspects of rapid emergency response and food safety. Food Control 2015. [DOI: 10.1016/j.foodcont.2014.07.011] [Citation(s) in RCA: 195] [Impact Index Per Article: 21.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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23
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Hamid AM, Jarmusch AK, Pirro V, Pincus DH, Clay BG, Gervasi G, Cooks RG. Rapid discrimination of bacteria by paper spray mass spectrometry. Anal Chem 2014; 86:7500-7. [PMID: 25014713 DOI: 10.1021/ac501254b] [Citation(s) in RCA: 79] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Paper spray mass spectrometry ambient ionization is utilized for rapid discrimination of bacteria without sample preparation. Bacterial colonies were smeared onto filter paper precut to a sharp point, then wetted with solvent and held at a high potential. Charged droplets released by field emission were sucked into the mass spectrometer inlet and mass spectra were recorded. Sixteen different species representing eight different genera from Gram-positive and Gram-negative bacteria were investigated. Phospholipids were the predominant species observed in the mass spectra in both the negative and positive ion modes. Multivariate data analysis based on principal component analysis, followed by linear discriminant analysis, allowed bacterial discrimination. The lipid information in the negative ion mass spectra proved useful for species level differentiation of the investigated Gram-positive bacteria. Gram-negative bacteria were differentiated at the species level by using a numerical data fusion strategy of positive and negative ion mass spectra.
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Affiliation(s)
- Ahmed M Hamid
- Department of Chemistry and Center for Analytical Instrumentation Development, Purdue University , West Lafayette, Indiana 47907, United States
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24
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Fujisawa T. [Comparison of intestinal bacteria composition identified by various analytical methods]. Nihon Saikingaku Zasshi 2014; 69:331-48. [PMID: 24681991 DOI: 10.3412/jsb.69.331] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Many different kinds of bacteria are normally found in the intestines of healthy humans and animals. To study the ecology and function of these intestinal bacteria, the culture method was fundamental until recent years, and suitable agar plates such as non-selective agar plates and several selective agar plates have been developed. Furthermore, the roll-tube, glove box, and plate-in-bottle methods have also been developed for the cultivation of fastidious anaerobes that predominantly colonize the intestine. Until recently, the evaluation of functional foods such as pre- and probiotics was mainly done using culture methods, and many valuable data were produced. On the other hand, genomic analysis such as the fluorescence in situ hybridization (FISH), quantitative PCR (qPCR), clone-library, denaturing gradient gel electrophoresis (DGGE), temperature gradient gel electrophoresis (TGGE), terminal-restriction fragment length polymorphism (T-RFLP) methods, and metagenome analysis have been used for the investigation of intestinal microbiota in recent years. The identification of bacteria is done by investigation of the phenotypic characteristics in culture methods, while rRNA genes are used as targets in genomic analysis. Here, I compare the fecal bacteria identified by various analytical methods.
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Affiliation(s)
- Tomohiko Fujisawa
- Laboratory of Food Hygiene, Faculty of Applied Life Science, Nippon Veterinary and Life Science University
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25
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Hohnadel M, Felden L, Fijuljanin D, Jouette S, Chollet R. A new ultrasonic high-throughput instrument for rapid DNA release from microorganisms. J Microbiol Methods 2014; 99:71-80. [DOI: 10.1016/j.mimet.2014.02.004] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2013] [Revised: 02/04/2014] [Accepted: 02/06/2014] [Indexed: 11/25/2022]
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26
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Hsieh K, Mage PL, Csordas AT, Eisenstein M, Soh HT. Simultaneous elimination of carryover contamination and detection of DNA with uracil-DNA-glycosylase-supplemented loop-mediated isothermal amplification (UDG-LAMP). Chem Commun (Camb) 2014; 50:3747-9. [PMID: 24577617 DOI: 10.1039/c4cc00540f] [Citation(s) in RCA: 131] [Impact Index Per Article: 13.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We report a one-pot, closed-vessel enzymatic assay that eliminates carryover contamination while preserving robust DNA amplification in loop-mediated isothermal amplification (LAMP), providing reliable and rapid detection of target DNA in contaminated samples.
