Direct or DNA Extraction-Free Amplification and Quantification of Foodborne Pathogens

Vázquez-Boland JA, Kuhn M, Berche P, Chakraborty T, Domínguez-Bernal G, Goebel W et al (2001) Listeria pathogenesis and molecular virulence determinants. Clin Microbiol Rev. https://doi.org/10.1128/CMR.14.3.584-640.2001

Jones MK, Oliver JD (2009) Vibrio vulnificus: disease and pathogenesis. Infect Immun. https://doi.org/10.1128/IAI.01046-08

Skarp CPA, Hänninen ML, Rautelin HIK (2016) Campylobacteriosis: the role of poultry meat. Clin Microbiol Infect. https://doi.org/10.1016/j.cmi.2015.11.019

Friedman C, Neiman J, Wegener H, Tauxe R (2000) Epidemiology of campylobacter jejuni infections in the United States and other industrialized nations. ASM International

Google Scholar 

Scallan E, Hoekstra RM, Angulo FJ, Tauxe RV, Widdowson MA, Roy SL et al (2011) Foodborne illness acquired in the United States-major pathogens. Emerg Infect Dis 17. https://doi.org/10.3201/eid1701.P11101

Garrido-Maestu A, Prado M (2022) Naked-eye detection strategies coupled with isothermal nucleic acid amplification techniques for the detection of human pathogens. Compr Rev Food Sci Food Saf 2022. https://doi.org/10.1111/1541-4337.12902

Xia X, Yang H, Cao J, Zhang J, He Q, Deng R (2022) Isothermal nucleic acid amplification for food safety analysis. TrAC. https://doi.org/10.1016/j.trac.2022.116641

Iturriza-Gomara M, O’Brien SJ (2016) Foodborne viral infections. Curr Opin Infect Dis. https://doi.org/10.1097/QCO.0000000000000299

Fakruddin M, Mazumdar R, Chowdhury A, Mannan K (2012) Nucleic acid sequence based amplification (NASBA)-prospects and applications. Int J Life Sci Pharm Res 2

Google Scholar 

Yan L, Zhou J, Zheng Y, Gamson AS, Roembke BT, Nakayama S et al (2014) Isothermal amplified detection of DNA and RNA. Mol BioSyst. https://doi.org/10.1039/c3mb70304e

Zhang X, Lowe SB, Gooding JJ (2014) Brief review of monitoring methods for loop-mediated isothermal amplification (LAMP) (2014). Biosens Bioelectron 61. https://doi.org/10.1016/j.bios.2014.05.039

Abdullahi UF, Naim R, Taib WRW, Saleh A, Muazu A, Aliyu S et al (2015) Loop-mediated isothermal amplification (LAMP), an innovation in gene amplification: bridging the gap in molecular diagnostics; a review. Indian J Sci Technol 8. https://doi.org/10.17485/ijst/2015/v8i17/55767

Jansen F, Dorny P, Gabriël S, Dermauw V, Johansen MV, Trevisan C (2021) The survival and dispersal of Taenia eggs in the environment: what are the implications for transmission? Parasites Vectors, A systematic review. https://doi.org/10.1186/s13071-021-04589-6

Book  Google Scholar 

van der Giessen J, Deksne G, Gómez-Morales MA, Troell K, Gomes J, Sotiraki S et al (2021) Surveillance of foodborne parasitic diseases in Europe in a one health approach. Parasite Epidemiol Control 13. https://doi.org/10.1016/j.parepi.2021.e00205

Mahdavi Abhari F, Niyyati M, Assadzadeh Aghdaei H, Mirjalali H (2022) Loop mediated isothermal amplification for detection of foodborne parasites: a journey from lab to lab-on-a-chip. Food Control. https://doi.org/10.1016/j.foodcont.2022.109251

Amiri S, Shemshadi B, Shirali S, Kheirandish F, Fallahi S (2021) Accurate and rapid detection of Fasciola hepatica copro-DNA in sheep using loop-mediated isothermal amplification (LAMP) technique. Vet Med Sci 7. https://doi.org/10.1002/vms3.455

Ponce C, Kaczorowski F, Perpoint T, Miailhes P, Sigal A, Javouhey E et al (2017) Diagnostic accuracy of loop-mediated isothermal amplification (LAMP) for screening patients with imported malaria in a non-endemic setting. Parasite 24. https://doi.org/10.1051/parasite/2017054

Khan MGM, Bhaskar KRH, Salam MA, Akther T, Pluschke G, Mondal D (2012) Diagnostic accuracy of loop-mediated isothermal amplification (LAMP) for detection of Leishmania DNA in buffy coat from visceral leishmaniasis patients. Parasit Vectors 5. https://doi.org/10.1186/1756-3305-5-280

Lass A, Szostakowska B, Korzeniewski K, Karanis P (2017) Detection of Giardia intestinalis in water samples collected from natural water reservoirs and wells in northern and North-Eastern Poland using LAMP, real-time PCR and nested PCR. J Water Health 15. https://doi.org/10.2166/wh.2017.039

