FISHing for bacteria in food - A promising tool for the reliable detection of pathogenic bacteria?

Food Microbiology

Volumn 46, Issue , 2015, Pages 395-407

  Rohde, Alexander ^a   Hammerl, Jens Andre ^a   Appel, Bernd ^a   Dieckmann, Ralf ^a   Al Dahouk, Sascha ^a  

^a FEDERAL INSTITUTE FOR RISK ASSESSMENT   (Germany)

Author keywords

Fluorescence in situ hybridization; Food safety; Foodborne illnesses; Rapid detection methods; Ribosomal RNA

Indexed keywords

BACTERIUM; EVALUATION STUDY; FLUORESCENCE IN SITU HYBRIDIZATION; FOOD CONTROL; FOOD POISONING; GENETICS; HUMAN; ISOLATION AND PURIFICATION; MICROBIOLOGY; PROCEDURES;

BACTERIA; FOOD MICROBIOLOGY; FOODBORNE DISEASES; HUMANS; IN SITU HYBRIDIZATION, FLUORESCENCE;

EID: 84908061262     PISSN: 07400020     EISSN: 10959998     Source Type: Journal    
DOI: 10.1016/j.fm.2014.09.002     Document Type: Review

References (129)

1. Abubakar I., Irvine L., Aldus C.F., Wyatt G.M., Fordham R., Schelenz S., Shepstone L., Howe A., Peck M., Hunter P.R. Asystematic review of the clinical, public health and cost-effectiveness of rapid diagnostic tests for the detection and identification of bacterial intestinal pathogens in faeces and food. Health Technol. Assess. 2007, 11:1-216.
2. Alexander B.D., Ashley E.D., Reller L.B., Reed S.D. Cost savings with implementation of PNA FISH testing for identification of Candida albicans in blood cultures. Diagn. Microbiol. Infect. Dis. 2006, 54:277-282.
3. Al-Khaldi S.F., Martin S.A., Rasooly A., Evans J.D. DNA microarray technology used for studying foodborne pathogens and microbial habitats: minireview. J.AOAC Int. 2002, 85:906-910.
4. Almeida C., Azevedo N.F., Iversen C., Fanning S., Keevil C.W., Vieira M.J. Development and application of a novel peptide nucleic acid probe for the specific detection of Cronobacter genomospecies (Enterobacter sakazakii) in powdered infant formula. Appl. Environ. Microbiol. 2009, 75:2925-2930.
5. Almeida C., Azevedo N.F., Fernandes R.M., Keevil C.W., Vieira M.J. Fluorescence in situ hybridization method using a peptide nucleic acid probe for identification of Salmonella spp. in a broad spectrum of samples. Appl. Environ. Microbiol. 2010, 76:4476-4485.
6. Almeida C., Azevedo N.F., Santos S., Keevil C.W., Vieira M.J. Discriminating multi-species populations in biofilms with peptide nucleic acid fluorescence in situ hybridization (PNA FISH). PLoS One 2011, 6.
7. Almeida C., Cerqueira L., Azevedo N.F., Vieira M.J. Detection of Salmonella enterica serovar Enteritidis using real time PCR, immunocapture assay, PNA FISH and standard culture methods in different types of food samples. Int. J. Food Microbiol. 2013, 161:16-22.
8. Almeida C., Sousa J.M., Rocha R., Cerqueira L., Fanning S., Azevedo N.F., Vieira M.J. Detection of Escherichia coli O157 by Peptide nucleic acid fluorescence in situ hybridization (PNA-FISH) and comparison to a standard culture method. Appl. Environ. Microbiol. 2013, 79:6293-6300.
9. Almstrand R., Daims H., Persson F., Sörensson F., Hermansson M. New methods for analysis of spatial distribution and coaggregation of microbial populations in complex biofilms. Appl. Environ. Microbiol. 2013, 79:5978-5987.
10. Amann R.I., Krumholz L., Stahl D.A. Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology. J.Bacteriol. 1990, 172:762-770.