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Affiliation(s)
- Kuangwen Hsieh
- Department of Mechanical Engineering, University of California, Santa Barbara, CA 93106, USA.
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27
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Yamazaki K. Development of a Rapid Enumeration Method Based on Fluorescence in situ Hybridization and the Control of Food-borne Pathogens. J JPN SOC FOOD SCI 2014. [DOI: 10.3136/nskkk.61.259] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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28
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Asakura H, Morita-Ishihara T, Yamamoto S, Igimi S. Genetic Characterization of Thermal Tolerance inEnterobacter sakazakii. Microbiol Immunol 2013; 51:671-7. [PMID: 17641469 DOI: 10.1111/j.1348-0421.2007.tb03955.x] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Enterobacter sakazakii is an opportunistic pathogen that causes meningitis and necrotizing enterocolitis in neonates. Here we characterized the thermal tolerance of E. sakazakii isolates obtained from powdered infant formula and other food products in Japan. Isolates were categorized into three classes according to their thermal tolerance, and differential gene expression analysis showed that the heat-resistant clones expressed a higher level of infB (which encodes a translation initiation factor), than did the heat-sensitive isolates. Gene expression and DNA polymorphism analyses suggested that this gene target might be useful to unequivocally detect and identify heat-resistant clones, permitting epidemiological surveillance for this pathogen.
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Affiliation(s)
- Hiroshi Asakura
- Division of Biomedical Food Research, National Institute of Health Sciences, Tokyo, Japan
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29
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Maks N, Fu TJ. Evaluation of PCR detection of Salmonella in alfalfa sprouts and spent irrigation water collected during sprouting of naturally contaminated seed. J Food Prot 2013; 76:314-7. [PMID: 23433380 DOI: 10.4315/0362-028x.jfp-12-155] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
This study evaluated the efficacy of a PCR-based system (DuPont Qualicon BAX) for detection of Salmonella in sprouts and spent irrigation water collected during sprouting of seeds naturally contaminated with Salmonella. Alfalfa seeds were grown in Mason jars at 20 and 30°C for 3 days. Levels of Salmonella present in the water and sprouts were determined by most-probable-number (MPN) analysis. Background microflora levels were also determined. Samples of spent irrigation water and sprouts were enriched overnight individually in tetrathionate broth and in buffered peptone water with novobiocin at 42°C and then run in the BAX system. Samples were also enriched according to the U.S. Food and Drug Administration's Bacteriological Analytical Manual (FDA BAM) method for Salmonella as a comparison. Salmonella levels were lower at 20°C compared with 30°C for some trials, and background microflora levels ranged from 10(7) to 10(8) CFU/g or ml at 20°C and 10(8) to 10(9) CFU/g or ml at 30°C. In trials with a Salmonella level >1.1 MPN/g or ml, both the BAX and FDA BAM methods were able to detect Salmonella in all samples. In trials with lower levels (0.21 MPN/g or ml or lower) of Salmonella, BAX was able to detect more positive samples than FDA BAM. For one trial with <0.003 MPN/g or ml of Salmonella, the presence of the pathogen was not indicated by either the BAX or the FDA BAM method. The results suggest that PCR detected low levels of Salmonella in sprouts or spent irrigation water collected from sprouting of naturally contaminated seeds.
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Affiliation(s)
- Nicole Maks
- Illinois Institute of Technology, Institute for Food Safety and Health, Bedford Park, IL 60501, USA.