Zhao Y, Chen F, Li Q, Wang L, Fan C (2015) Isothermal amplification of nucleic acids. Chem Rev. https://doi.org/10.1021/acs.chemrev.5b00428

Hiett KL, Cox NA, Stern NJ (2002) Direct polymerase chain reaction detection of campylobacter spp. in poultry hatchery samples. Avian Dis 46. https://doi.org/10.1637/0005-2086(2002)046[0219:DPCRDO]2.0.CO;2

Winters DK, O’Leary AE, Slavik MF (1997) Rapid PCR with nested primers for direct detection of campylobacter jejuni in chicken washes. Mol Cell Probes 11. https://doi.org/10.1006/mcpr.1997.0116

Wang F, Jiang L, Ge B (2012) Loop-mediated isothermal amplification assays for detecting Shiga toxin-producing Escherichia coli in ground beef and human stools. J Clin Microbiol 50. https://doi.org/10.1128/JCM.05612-11

Han F, Ge B (2008) Evaluation of a loop-mediated isothermal amplification assay for detecting Vibrio vulnificus in raw oysters. Foodborne Pathog Dis 5. https://doi.org/10.1089/fpd.2008.0084

Koloren Z, Sotiriadou I, Karanis P (2011) Investigations and comparative detection of Cryptosporidium species by microscopy, nested PCR and LAMP in water supplies of Ordu, middle Black Sea. Turkey Ann Trop Med Parasitol 105. https://doi.org/10.1179/2047773211Y.0000000011

Chin WH, Sun Y, Høgberg J, Quyen TL, Engelsmann P, Wolff A et al (2017) Direct PCR – a rapid method for multiplexed detection of different serotypes of salmonella in enriched pork meat samples. Mol Cell Probes 32. https://doi.org/10.1016/j.mcp.2016.11.004

Plante D, Bélanger G, Leblanc D, Ward P, Houde A, Trottier YL (2011) The use of bovine serum albumin to improve the RT-qPCR detection of foodborne viruses rinsed from vegetable surfaces. Lett Appl Microbiol 52. https://doi.org/10.1111/j.1472-765X.2010.02989.x

Wolffs PFG, Glencross K, Thibaudeau R, Griffiths MW (2006) Direct quantitation and detection of salmonellae in biological samples without enrichment, using two-step filtration and real-time PCR. Appl Environ Microbiol 72. https://doi.org/10.1128/AEM.02112-05

Wang L, Li P, Zhang Z, Chen Q, Aguilar ZP, Xu H et al (2014) Rapid and accurate detection of viable Escherichia coli O157: H7 in milk using a combined IMS, sodium deoxycholate, PMA and real-time quantitative PCR process. Food Control 36. https://doi.org/10.1016/j.foodcont.2013.08.011

Jenïkovâ G, Pazlarovâ J, Demnerovâ K (2000) Detection of salmonella in food samples by the combination of immunomagnetic separation and PCR assay. Int Microbiol 3

Google Scholar 

Amagliani G, Brandi G, Omiccioli E, Casiere A, Bruce IJ, Magnani M (2004) Direct detection of listeria monocytogenes from milk by magnetic based DNA isolation and PCR. Food Microbiol 21. https://doi.org/10.1016/j.fm.2003.10.008

Choi G, Jung JH, Park BH, Oh SJ, Seo JH, Choi JS et al (2016) A centrifugal direct recombinase polymerase amplification (direct-RPA) microdevice for multiplex and real-time identification of food poisoning bacteria. Lab Chip 16. https://doi.org/10.1039/c6lc00329j

Tran DH, Tran HT, Pham TNM, Phung HTT (2022) Direct multiplex recombinase polymerase amplification for rapid detection of Staphylococcus aureus and Pseudomonas aeruginosa in food. Mol Biol Res Commun 11. https://doi.org/10.22099/mbrc.2021.41503.1664

You DJ, Geshell KJ, Yoon JY (2011) Direct and sensitive detection of foodborne pathogens within fresh produce samples using a field-deployable handheld device. Biosens Bioelectron 28. https://doi.org/10.1016/j.bios.2011.07.055

Stedtfeld RD, Tourlousse DM, Seyrig G, Stedtfeld TM, Kronlein M, Price S et al (2012) Gene-Z: a device for point of care genetic testing using a smartphone. Lab Chip 12. https://doi.org/10.1039/c2lc21226a

Williams MR, Stedtfeld RD, Engle C, Salach P, Fakher U, Stedtfeld T et al (2017) Isothermal amplification of environmental DNA (eDNA) for direct field-based monitoring and laboratory confirmation of Dreissena sp. PLoS One 12. https://doi.org/10.1371/journal.pone.0186462

Stedtfeld RD, Liu YC, Stedtfeld TM, Kostic T, Kronlein M, Srivannavit O et al (2015) Static self-directed sample dispensing into a series of reaction wells on a microfluidic card for parallel genetic detection of microbial pathogens. Biomed Microdevices 17. https://doi.org/10.1007/s10544-015-9994-1