11. Amann R.I., Binder B.J., Olson R.J., Chisholm S.W., Devereux R., Stahl D.A. Combination of 16S rRNA-targeted oligonucleotide probes with flow cytometry for analyzing mixed microbial populations. Appl. Environ. Microbiol. 1990, 56:1919-1925.
12. Amann R.I., Ludwig W., Schleifer K.H. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 1995, 59:143-169.
13. Amann R., Kühl M. In situ methods for assessment of microorganisms and their activities. Curr. Opin. Microbiol. 1998, 1:352-358.
14. Amann R., Fuchs B.M. Single-cell identification in microbial communities by improved fluorescence in situ hybridization techniques. Nat. Rev. Microbiol. 2008, 6:339-348.
15. Angelidis A.S., Tirodimos I., Bobos M., Kalamaki M.S., Papageorgiou D.K., Arvanitidou M. Detection of Helicobacter pylori in raw bovine milk by fluorescence in situ hybridization (FISH). Int. J. Food Microbiol. 2011, 151:252-256.
16. Azevedo N.F., Jardim T., Almeida C., Cerqueira L., Almeida A.J., Rodrigues F., Keevil C.W., Vieira M.J. Application of flow cytometry for the identification of Staphylococcus epidermidis by peptide nucleic acid fluorescence in situ hybridization (PNA FISH) in blood samples. Ant. Van Leeuwenhoek 2011, 100:463-470.
17. Babot J.D., Hidalgo M., Argañaraz-Martínez E., Apella M.C., Perez Chaia A. Fluorescence in situ hybridization for detection of classical propionibacteria with specific 16S rRNA-targeted probes and its application to enumeration in Gruyère cheese. Int. J. Food Microbiol. 2011, 31:221-228.
18. Birch L., Dawson C.E., Cornett J.H., Keer J.T. Acomparison of nucleic acid amplification techniques for the assessment of bacterial viability. Lett. Appl. Microbiol. 2001, 33:296-301.
19. Bisha B., Brehm-Stecher B.F. Simple adhesive-tape-based sampling of tomato surfaces combined with rapid fluorescence in situ hybridization for Salmonella detection. Appl. Environ. Microbiol. 2009, 75:1450-1455.
20. Bisha B., Brehm-Stecher B.F. Flow-through imaging cytometry for characterization of Salmonella subpopulations in alfalfa sprouts, a complex food system. Biotechnol. J. 2009, 4:880-887.
21. Bisha B., Brehm-Stecher B.F. Combination of adhesive-tape-based sampling and fluorescence in situ hybridization for rapid detection of Salmonella on fresh produce. J.Vis. Exp. 2010, 44.
22. Bojesen A.M., Christensen H., Nielsen O.L., Olsen J.E., Bisgaard M. Detection of Gallibacterium spp. in chickens by fluorescent 16S rRNA in situ hybridization. J.Clin. Microbiol. 2003, 41:5167-5172.
23. Bottari B., Ercolini D., Gatti M., Neviani E. Application of FISH technology for microbiological analysis: current state and prospects. Appl. Microbiol. Biotechnol. 2006, 73:485-494.
24. Bouvier T., Del Giorgio P.A. Factors influencing the detection of bacterial cells using fluorescence in situ hybridization (FISH): a quantitative review of published reports. FEMS Microbiol. Ecol. 2003, 44:3-15.
25. Brehm-Stecher B.F. Methods for Whole Cell Detection of Microorganisms. Microbial Surfaces 2008, 29-51. Chapter 3.
26. Brehm-Stecher B.F., Young C., Jaykus L.A., Tortorello M.L. Sample preparation: the forgotten beginning. J.Food Prot. 2009, 72:1774-1789.
27. Cai H.Y., Caswell J.L., Prescott J.F. Nonculture molecular techniques for diagnosis of bacterial disease in animals: a diagnostic laboratory perspective. Vet. Pathol. 2014, 51:341-350.
28. Cerqueira L., Azevedo N.F., Almeida C., Jardim T., Keevil C.W., Vieira M.J. DNA mimics for the rapid identification of microorganisms by fluorescence in situ hybridization (FISH). Int. J. Mol. Sci. 2008, 9:1944-1960.
