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Loop-Mediated Isothermal Amplification (LAMP) for Detection of Phytoplasmas in the Field

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Plant Pathology

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1302))

Abstract

Loop-mediated isothermal amplification (LAMP) is a nucleic acid-based detection method with many applications. This chapter details its use for detection of phytoplasma diseases, combining a rapid 2-min DNA extraction method with real-time LAMP product detection such that the entire procedure can be undertaken and completed in the field within 40 min. Furthermore, the assays include an anneal curve validation step to guard against false positives and an assay for host plant DNA to guard against false negatives.

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References

  1. Zhao Y et al (2010) Recent advances in 16S rRNA gene-based phytoplasma differentiation, classification and taxonomy. In: Weintraub PG, Jones P (eds) Phytoplasmas: genomes, plant hosts and vectors. CAB International, Wallingford, UK, pp 64–92

    Google Scholar 

  2. Christensen NM, Nyskjold H, Nicolaisen M (2013) Real-time PCR for universal phytoplasma detection and quantification. In: Dickinson M, Hodgetts J (eds) Phytoplasma: methods and protocols. Springer, New York, USA, pp 245–252

    Chapter  Google Scholar 

  3. Christensen NM et al (2004) Distribution of phytoplasmas in infected plants as revealed by real-time PCR and bioimaging. Mol Plant-Microbe Interact 17:1175–1184

    Article  CAS  PubMed  Google Scholar 

  4. Hodgetts J et al (2009) Panel of 23S rRNA gene-based real-time PCR assays for improved universal and group-specific detection of phytoplasmas. Appl Environ Microbiol 75:2945–2950

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  5. Galetto L, Bosco D, Marzachì C (2005) Universal and group-specific real-time PCR diagnosis of flavescence doreé (16Sr-V), bois noir (16Sr-XII) and apple proliferation (16Sr-X) phytoplasmas from field-collected plant hosts and insect vectors. Ann Appl Biol 147:191–201

    Article  CAS  Google Scholar 

  6. Angelini E et al (2007) A new TaqMan method for identification of phytoplasmas associated with grapevine yellows by real-time PCR assay. J Microbiol Methods 68:613–622

    Article  CAS  PubMed  Google Scholar 

  7. Hren M et al (2007) Real-time PCR detection systems for Flavescence dorée and Bois noir phytoplasmas in grapevine: comparison with conventional PCR detection and application in diagnostics. Plant Pathol 56:785–796

    Article  CAS  Google Scholar 

  8. Nikolic P et al (2010) A panel of real-time PCR assays for specific detection of three phytoplasmas from the apple proliferation group. Mol Cell Probes 24:303–309

    Article  CAS  PubMed  Google Scholar 

  9. Notomi T et al (2000) Loop-mediated isothermal amplification of DNA. Nucl Acids Res 28:e63

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  10. Nagamine K et al (2001) Loop-mediated isothermal amplification reaction using a nondenatured template. Clin Chem 47:1742–1743

    CAS  PubMed  Google Scholar 

  11. Tomlinson JA, Boonham N, Dickinson M (2010) Development and evaluation of a one-hour DNA extraction and loop-mediated isothermal amplification assay for rapid detection of phytoplasmas. Plant Pathol 59:465–471

    Article  CAS  Google Scholar 

  12. Bekele B et al (2011) Use of a real-time LAMP isothermal assay for detecting 16SrII and XII phytoplasmas in fruit and weeds of the Ethiopian Rift Valley. Plant Pathol 60:345–355

    Article  CAS  Google Scholar 

  13. Kogovšek P et al (2014) LAMP assay and rapid sample preparation method for on-site detection of Flavescence dorée phytoplasma in grapevine. Plant Pathol. doi:10.1111/ppa.12266

    Google Scholar 

  14. Tomlinson J (2013) In-field diagnostics using loop-mediated isothermal amplification. In: Dickinson M, Hodgetts J (eds) Phytoplasma: methods and protocols. Springer, New York, USA, pp 291–300

    Chapter  Google Scholar 

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Correspondence to Matt Dickinson .

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Dickinson, M. (2015). Loop-Mediated Isothermal Amplification (LAMP) for Detection of Phytoplasmas in the Field. In: Lacomme, C. (eds) Plant Pathology. Methods in Molecular Biology, vol 1302. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-2620-6_8

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  • DOI: https://doi.org/10.1007/978-1-4939-2620-6_8

  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-2619-0

  • Online ISBN: 978-1-4939-2620-6

  • eBook Packages: Springer Protocols

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