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30
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Zuehlke JM, Petrova B, Edwards CG. Advances in the control of wine spoilage by Zygosaccharomyces and Dekkera/Brettanomyces. Annu Rev Food Sci Technol 2012; 4:57-78. [PMID: 23215631 DOI: 10.1146/annurev-food-030212-182533] [Citation(s) in RCA: 62] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
Understanding the characteristics of yeast spoilage, as well as the available control technologies, is vital to producing consistent, high-quality wine. Zygosaccharomyces bailii contamination may result in refermentation and CO2 production in sweet wines or grape juice concentrate, whereas Brettanomyces bruxellensis spoilage often contributes off-odors and flavors to red wines. Early detection of these yeasts by selective/differential media or genetic methods is important to minimize potential spoilage. More established methods of microbial control include sulfur dioxide, dimethyl dicarbonate, and filtration. Current research is focused on the use of chitosan, pulsed electric fields, low electric current, and ultrasonics as means to protect wine quality.
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Affiliation(s)
- J M Zuehlke
- School of Food Science, Washington State University, Pullman, WA, USA.
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31
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Guarddon M, Miranda JM, Vázquez BI, Cepeda A, Franco CM. Direct quantification and distribution of tetracycline-resistant genes in meat samples by real-time polymerase chain reaction. J Food Sci 2012; 77:M372-6. [PMID: 22757711 DOI: 10.1111/j.1750-3841.2012.02777.x] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Abstract
The evolution of antimicrobial-resistant bacteria has become a threat to food safety and methods to control them are necessary. Counts of tetracycline-resistant (TR) bacteria by microbiological methods were compared with those obtained by quantitative PCR (qPCR) in 80 meat samples. TR Enterobacteriaceae counts were similar between the count plate method and qPCR (P= 0.24), whereas TR aerobic mesophilic bacteria counts were significantly higher by the microbiological method (P < 0.001). The distribution of tetA and tetB genes was investigated in different types of meat. tetA was detected in chicken meat (40%), turkey meat (100%), pork (20%), and beef (40%) samples, whereas tetB was detected in chicken meat (45%), turkey meat (70%), pork (30%), and beef (35%) samples. The presence of tetracycline residues was also investigated by a receptor assay. This study offers an alternative and rapid method for monitoring the presence of TR bacteria in meat and furthers the understanding of the distribution of tetA and tetB genes.
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Affiliation(s)
- Mónica Guarddon
- Laboratorio de Higiene, Inspección y Control de Alimentos, Dept. de Química Analítica, Nutrición y Bromatología, Facultad de Veterinaria, Univ de Santiago de Compostela, 27002 Lugo, Spain
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32
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Elizaquível P, Sánchez G, Aznar R. Application of propidium monoazide quantitative PCR for selective detection of live Escherichia coli O157:H7 in vegetables after inactivation by essential oils. Int J Food Microbiol 2012; 159:115-21. [PMID: 23072696 DOI: 10.1016/j.ijfoodmicro.2012.08.006] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2012] [Revised: 07/18/2012] [Accepted: 08/06/2012] [Indexed: 11/16/2022]
Abstract
The use of propidium monoazide (PMA) is enjoying increased popularity among researchers in different fields of microbiology. Its use in combination with real-time PCR (qPCR) represents one of the most successful approaches to detect viable cells. PMA-qPCR has successfully been used to evaluate the efficacy of various disinfection technologies in different microorganisms. Initially, in this study the effect of four essential oils (EOs), cumin, clove, oregano and cinnamon, was evaluated on suspensions of the enterohemorrhagic Escherichia coli O157:H7 by PMA-qPCR, LIVE/DEAD BacLight flow cytometry analysis (LIVE/DEAD-FCM), and plate count. E. coli O157:H7 cells treated with EOs at killing concentrations were permeable to PMA which was confirmed by LIVE/DEAD-FCM. However, the PMA-qPCR assay allows specific quantification among the autochthonous microbiota of food products. Therefore, the PMA-qPCR assay was used to evaluate its applicability in artificially contaminated iceberg lettuce and soya sprouts. Amplification signal was negative for the spiking tests performed with any of the EO-killed E. coli cells. It demonstrates that the PMA-qPCR assay is a suitable technique for monitoring E. coli O157:H7 inactivation by essential oils in fresh-cut vegetables.