29. Cocolin L., Diez A., Urso R., Rantsiou K., Comi G., Bergmaier I., Beimfohr C. Optimization of conditions for profiling bacterial populations in food by culture-independent methods. Int. J. Food Microbiol. 2007, 120:100-109.
30. Cocolin L., Ercolini D. Molecular techniques in the microbial ecology of fermented foods. Molecular Techniques in Food Fermentation: Principles and Applications 2008, 1-30. Springer, New York, USA. G. Giraffa, D. Carminati (Eds.).
31. Cocolin L., Alessandria V., Dolci P., Gorra R., Rantsiou K. Culture independent methods to assess the diversity and dynamics of microbiota during food fermentation. Int. J. Food Microbiol. 2013, 167:29-43.
32. Connil N., Dousset X., Onno B., Pilet M.F., Breuil M.F., Montel M.C. Enumeration of Carnobacterium divergens V41, Carnobacterium piscicola V1 and Lactobacillus brevis LB62 by in situ hybridization-flow cytometry. Lett. Appl. Microbiol. 1998, 27:302-306.
33. Daims H., Ramsing N.B., Schleifer K.H., Wagner M. Cultivation-independent, semiautomatic determination of absolute bacterial cell numbers in environmental samples by fluorescence in situ hybridization. Appl. Environ. Microbiol. 2001, 67:5810-5818.
34. Daims H., Wagner M. Quantification of uncultured microorganisms by fluorescence microscopy and digital image analysis. Appl. Microbiol. Biotechnol. 2007, 75:237-248.
35. Daims H. Use of fluorescence in situ hybridization and the daime image analysis program for the cultivation-independent quantification of microorganisms in environmental and medical samples. Cold Spring Harb. Protoc. 2009, 4.
36. DeLong E.F., Wickham G.S., Pace N.R. Phylogenetic stains: ribosomal RNA-based probes for the identification of single cells. Science 1989, 243:1360-1363.
37. Dwivedi H.P., Jaykus L.A. Detection of pathogens in foods: the current state-of-the-art and future directions. Crit. Rev. Microbiol. 2011, 37:40-63.
38. Ehrenberg M., Bremer H., Dennis P.P. Medium-dependent control of the bacterial growth rate. Biochimie 2013, 95:643-658.
39. European Food Safety Authority (EFSA), European Centre for Disease Prevention and Control (ECDC) The European union summary report on trends and sources of Zoonoses, Zoonotic agents and food-borne outbreaks in 2011. EFSA J. 2013, 11.
40. Ercolini D., Hill P.J., Dodd E.R. Bacterial community structure and location in Stilton cheese. Appl. Environ. Microbiol. 2003, 69:3540-3548.
41. Ercolini D., Villani F., Aponte M., Mauriello G. Fluorescence in situ hybridisation detection of Lactobacillus plantarum group on olives to be used in natural fermentations. Int. J. Food Microbiol. 2006, 112:291-296.
42. Evans M.I., Sharp M., Tepperberg J., Kilpatrick M.W., Tsipouras P., Tafas T. Automated microscopy of amniotic fluid cells: detection of FISH signals using the FastFISH imaging system. Fetal Diagn. Ther. 2006, 21:523-527.
43. Fang Q., Brockmann S., Botzenhart K., Wiedenmann A. Improved detection of Salmonella spp. in foods by fluorescent in situ hybridization with 23S rRNA probes: a comparison with conventional culture methods. J.Food Prot. 2003, 66:723-731.
44. Fegatella F., Lim J., Kjelleberg S., Cavicchioli R. Implications of rRNA operon copy number and ribosome content in the marine oligotrophic ultramicrobacterium Sphingomonas sp. strain RB2256. Appl. Environ. Microbiol. 1998, 64:4433-4438.
45. Fischer Walker C.L., Perin J., Aryee M.J., Boschi-Pinto C., Black R.E. Diarrhea incidence in low- and middle-income countries in 1990 and 2010: a systematic review. BMC Public Health 2012, 12.
