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E-raamat: Microarray Detection and Characterization of Bacterial Foodborne Pathogens

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Microarray Detection and Characterization of Bacterial Foodborne PathogensSuurem pilt
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This is a review of recent advances on the use of DNA microarray for diagnosing foodborne pathogens. Rapid detection and characterization of foodborne pathogens is critical for food safety. Many relevant technologies have been intensively developed to date. DNA microarray technology offers a new way to food safety involving pathogen detection and characterization. DNA microarray can be used for detection and characterization of pathogens by analyzing hybridization patterns between capture probes and nucleic acids isolated from food samples or bacteria. It allows more rapid, accurate, and cost-effective detection of pathogens compared with traditional approaches of cultivation or immuno-assays. The application of DNA microarrays to different foodborne bacteria, such as Campylobacter, Salmonella, Listeria monocytogenes, or Shiga toxin producing Escherichia coli, will improve their rapid identification and characterization of their genetic traits (e.g., antimicrobial resistance, virulence). As bacterial foodborne diseases are posing more serious threats to public healthcare, development of rapid and accurate methods for pathogen detection and characterization is critical to their proper control at the earliest time.
1 Introduction to Foodborne Diseases
1(12)
1.1 Foodborne Diseases Remain a Significant Cause of Morbidity and Mortality
1(1)
1.2 Current Trends in Foodborne Diseases
2(2)
1.3 Emerging Foodborne Diseases
4(2)
1.4 Surveillance and Control of Foodborne Diseases
6(4)
References
10(3)
2 Detection, Identification, and Analysis of Foodborne Pathogens
13(20)
2.1 Introduction
13(2)
2.2 Separation and Concentration of Microorganisms Present in Food
15(1)
2.3 Traditional Culture Methods
16(1)
2.3.1 Quantitative Culture Methods
16(1)
2.3.2 Qualitative Culture Methods
16(1)
2.4 Rapid and Automated Methods
17(6)
2.4.1 Changes to Culture Methods
17(1)
2.4.2 ATP Bioluminescence
18(1)
2.4.3 Microscopic Methods
19(1)
2.4.4 Immunological Detection Methods
20(1)
2.4.5 Molecular Detection Methods
21(2)
2.5 Conclusions About Traditional and Rapid Methods
23(1)
2.6 Identification and Characterization of Microorganisms
24(5)
References
29(4)
3 DNA Microarrays: Principles and Technologies
33(16)
3.1 Introduction
33(1)
3.2 DNA Microarray Principles and Technologies
34(6)
3.2.1 Printed DNA Microarrays
35(2)
3.2.2 In Situ-Synthesized Oligonucleotide Microarrays
37(1)
3.2.3 Suspension Bead Arrays
38(1)
3.2.4 High-Density Bead Arrays
39(1)
3.3 Microarray Approaches and Applications
40(2)
3.3.1 mRNA Gene Expression Profiling
40(1)
3.3.2 Analysis of Genomic DNA
41(1)
3.4 Microarray Methodologies
42(4)
3.4.1 Sample Preparation
43(1)
3.4.2 Hybridization
44(1)
3.4.3 Image Capture
45(1)
References
46(3)
4 Bioinformatics in Support of Microarray Experiments
49(44)
4.1 Introduction
49(1)
4.2 Microarray Probe Design
50(13)
4.2.1 Probe Design in Microarrays for the Detection of Pathogens
51(8)
4.2.2 Other Aspects Related to Probe Design
59(4)
4.3 Microarray Data Analysis
63(18)
4.3.1 Microarray Image Analysis
63(5)
4.3.2 Microarray Numerical Data Analysis
68(13)
4.4 Microarray Data Management and Standards
81(5)
4.4.1 Microarray Data Repositories
83(3)
4.5 Microarray Quality Control and Assessment
86(1)
4.6 Probe Design Example Using PremierBiosoft's Array Designer 4.2
87(4)
References
91(2)
5 Applications of DNA Microarrays to Study Bacterial Foodborne Pathogens
93(22)
5.1 DNA Microarrays to Study Bacterial Foodborne Diseases
93(1)
5.2 Microarrays to Obtain Gene Expression Profilings to Study Foodborne Pathogens
94(5)
5.2.1 Identification of Expression Profiles in Pathogens Associated with Virulence and Pathways of Host-Pathogen Interactions
95(2)
5.2.2 Studies of Pathogen Responses to Environmental Changes and Food Preservation Methods
97(2)
5.2.3 Studies of Pathogen Responses and Resistance to Antimicrobials
99(1)
5.3 Microarrays to Study Variations in DNA Sequence
99(9)
5.3.1 Detection of Foodborne Bacteria
99(4)
5.3.2 Genotyping of Foodborne Bacteria
103(5)
5.4 Microarrays to Study Protein-DNA Interactions in Bacteria
108(1)
References
108(7)
6 Future Trends
115(10)
6.1 Other Microarray Technologies
115(2)
6.1.1 Protein Microarrays
115(2)
6.1.2 Polysaccharide Microarrays
117(1)
6.1.3 Phenotype Microarrays
117(1)
6.2 Biosensors
117(1)
6.3 Nanotechnology for Molecular Diagnostics
118(1)
6.4 Next-Generation High-Throughput Sequencing Technologies
119(2)
References
121(4)
Index 125
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