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Affiliation(s)
- Patricia Elizaquível
- Departamento de Microbiología y Ecología, Universitat de València, Av. Dr. Moliner, 50, 46100 Burjassot, Valencia, Spain
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33
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Esteban-Fernández de Ávila B, Pedrero M, Campuzano S, Escamilla-Gómez V, Pingarrón JM. Sensitive and rapid amperometric magnetoimmunosensor for the determination of Staphylococcus aureus. Anal Bioanal Chem 2012; 403:917-25. [PMID: 22290389 DOI: 10.1007/s00216-012-5738-8] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2011] [Revised: 01/11/2012] [Accepted: 01/11/2012] [Indexed: 11/29/2022]
Abstract
The preparation and characteristics of a disposable amperometric magnetoimmunosensor, based on the use of functionalized magnetic beads (MBs) and gold screen-printed electrodes (Au/SPEs), for the specific detection and quantification of Staphylococcal protein A (ProtA) and Staphylococcus aureus (S. aureus) is reported. An antiProtA antibody was immobilized onto ProtA-modified MBs, and a competitive immunoassay involving ProtA antigen labelled with HRP was performed. The resulting modified MBs were captured by a magnetic field on the surface of tetrathiafulvalene-modified Au/SPEs and the amperometric response obtained at -0.15 V vs the silver pseudo-reference electrode of the Au/SPEs after the addition of H2O2 was used as transduction signal. The developed methodology showed very low limits of detection (1 cfu S. aureus/mL of raw milk samples), and a good selectivity against the most commonly involved foodborne pathogens originating from milk. These features, together with a short analysis time (2 h), the simplicity, and easy automation and miniaturization of the required instrumentation make the developed methodology a promising alternative in the development of devices for on-site analysis.
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34
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Elizaquível P, Sánchez G, Aznar R. Quantitative detection of viable foodborne E. coli O157:H7, Listeria monocytogenes and Salmonella in fresh-cut vegetables combining propidium monoazide and real-time PCR. Food Control 2012. [DOI: 10.1016/j.foodcont.2011.12.003] [Citation(s) in RCA: 84] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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35
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Xu Y, Cui L, Tian C, Li S, Cao J, Liu Z, Zhang G. A multiplex polymerase chain reaction coupled with high-performance liquid chromatography assay for simultaneous detection of six foodborne pathogens. Food Control 2012. [DOI: 10.1016/j.foodcont.2011.12.014] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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36
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Elizaquível P, Sánchez G, Selma M, Aznar R. Application of propidium monoazide-qPCR to evaluate the ultrasonic inactivation of Escherichia coli O157:H7 in fresh-cut vegetable wash water. Food Microbiol 2012; 30:316-20. [DOI: 10.1016/j.fm.2011.10.008] [Citation(s) in RCA: 46] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2011] [Revised: 09/23/2011] [Accepted: 10/05/2011] [Indexed: 10/16/2022]
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37
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Woubit A, Yehualaeshet T, Habtemariam T, Samuel T. Novel genomic tools for specific and real-time detection of biothreat and frequently encountered foodborne pathogens. J Food Prot 2012; 75:660-70. [PMID: 22488053 PMCID: PMC3524339 DOI: 10.4315/0362-028x.jfp-11-480] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
The bacterial genera Escherichia, Salmonella, Shigella, Vibrio, Yersinia, and Francisella include important food safety and biothreat agents. By extensive mining of the whole genome and protein databases of diverse, closely and distantly related bacterial species and strains, we have identified novel genome regions, which we utilized to develop a rapid detection platform for these pathogens. The specific genomic targets we have identified to design the primers in Francisella tularensis subsp. tularensis, F. tularensis subsp. novicida, Shigella dysenteriae, Salmonella enterica serovar Typhimurium, Vibrio cholerae, Yersinia pestis, and Yersinia pseudotuberculosis contained either known genes or putative proteins. Primer sets were designed from the target regions for use in real-time PCR assays to detect specific biothreat pathogens at species or strain levels. The primer sets were first tested by in silico PCR against whole-genome sequences of different species, subspecies, or strains and then by in vitro PCR against genomic DNA preparations from 23 strains representing six biothreat agents (Escherichia coli O157:H7 strain EDL 933, Shigella dysenteriae, S. enterica serovar Typhi, F. tularensis subsp. tularensis, V. cholerae, and Y. pestis) and six foodborne pathogens (Salmonella Typhimurium, Salmonella Saintpaul, Shigella sonnei, F. tularensis subsp. novicida, Vibrio parahaemolyticus, and Y. pseudotuberculosis). Each pathogen was specifically identifiable at the genus and species levels. Sensitivity assays performed with purified DNA showed the lowest detection limit of 128 fg of DNA/μl for F. tularensis subsp. tularensis. A preliminary test to detect Shigella organisms in a milk matrix also enabled the detection of 6 to 60 CFU/ml. These new tools could ultimately be used to develop platforms to simultaneously detect these pathogens.