46. Fornasari M.E., Rossetti L., Remagni C., Giraffa G. Quantification of Enterococcus italicus in traditional Italian cheeses by fluorescence whole-cell hybridization. Syst. Appl. Microbiol. 2008, 31:223-230.
47. Frischer M.E., Floriani P.J., Nierzwicki-Bauer S.A. Differential sensitivity of 16S rRNA targeted oligonucleotide probes used for fluorescence in situ hybridization is a result of ribosomal higher order structure. Can. J. Microbiol. 1996, 42:1061-1071.
48. Fuchizawa I., Shimizu S., Kawai Y., Yamazaki K. Specific detection and quantitative enumeration of Listeria spp. using fluorescent in situ hybridization in combination with filter cultivation (FISHFC). J.Appl. Microbiol. 2008, 105:502-509.
49. Fuchizawa I., Shimizu S., Ootsubo M., Kawai Y., Yamazaki K. Specific and rapid quantification of viable Listeria monocytogenes using fluorescence in situ hybridization in combination with filter cultivation. Microbes Environ. 2009, 24:273-275.
50. Fuchs B.M., Wallner G., Beisker W., Schwippl I., Ludwig W., Amann R. Flow cytometric analysis of the in situ accessibility of Escherichia coli 16S rRNA for fluorescently labeled oligonucleotide probes. Appl. Environ. Microbiol. 1998, 64:4973-4982.
51. Ge B., Meng J. Advanced technologies for pathogen and toxin detection in foods: current applications and future directions. J.Lab. Autom. 2009, 14:235-241.
52. Gehring A., Barnett C., Chu T., DebRoy C., D'Souza D., Eaker S., Fratamico P., Gillespie B., Hegde N., Jones K., Lin J., Oliver S., Paoli G., Perera A., Uknalis J. Ahigh-throughput antibody-based microarray typing platform. Sensors (Basel) 2013, 13:5737-5748.
53. Graczyk T.K., Conn D.B., Lucy F., Minchin D., Tamang L., Moura L.N., DaSilva A.J. Human waterborne parasites in zebra mussels (Dreissena polymorpha) from the Shannon River drainage area, Ireland. Parasitol. Res. 2004, 93:385-391.
54. Gunasekera T.S., Dorsch M.R., Slade M.B., Veal D.A. Specific detection of Pseudomonas spp. in milk by fluorescence in situ hybridization using ribosomal RNA directed probes. J.Appl. Microbiol. 2003, 94:936-945.
55. Gunasekera T.S., Veal D.A., Attfield P.V. Potential for broad applications of flow cytometry and fluorescence techniques in microbiological and somatic cell analyses of milk. Int. J. Food Microbiol. 2003, 85:269-279.
56. Havelaar A.H., Brul S., de Jong A., de Jonge R., Zwietering M.H., Ter Kuile B.H. Future challenges to microbial food safety. Int. J. Food Microbiol. 2010, 139:79-94.
57. Havelaar A.H., Ivarsson S., Löfdahl M., Nauta M.J. Estimating the true incidence of campylobacteriosis and salmonellosis in the European Union, 2009. Epidemiol. Infect. 2013, 141:293-302.
58. Hoorfar J. Rapid detection, characterization, and enumeration of foodborne pathogens. APMIS Suppl. 2011, 119:1-24.
59. Hu Y., Liu J., Xia D., Chen S. Simultaneous analysis of foodborne pathogenic bacteria by an oligonucleotide microarray assay. J.Basic Microbiol. 2012, 52:27-34.
60. ISO 16654 Microbiology of Food and Animal Feeding Stuffs - Horizontal Method for the Detection of Escherichia coli O157 2001, International Organisation for Standardization, Geneva, Switzerland.
61. Jarvis B. Achemical method for the estimation of mould in tomato products. J.Fd. Technol. 1977, 12:581-591.
62. Jarvis B. Statistical Aspects of the Microbiological Examination of Foods 2008, Academic Press (imprint of Elsevier). second ed.