Benson DA, Cavanaugh M, Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J et al (2013) GenBank. Nucleic Acids Res 41. https://doi.org/10.1093/nar/gks1195

Mori Y, Nagamine K, Tomita N, Notomi T (2001) Detection of loop-mediated isothermal amplification reaction by turbidity derived from magnesium pyrophosphate formation. Biochem Biophys Res Commun 289. https://doi.org/10.1006/bbrc.2001.5921

Notomi T, Okayama H, Masubuchi H, Yonekawa T, Watanabe K, Amino N et al (2000) Loop-mediated isothermal amplification of DNA. Nucleic Acids Res 28. https://doi.org/10.1093/nar/28.12.e63

Tomita N, Mori Y, Kanda H, Notomi T (2008) Loop-mediated isothermal amplification (LAMP) of gene sequences and simple visual detection of products. Nat Protoc 3. https://doi.org/10.1038/nprot.2008.57

Nagamine K, Hase T, Notomi T (2002) Accelerated reaction by loop-mediated isothermal amplification using loop primers. Mol Cell Probes 16. https://doi.org/10.1006/mcpr.2002.0415

Ye J, Coulouris G, Zaretskaya I, Cutcutache I, Rozen S, Madden TL (2012) Primer-BLAST: a tool to design target-specific primers for polymerase chain reaction. BMC Bioinformatics 13. https://doi.org/10.1186/1471-2105-13-134

Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215. https://doi.org/10.1016/S0022-2836(05)80360-2

Henke W, Herdel K, Jung K, Schnorr D, Loening SA (1997) Betaine improves the PCR amplification of GC-rich DNA sequences. Nucleic Acids Res 25. https://doi.org/10.1093/nar/25.19.3957

Njiru ZK (2011) Rapid and sensitive detection of human African trypanosomiasis by loop-mediated isothermal amplification combined with a lateral-flow dipstick. Diagn Microbiol Infect Dis 69. https://doi.org/10.1016/j.diagmicrobio.2010.08.026

Zhou D, Guo J, Xu L, Gao S, Lin Q, Wu Q et al (2014) Establishment and application of a loop-mediated isothermal amplification (LAMP) system for detection of cry1Ac transgenic sugarcane. Sci Rep 4. https://doi.org/10.1038/srep04912

Modak SS, Barber CA, Geva E, Abrams WR, Malamud D, Ongagna YSY (2016) Rapid point-of-care isothermal amplification assay for the detection of malaria without nucleic acid purification. Infect Dis Res Treat 9. https://doi.org/10.4137/idrt.s32162

Luk VN, Mo GC, Wheeler AR (2008) Pluronic additives: a solution to sticky problems in digital microfluidics. Langmuir 24. https://doi.org/10.1021/la7039509

Iwamoto T, Sonobe T, Hayashi K (2003) Loop-mediated isothermal amplification for direct detection of Mycobacterium tuberculosis complex, M. avium, and M. intracellulare in sputum samples. J Clin Microbiol 41. https://doi.org/10.1128/JCM.41.6.2616-2622.2003

Mashooq M, Kumar D, Niranjan AK, Agarwal RK, Rathore R (2016) Development and evaluation of probe based real time loop mediated isothermal amplification for Salmonella: a new tool for DNA quantification. J Microbiol Methods 126. https://doi.org/10.1016/j.mimet.2016.04.014

Han ET, Watanabe R, Sattabongkot J, Khuntirat B, Sirichaisinthop J, Iriko H et al (2007) Detection of four Plasmodium species by genus- and species-specific loop-mediated isothermal amplification for clinical diagnosis. J Clin Microbiol 45. https://doi.org/10.1128/JCM.02117-06

O’Regan E, McCabe E, Burgess C, McGuinness S, Barry T, Duffy G et al (2008) Development of a real-time multiplex PCR assay for the detection of multiple salmonella serotypes in chicken samples. BMC Microbiol 8. https://doi.org/10.1186/1471-2180-8-156

Josefsen MH, Krause M, Hansen F, Hoorfar J (2007) Optimization of a 12-hour TaqMan PCR-based method for detection of salmonella bacteria in meat. Appl Environ Microbiol 73. https://doi.org/10.1128/AEM.02823-06

Cole JR, Wang Q, Fish JA, Chai B, McGarrell DM, Sun Y et al (2014) Ribosomal database project: data and tools for high throughput rRNA analysis. Nucleic Acids Res 42. https://doi.org/10.1093/nar/gkt1244

Alcock BP, Huynh W, Chalil R, Smith KW, Raphenya AR, Wlodarski MA et al (2023) CARD 2023: expanded curation, support for machine learning, and resistome prediction at the comprehensive antibiotic resistance database. Nucleic Acids Res 51. https://doi.org/10.1093/nar/gkac920

Liu B, Zheng D, Zhou S, Chen L, Yang J (2022) VFDB 2022: a general classification scheme for bacterial virulence factors. Nucleic Acids Res 50. https://doi.org/10.1093/nar/gkab1107

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