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Affiliation(s)
- Abdela Woubit
- Department of Pathobiology, College of Veterinary Medicine, Nursing and Allied Health, Tuskegee University, Tuskegee, AL 36088, USA
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38
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The challenge of merging food safety diagnostic needs with quantitative PCR platforms. Trends Food Sci Technol 2011. [DOI: 10.1016/j.tifs.2011.02.009] [Citation(s) in RCA: 48] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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39
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Prospects of molecular markers in Fusarium species diversity. Appl Microbiol Biotechnol 2011; 90:1625-39. [DOI: 10.1007/s00253-011-3209-3] [Citation(s) in RCA: 47] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2011] [Revised: 02/17/2011] [Accepted: 02/17/2011] [Indexed: 11/26/2022]
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40
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Kim JS, Jahng MS, Lee GG, Lee KJ, Chae HK, Lee JH, Lee JH, Kim MH. Rapid and simple detection of the invA gene in Salmonella spp. by isothermal target and probe amplification (iTPA). Lett Appl Microbiol 2011; 52:399-405. [PMID: 21291479 DOI: 10.1111/j.1472-765x.2011.03018.x] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
AIMS Salmonella spp. are an important cause of food-borne infections throughout world, and the availability of rapid and simple detection techniques is critical for the food industry. Salmonella enterica serovars Enteritidis and Typhimurium cause the majority of human gastroenteritis infections, and there are a reported 40,000 cases of salmonellosis in the United States each year. METHODS AND RESULTS A novel rapid and simple isothermal target and probe amplification (iTPA) assay that rapidly amplifies target DNA (Salmonella invA gene) using a FRET-based signal probe in an isothermal environment was developed for detection Salmonella spp. in pre-enriched food samples. The assay was able to specifically detect all of 10 Salmonella spp. strains without detecting 40 non-Salmonella strains. The detection limit was 4 x 10¹ CFU per assay. The iTPA assay detected at an initial inoculum level of <10 CFU in the pre-enriched food samples (egg yolk, chicken breast and peanut butter). CONCLUSIONS This detection system requires only a water bath and a fluorometer and has great potential for use as a hand-held device or point-of-care-testing diagnostics. The iTPA assay is sensitive and specific and has potential for rapid screening of Salmonella spp. by food industry.
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Affiliation(s)
- J S Kim
- Food Research & Development Center, Samsung Everland Inc., Giheung-gu, Yongin, South Korea.