63. Jasson V., Jacxsens L., Luning P., Rajkovic A., Uyttendaele M. Alternative microbial methods: an overview and selection criteria. Food Microbiol. 2010, 27:710-730.
64. Jehan Z., Uddin S., Al-Kuraya K.S. In-situ hybridization as a molecular tool in cancer diagnosis and treatment. Curr. Med. Chem. 2012, 19:3730-3738.
65. Khimmakthong U., Deshmukh S., Chettri J.K., Bojesen A.M., Kania P.W., Dalsgaard I., Buchmann K. Tissue specific uptake of inactivated and live Yersinia ruckeri in rainbow trout (Oncorhynchus mykiss): visualization by immunohistochemistry and in situ hybridization. Microb. Pathog. 2013, 59-60:33-41.
66. Kitaguchi A., Yamaguchi N., Nasu M. Enumeration of respiring Pseudomonas spp. in milk within 6 hours by fluorescence in situ hybridization following formazan reduction. Appl. Environ. Microbiol. 2005, 71:2748-2752.
67. Krüger N.J., Buhler C., Iwobi A.N., Huber I., Ellerbroek L., Appel B., Stingl K. "Limits of control"-crucial parameters for a reliable quantification of viable campylobacter by real-time PCR. PLoS One 2014, 9.
68. Kuehn M., Hausner M., Bungartz H.J., Wagner M., Wilderer P.A., Wuertz S. Automated confocal laser scanning microscopy and semiautomated image processing for analysis of biofilms. Appl. Environ. Microbiol. 1998, 64:4115-4127.
69. Kupradit C., Rodtong S., Ketudat-Cairns M. Development of a DNA macroarray for simultaneous detection of multiple foodborne pathogenic bacteria in fresh chicken meat. World J. Microbiol. Biotechnol. 2013, 29:2281-2291.
70. Laflamme C., Gendron L., Filion N., Ho J., Duchaine C. Rapid detection of germinating Bacillus cereus cells using fluorescent in situ hybridization. J.Rapid Methods Autom. Microbiol. 2009, 17:80-102.
71. Lee S., Malone C., Kemp P.F. Use of multiple 16s rRNA-targeted fluorescent probes to increase signal strength and measure cellular RNA from natural planktonic bacteria. Mar. Ecol. Prog. Ser. 1993, 101:193-201.
72. Liehr T., Starke H., Weise A., Lehrer H., Claussen U. Multicolor FISH probe sets and their applications. Histol. Histopathol. 2004, 19:229-237.
73. Liehr T., Weise A., Hamid A.B., Fan X., Klein E., Aust N., Othman M.A., Mrasek K., Kosyakova N. Multicolor FISH methods in current clinical diagnostics. Expert. Rev. Mol. Diagn. 2013, 13:251-255.
74. López-Campos G., Martínez-Suárez J.V., Aguado-Urda M., López-Alonso V. Microarray Detection and Characterization of Bacterial Foodborne Pathogens. Chapter 2: Detection, Identification, and Analysis of Foodborne Pathogens 2012, Springer, Briefs in Food, Health, and Nutrition.
75. Lucore L.A., Cullison M.A., Jaykus L.A. Immobilization with metal hydroxides as a means to concentrate food-borne bacteria for detection by cultural and molecular methods. Appl. Environ. Microbiol. 2000, 66:1769-1776.
76. Ludwig W., Strunk O., Westram R., Richter L., Meier H., Yadhukumar, Buchner A., Lai T., Steppi S., Jobb G., Förster W., Brettske I., Gerber S., Ginhart A.W., Gross O., Grumann S., Hermann S., Jost R., König A., Liss T., Lüssmann R., May M., Nonhoff B., Reichel B., Strehlow R., Stamatakis A., Stuckmann N., Vilbig A., Lenke M., Ludwig T., Bode A., Schleifer K.H. ARB: a software environment for sequence data. Nucleic Acids Res. 2004, 32:1363-1371.
77. Machado A., Almeida C., Carvalho A., Boyen F., Haesebrouck F., Rodrigues L., Cerca N., Azevedo N.F. Fluorescence in situ hybridization method using a peptide nucleic acid probe for identification of Lactobacillus spp. in milk samples. Int. J. Food Microbiol. 2013, 162:64-70.
78. Malorny B., Huehn S., Dieckmann R., Krämer N., Helmuth R. Polymerase chain reaction for the rapid detection and serovar identification of Salmonella in food and feeding stuff. Food Anal. Methods 2009, 2:81-95.
79. Mandal P.K., Biswas A.K., Choi K., Pal U.K. Methods for rapid detection of foodborne pathogens: an overview. Am. J. Food Technol. 2011, 6:87-102.
80. Manti A., Boi P., Amalfitano S., Puddu A., Papa S. Experimental improvements in combining CARD-FISH and flow cytometry for bacterial cell quantification. J.Microbiol. Methods 2011, 87:309-315.
81. Mbuthia P.G., Christensen H., Boye M., Petersen K.M., Bisgaard M., Nyaga P.N., Olsen J.E. Specific detection of Pasteurella multocida in chickens with fowl cholera and in pig lung tissues using fluorescent rRNA in situ hybridization. J.Clin. Microbiol. 2001, 39:2627-2633.
82. McClelland R.G., Pinder A.C. Detection of Salmonella typhimurium in dairy products with flow cytometry and monoclonal antibodies. Appl. Environ. Microbiol. 1994, 60:4255-4262.
83. Milner M.G., Saunders J.R., McCarthy A.J. Relationship between nucleic acid ratios and growth in Listeria monocytogenes. Microbiology 2001, 147:2689-2696.
84. Moreno Y., Herńandez M., Ferrús M.A., Alonso J.L., Botella S., Montes R., Hernández J. Direct detection of thermotolerant campylobacters in chicken products by PCR and in situ hybridization. Res. Microbiol. 2001, 152:577-582.
85. Myers J. Automated slide stainers for SS, IHC, and ISH: a review of current technologies and commercially available systems. MLO Med. Lab. Obs. 2004, 36:28-30.
86. Myers J. Automated IHC/ISH slide staining systems: current technologies and other considerations. MLO Med. Lab. Obs. 2012, 44:48-50.
87. Novikov E., Barillot E. Software package for automatic microarray image analysis (MAIA). Bioinformatics 2007, 23:639-640.
88. Nugen S.R., Baeumner A.J. Trends and opportunities in food pathogen detection. Anal. Bioanal. Chem. 2008, 391:451-454.
89. Oliveira M., Andrade G., Guerra M. Development of a fluorescent in situ hybridization protocol for the rapid detection and enumeration of Listeria monocytogenes in milk. Rev. Port. Ciencias Veterinarias 2003, 98:119-124.
90. Oliveira M., Blasco L., Ferrer S., Bernardo F. Rapid and simultaneous detection of Salmonella spp. and Listeria monocytogenes in milk by fluorescent in situ hybridisation. Rev. Port. Ciencias Veterinarias 2004, 99:215-218.
91. Oliveira M., Vieira-Pinto M., Martins da Costa P., Vilela C.L., Martins C., Bernardo F. Occurrence of Salmonella spp. in samples from pigs slaughtered for consumption: a comparison between ISO 6579:2002 and 23S rRNA fluorescent in situ hybridization method. Food Res. Int. 2012, 45:984-988.
92. Oliver J.D. The viable but nonculturable state in bacteria. J.Microbiol. 2005, 43:93-100.
93. Oliver J.D. Recent findings on the viable but nonculturable state in pathogenic bacteria. FEMS Microbiol. Rev. 2010, 34:415-425.
94. Ootsubo M., Shimizu T., Tanaka R., Sawabe T., Tajima K., Ezura Y. Seven-hour fluorescence in situ hybridization technique for enumeration of Enterobacteriaceae in food and environmental water sample. J.Appl. Microbiol. 2003, 95:1182-1190.