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41
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Elizaquível P, Gabaldón J, Aznar R. Quantification of Salmonella spp., Listeria monocytogenes and Escherichia coli O157:H7 in non-spiked food products and evaluation of real-time PCR as a diagnostic tool in routine food analysis. Food Control 2011. [DOI: 10.1016/j.foodcont.2010.05.018] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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42
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Lee JY, Kim BC, Chang KJ, Ahn JM, Ryu JH, Chang HI, Gu MB. A subtractively optimized DNA microarray using non-sequenced genomic probes for the detection of food-borne pathogens. Appl Biochem Biotechnol 2010; 164:183-93. [PMID: 21116735 DOI: 10.1007/s12010-010-9126-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2010] [Accepted: 11/09/2010] [Indexed: 10/18/2022]
Abstract
In this study, we present the successful detection of food-borne pathogens using randomly selected non-sequenced genomic DNA probes-based DNA microarray chips. Three food-borne pathogens, Staphylococcus aureus, Salmonella enterica subsp. enterica serovar Typhimurium (S. Typhimurium), and Bacillus cereus, were subjected for the preparation of the DNA microarray probes. Initially, about 50 DNA probes selected randomly from non-sequenced genomic DNA of each pathogen were prepared by using a set of restriction enzyme pairs. The proto-type of DNA microarray chip for detecting three different pathogens simultaneously was fabricated by using those DNA probes prepared for each pathogen. This proto-type DNA microarray has been tested with three target pathogens and additional seven bacteria, and successfully verified with a few cross-hybridized probes. After this primary verification of the DNA microarray hybridization, this proto-type DNA microarray chip was redesigned and successfully optimized by eliminating a few cross-hybridized probes. The specificity of this redesigned DNA microarray chip to each pathogen was confirmed without any serious cross-hybridizations, and its multiplexing capability in its pathogen detection was found to be possible. This randomly selected non-sequenced genomic DNA probes-based DNA microarray was successfully proved to be the high-throughput simultaneous detection chip for the detection of food-borne pathogens, without knowing the exact sequence information of the target bacteria. This could be the first fabrication of DNA microarray chip for the simultaneous detection of different kinds of food-borne pathogens.
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Affiliation(s)
- Jin Yong Lee
- School of Life Sciences and Biotechnology, Korea University, Anam-dong, Seongbuk-gu, Seoul 136-701, Republic of Korea
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Jiang Y, Gao F, Xu X, Ye K, Zhou G. Changes in the composition of the bacterial flora on tray-packaged pork during chilled storage analyzed by PCR-DGGE and real-time PCR. J Food Sci 2010; 76:M27-33. [PMID: 21535690 DOI: 10.1111/j.1750-3841.2010.01879.x] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Abstract
In this study, a polymerase chain reaction (PCR)-denaturing gradient gel electrophoresis (DGGE) was used to investigate the changes in the composition of the bacterial population of tray-packaged pork during chilled storage. Relative quantitative real-time PCR was further used to evaluate the predominant spoilage bacteria obtained from DGGE analysis for their relative amount to the total bacteria in meat samples. DGGE analysis of the V3 and V6-V8 regions of the 16S rRNA gene showed that Pseudomonas were the predominant bacterial species at the end of the monitoring period. Real-time PCR expressed as the ΔΔC(T) method showed that the average 2(-ΔΔC)(T) values increased continually during the storage period from less than 0.001 at day 0 to 4.438 at the end of the monitoring, which indicated that the proportions of Pseudomonas within the total bacteria in meat samples increased. Both methods confirmed that Pseudomonas was the predominant spoilage bacteria. Practical Application: This study uses new techniques to identify bacteria in fresh retail pork and to follow changes in the bacterial population during 12 d refrigerated storage. Pseudomonads were found to increase with storage time, becoming the dominant flora after 12 d.