95. Pernthaler A., Pernthaler J., Amann R. Fluorescence in situ hybridization and catalyzed reporter deposition for the identification of marine bacteria. Appl. Environ. Microbiol. 2002, 68:3094-3101.
96. Pernthaler J., Pernthaler A., Amann R. Automated enumeration of groups of marine picoplankton after fluorescence in situ hybridization. Appl. Environ. Microbiol. 2003, 69:2631-2637.
97. Perry-O'Keefe H., Stender H., Broomer A., Oliveira K., Coull J., Hyldig-Nielsen J.J. Filter-based PNA in situ hybridization for rapid detection, identification and enumeration of specific microorganisms. J.Appl. Microbiol. 2001, 90:180-189.
98. Porter J., Robinson J., Pickup R., Edwards C. An evaluation of lectin-mediated magnetic bead cell sorting for the targeted separation of enteric bacteria. J.Appl. Microbiol. 1998, 84:722-732.
99. Regnault B., Martin-Delautre S., Lejay-Collin M., Lefèvre M., Grimont P.A. Oligonucleotide probe for the visualization of Escherichia coli/Escherichia fergusonii cells by in situ hybridization: specificity and potential applications. Res. Microbiol. 2000, 151:521-533.
100. Rueda L., Rezaeian I. Afully automatic gridding method for cDNA microarray images. BMC Bioinforma. 2011, 12.
101. Schmid M., Walcher M., Bubert A., Wagner M., Wagner M., Schleifer K.H. Nucleic acid-based, cultivation-independent detection of Listeria spp. and genotypes of L.monocytogenes. FEMS Immunol. Med. Microbiol. 2003, 35:215-225.
102. Schmid M.W., Lehner A., Stephan R., Schleifer K.H., Meier H. Development and application of oligonucleotide probes for in situ detection of thermotolerant Campylobacter in chicken faecal and liver samples. Int. J. Food Microbiol. 2005, 105:245-255.
103. Schönhuber W., Zarda B., Eix S., Rippka R., Herdman M., Ludwig W., Amann R. In situ identification of cyanobacteria with horseradish peroxidase-labeled, rRNA-targeted oligonucleotide probes. Appl. Environ. Microbiol. 1999, 65:1259-1267.
104. Schrader C., Schielke A., Ellerbroek L., Johne R. PCR inhibitors - occurrence, properties and removal. J.Appl. Microbiol. 2012, 113:1014-1026.
105. Shimizu S., Ootsubo M., Kubosawa Y., Fuchizawa I., Kawai Y., Yamazaki K. Fluorescent in situ hybridization in combination with filter cultivation (FISHFC) method for specific detection and enumeration of viable Clostridium perfringens. Food Microbiol. 2009, 26:425-431.
106. Smith E.M., Green L.E., Mason D. Savinase is a bactericidal enzyme. Appl. Environ. Microbiol. 2003, 69:719-721.
107. Stender H., Oliveira K., Rigby S., Bargoot F., Coull J. Rapid detection, identification, and enumeration of Escherichia coli by fluorescence in situ hybridization using an array scanner. J.Microbiol. Methods 2001, 45:31-39.
108. Stephan R., Schumacher S., Zychowska M.A. The VIT technology for rapid detection of Listeria monocytogenes and other Listeria spp. Int. J. Food Microbiol. 2003, 89:287-290.
109. Stevens K.A., Jaykus L.A. Bacterial separation and concentration from complex sample matrices: a review. Crit. Rev. Microbiol. 2004, 30:7-24.
110. Takada T., Matsumoto K., Nomoto K. Development of multi-color FISH method for analysis of seven Bifidobacterium species in human feces. J.Microbiol. Methods 2004, 58:413-421.
111. Thelen K., Beimfohr C., Bohak I., Back W. Specific rapid detection test for beer-spoilage bacteria using fluorescently labelled gene probes. Brauwelt Int. 2002, 3:155-159.
112. Thelen K., Beimfohr C., Snaidr J. Specific rapid detection of Alicyclobacillus by fluorescently-labeled gene probes in fruit juices. Fruit. Process. 2003, 6:416-418.