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Affiliation(s)
- Yun Jiang
- Key Laboratory of Meat Processing and Quality Control, Ministry of Education, Nanjing Agricultural Univ., Nanjing 210095, China
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McCabe EM, Burgess CM, O'Regan E, McGuinness S, Barry T, Fanning S, Duffy G. Development and evaluation of DNA and RNA real-time assays for food analysis using the hilA gene of Salmonella enterica subspecies enterica. Food Microbiol 2010; 28:447-56. [PMID: 21356450 DOI: 10.1016/j.fm.2010.10.012] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2010] [Revised: 10/11/2010] [Accepted: 10/19/2010] [Indexed: 11/26/2022]
Abstract
The objective of this study was the development of DNA and RNA real-time PCR methods for detection of food-borne Salmonella sp. as rapid alternatives to the traditional cultural method (ISO 6579, 2004) in fresh meat carcasses and processed meat samples. These PCR methods were based on the hilA sequence, with primers and hybridisation probes designed against this gene target. The primers and probes were evaluated for their efficiency and dynamic range and subsequently the specificity of the assay was tested using 106 Salmonella enterica subspecies enterica strains and 30 non-salmonellae strains. An internal amplification control (IAC) was also developed for incorporation. The optimum copy number of IAC was determined to be 500 copies per reaction. A complementary enrichment protocol was adapted from the existing standard ISO 6579:2004 and consisted of enrichment in Buffered Peptone Water (BPW) 22 ± 2 h and a second selective enrichment for 6 h in Rappaport Vassiliadis with Soya (RVS). The DNA and RNA-based real-time PCR protocols, were applied to meat samples inoculated with Salmonella enterica subspecies enterica strains, including swabs from meat carcasses and minced beef samples which were heat treated or frozen. The developed methods have the potential as useful alternatives to the standard ISO 6579:2004 method for the detection of Salmonella enterica subspecies enterica on carcass swabs and raw meat using hilA as a target. The DNA assay is a useful tool for the screening of meat samples in the abattoir within 3 days of slaughter or in a food production process and the RNA-based assay has the potential to detect viable Salmonella enterica subspecies enterica in ready-to-eat products.
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Affiliation(s)
- Evonne M McCabe
- Food Safety Department, Ashtown Food Research Centre, Teagasc, Ashtown, Dublin 15, Ireland.
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O'Connor L, Glynn B. Recent advances in the development of nucleic acid diagnostics. Expert Rev Med Devices 2010; 7:529-39. [PMID: 20583889 DOI: 10.1586/erd.10.22] [Citation(s) in RCA: 51] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
Since the early 1970s, the use of nucleic acid sequences for specific diagnostic applications has followed a somewhat linear pattern of development. Early methods for restriction enzyme digestion, as well as reverse transcription, were followed in the late 1970s by Southern, northern and dot blotting, as well as DNA sequencing. In 1985, the description of PCR and the routine laboratory manipulation of sufficient quantities of DNA for diagnostics, resulted in the exponential growth of molecular biology. Subsequently, alternative DNA and RNA amplification protocols followed. The last 10 years have seen the second explosion in molecular biology with the development of real-time quantitative PCR and oligonucleotide microarrays. This advancement continues with the development of methods for 'direct' nucleic acid target detection from samples without in vitro amplification, and enhanced transduction elements for improved sensitivity of nucleic acid detection. In this article, we will describe the current state of the art in nucleic acid diagnostics, the use of nucleic acid-based diagnostics in clinical practice and the emerging technologies in the field. Finally, we will describe future trends and expected advances in the field.
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Ohtsuka K, Tanaka M, Ohtsuka T, Takatori K, Hara-Kudo Y. Comparison of detection methods for Escherichia coli O157 in beef livers and carcasses. Foodborne Pathog Dis 2010; 7:1563-7. [PMID: 20704509 DOI: 10.1089/fpd.2010.0585] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Beef organ meat, such as liver, and beef are major food sources contaminated with Escherichia coli O157. This study investigated the detection method of E. coli O157 in beef liver and carcass. In an experiment with beef liver inoculated with E. coli O157, the direct plating method, plating after the immunomagnetic separation (IMS) method, and Shiga toxin (Stx)-producing E. coli detection and E. coli O157 detection loop-mediated isothermal amplification (LAMP) assays were compared for the detection of Stx-producing E. coli O157. Fifty percent and 45% of samples were positive by Stx-producing E. coli detection LAMP assay and E. coli O157 detection LAMP assay, respectively. Thirty-five percent and 10% of samples were positive by the IMS method and direct plating method, respectively. In an examination of beef swab samples, contamination frequencies with E. coli O157 were analyzed by LAMP assays and the IMS method. E. coli O157 was detected in 12 of 230 samples (5.2%). There was no sample positive for E. coli O157 isolation but negative for LAMP assays for Stx gene and O157 antigen gene. Four samples (1.7%) were positive by both LAMP assays but negative by the IMS method. The result that there was no sample positive for the O157 antigen gene, but not the Stx gene, indicated that the IMS method failed to detect E. coli O157. Twenty-nine samples (12.6%) were positive for the Stx gene but not the O157 antigen gene. The results indicated that screening of Stx gene and O157 antigen gene by LAMP assays is effective in saving time and effort to isolate E. coli O157 by the IMS method because the LAMP assay is more sensitive. This suggested that samples positive for Stx gene and O157 antigen gene should be examined by the IMS method to isolate E. coli O157.
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Affiliation(s)
- Kayoko Ohtsuka
- Saitama Institute of Public Health, Sakura-ku, Saitama, Japan
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Response to Questions Posed by the Food Safety and Inspection Service Regarding Determination of the Most Appropriate Technologies for the Food Safety and Inspection Service To Adopt in Performing Routine and Baseline Microbiological Analyses†,‡. J Food Prot 2010; 73:1160-200. [DOI: 10.4315/0362-028x-73.6.1160] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
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Validation of a Duplex Real-Time PCR for the Detection of Salmonella spp. in Different Food Products. FOOD ANAL METHOD 2010. [DOI: 10.1007/s12161-010-9142-8] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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TANAKA YUICHIRO, TAKAHASHI HAJIME, SIMIDU USIO, KIMURA BON. Design of a New Universal Real-Time PCR System Targeting the tuf Gene for the Enumeration of Bacterial Counts in Food. J Food Prot 2010; 73:670-9. [DOI: 10.4315/0362-028x-73.4.670] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
A novel universal real-time PCR, consisting of newly designed oligonucleotide subsets, was designed for a bacterial housekeeping gene encoding the peptide elongation factor Tu. Specificity and universality were confirmed in 66 bacterial strains, including 51 genera and 63 species. The amplification kinetics of tuf gene–targeted real-time quantitative PCR were consistent in a wide range of bacterial species tested. A calibration curve (r2 = 0.97) was produced for the estimation of bacterial counts, based on measurements of representative inoculations with 10-fold serial dilutions of the cells of representative bacterial species. Linear regression analysis of the real-time PCR–derived bacterial counts and aerobic plate counts, in a total 149 samples consisting of 25 minced meat, 34 fresh-cut vegetables, and 90 fish, exhibited a high correlation (r2 = 0.84, 0.87, and 0.95, respectively) over the range of 3.0 to 9.0 log CFU/g. In total, the difference between the two methods was less than 0.5 log in 75 of these samples, and in the remaining 74 samples, the difference was 0.5 to 1.0 log. Presently, our tuf gene–targeted real-time quantitative PCR assay achieves a rapid (within 2 h) estimation of bacterial counts of 3.0 to 9.0 log CFU/g, in a practical manner.
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Affiliation(s)
- YUICHIRO TANAKA
- 1Department of Food Science and Technology, Faculty of Marine Science, Tokyo University of Marine Science and Technology, 4-5-7 Konan, Minato, Tokyo 108-8477, Japan
- 2Department of Quality Assurance, Toyo Suisan Kaisha, Ltd., Tokyo 108-8501, Japan
| | - HAJIME TAKAHASHI
- 1Department of Food Science and Technology, Faculty of Marine Science, Tokyo University of Marine Science and Technology, 4-5-7 Konan, Minato, Tokyo 108-8477, Japan
| | - USIO SIMIDU
- 2Department of Quality Assurance, Toyo Suisan Kaisha, Ltd., Tokyo 108-8501, Japan
| | - BON KIMURA
- 1Department of Food Science and Technology, Faculty of Marine Science, Tokyo University of Marine Science and Technology, 4-5-7 Konan, Minato, Tokyo 108-8477, Japan
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