113. Theodosiou Z., Kasampalidis I.N., Livanos G., Zervakis M., Pitas I., Lyroudia K. Automated analysis of FISH and immunohistochemistry images: a review. Cytom. A 2007, 71:439-450.
114. Thiel R., Blaut M. An improved method for the automated enumeration of fluorescently labelled bacteria in human faeces. J.Microbiol. Methods 2005, 61:369-379.
115. Tortorello M., Reineke K. Direct enumeration of Escherichia coli and enteric bacteria in water, beverages and sprouts by 16S rRNA in situ hybridization. Food Microbiol. 2000, 17:305-313.
116. Veal D.A., Deere D., Ferrari B., Piper J., Attfield P.V. Fluorescence staining and flow cytometry for monitoring microbial cells. J.Immunol. Methods 2000, 243:191-210.
117. Velusamy V., Arshak K., Korostynska O., Oliwa K., Adley C. An overview of foodborne pathogen detection: in the perspective of biosensors. Biotechnol. Adv. 2010, 28:232-254.
118. Vieira-Pinto M., Oliveira M., Bernardo F., Martins C. Evaluation of Fluorescent in situ Hybridization (FISH) as a rapid screening method for detection of Salmonella in tonsils of slaughtered pigs for consumption: a comparison with conventional culture method. J.Food Saf. 2005, 25:109-119.
119. Vieira-Pinto M., Oliveira M., Bernardo F., Martins C. Rapid detection of Salmonella sp. in pork samples using fluorescent in situ hybridization: a comparison with VIDAS-SLM system and ISO 6579 cultural method. Arq. Bras. Med. Veterinária Zootec. 2007, 59:1388-1393.
120. Wagner M., Schmid M., Juretschko S., Trebesius K.H., Bubert A., Goebel W., Schleifer K.H. In situ detection of a virulence factor mRNA and 16S rRNA in Listeria monocytogenes. FEMS Microbiol. Lett. 1998, 160:159-168.
121. Wagner M., Horn M., Daims H. Fluorescence in situ hybridisation for the identification and characterisation of prokaryotes. Curr. Opin. Microbiol. 2003, 6:302-309.
122. Wagner M., Haider S. New trends in fluorescence in situ hybridization for identification and functional analyses of microbes. Curr. Opin. Biotechnol. 2012, 23:96-102.
123. Walker C.L., Black R.E. Diarrhoea morbidity and mortality in older children, adolescents, and adults. Epidemiol. Infect. 2010, 138:1215-1226.
124. Wauters J., Assche E.V., Antsaklis A., Tepperberg J., Sharp S.M., Kilpatrick M.W., Tafas T., Tsipouras P. Fully automated FISH examination of amniotic fluid cells. Prenat. Diagn. 2007, 27:951-955.
125. Weiler C., Ifland A., Naumann A., Kleta S., Noll M. Incorporation of Listeria monocytogenes strains in raw milk biofilms. Int. J. Food Microbiol. 2013, 161:61-68.
126. Yamaguchi N., Kitaguchi A., Nasu M. Selective enumeration of viable Enterobacteriaceae and Pseudomonas spp. in milk within 7 h by multicolor fluorescence in situ hybridization following microcolony formation. J.Biosci. Bioeng. 2012, 113:746-750.
127. Yilmaz L.S., Parnerkar S., Noguera D.R. mathFISH, a web tool that uses thermodynamics-based mathematical models for in silico evaluation of oligonucleotide probes for fluorescence in situ hybridization. Appl. Environ. Microbiol. 2011, 77:1118-1122.
128. Zeder M., Pernthaler J. Multispot live-image autofocusing for high-throughput microscopy of fluorescently stained bacteria. Cytom. A 2009, 75:781-788.
129. Zhang X., Wu S., Li K., Shuai J., Dong Q., Fang W. Peptide nucleic acid fluorescence in situ hybridization for identification of Listeria genus, Listeria monocytogenes and Listeria ivanovii. Int. J. Food Microbiol. 2012, 157:309-313.