Evaluation of loop-mediated isothermal amplification (LAMP) assays based on 5S rDNA-IGS2 regions for detecting Meloidogyne enterolobii

Plant Pathology

Volumn 61, Issue 4, 2012, Pages 809-819

  Niu, J H ^a,b   Jian, H ^a   Guo, Q X ^a   Chen, C L ^a   Wang, X Y ^a   Liu, Q ^a   Guo, Y D ^a  

^a CHINA AGRICULTURAL UNIVERSITY   (China)

^b CATAS   (China)

Author keywords

Loop mediated isothermal amplification (LAMP); Meloidogyne enterolobii; Molecular diagnosis; Root knot nematode

Indexed keywords

BIOASSAY; DNA; ELECTROKINESIS; ENZYME ACTIVITY; FIELD SURVEY; GENOMICS; MOLECULAR ANALYSIS; NEMATODE; PERFORMANCE ASSESSMENT; POLYMERASE CHAIN REACTION; QUARANTINE; SAMPLING;

MELOIDOGYNE; MELOIDOGYNE ENTEROLOBII; MELOIDOGYNE JAVANICA;

EID: 84864011964     PISSN: 00320862     EISSN: 13653059     Source Type: Journal    
DOI: 10.1111/j.1365-3059.2011.02562.x     Document Type: Article

References (45)

1. Adam MAM, Phillips MS, Blok VC, 2007. Molecular diagnostic key for identification of single juveniles of seven common and economically important species of root-knot nematode (Meloidogyne spp.). Plant Pathology 56, 190-7.
2. Bekele B, Hodgetts J, Tomlinson J et al., 2011. Use of a real-time LAMP isothermal assay for detecting 16SrII and 16SrXII phytoplasmas in fruit and weeds of the Ethiopian Rift Valley. Plant Pathology 60, 345-55.
3. Blok VC, Phillips MS, Fargette M, 1997. Comparison of sequences from the ribosomal DNA intergenic region of Meloidogyne mayaguensis and other major tropical root-knot nematodes. Journal of Nematology 29, 16-22.
4. Blok VC, Wishart J, Fargette M, Berthier K, Phillips MS, 2002. Mitochondrial DNA differences distinguishing Meloidogyne mayaguensis from the major species of tropical root-knot nematodes. Journal of Nematology 4, 773-81.
5. Brito JA, Powers TO, Mullin PG, Inserra RN, Dickson DW, 2004a. Morphological and molecular characterization of Meloidogyne mayaguensis isolates from Florida. Journal of Nematology 36, 232-40.
6. Brito JA, Stanley J, Cetintas R et al., 2004b. Identification and host preference of Meloidogyne mayaguensis and other root-knot nematodes from Florida, and their susceptibility to Pasteuria penetrans. Journal of Nematology 36, 308-9.
7. Brito JA, Stanley JD, Kaur R et al., 2007. Effects of the Mi-1, N and Tabasco genes on infection and reproduction of Meloidogyne mayaguensis on tomato and pepper genotypes. Journal of Nematology 39, 327-32.
8. Castagnone-Sereno P, Esparrago G, Abad P, Leroy F, Bongiovanni M, 1995. Satellite DNA as a target for PCR-specific detection of the plant-parasitic nematode Meloidogyne hapla. Current Genetics 28, 566-70.
9. De Giorgi C, Veronico P, De Luca F, Natilla A, Lanave C, Pesole G, 2002. Structural and evolutionary analysis of the ribosomal genes of the parasitic nematode Meloidogyne artiellia suggests its ancient origin. Molecular and Biochemical Parasitology 124, 91-4.
10. De Waele D, Elsen A, 2007. Challenges in tropical plant nematology. Annual Review of Phytopathology 45, 457-85.
11. Eisenback JD, Hirschmann H, Sasser JN, Triantaphyllou AC, 1981. A More Complete Characterization of the Four Most Common Species of Root-Knot Nematodes (Meliodogyne spp.) with Pictorial Key. Raleigh, NC, USA: IMP.
12. EPPO, 2008. An emerging root-knot nematode, Meloidogyne enterolobii: addition to the EPPO Alert List. EPPO Reporting Service, 2008/105.
13. Fargette M, 1987. Use of the esterase phenotype in the taxonomy of the genus Meloidogyne. 2. Esterase phenotypes observed in West African populations and their characterization. Revue de Nématologie 10, 45-56.
14. Fargette M, Phillips MS, Blok V, Waugh R, Trudgill DL, 1996. An RFLP study of relationships between species, isolates and resistance-breaking lines of tropical species of Meloidogyne. Fundamental and Applied Nematology 19, 193-200.
15. Ferris VR, Ferris JM, Faghihi J, 1993. Variation in spacer ribosomal DNA in some cyst-forming species of plant parasitic nematodes. Fundamental and Applied Nematology 16, 177-84.
16. Francois P, Tangomo M, Hibbs J et al., 2011. Robustness of a loop-mediated isothermal amplification reaction for diagnostic applications. FEMS Immunology and Medical Microbiology 62, 41-8.
17. Goto M, Honda E, Ogura A, Nomoto A, Hanaki K-I, 2009. Colorimetric detection of loop-mediated isothermal amplification reaction by using hydroxyl naphthol blue. BioTechniques 46, 167-72.
18. Hall TA, 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series 41, 95-8.
19. Handoo ZA, Nyczepir AP, Esmenjaud D et al., 2004. Morphological, molecular, and differential-host characterization of Meloidogyne floridensis n. sp. (Nematoda: Meloidogynidae), a root-knot nematode parasitizing peach in Florida. Journal of Nematology 36, 20-35.
20. Handoo ZA, Skantar AM, Carta LK, Schmitt DP, 2005a. Morphological and molecular evaluation of a Meloidogyne hapla population damaging coffee (Coffea arabica) in Maui, Hawaii. Journal of Nematology 37, 136-45.
21. Handoo ZA, Skantar AM, Carta LK, Erbe EF, 2005b. Morphological and molecular characterization of a new root-knot nematode, Meloidogyne thailandica n. sp. (Nematoda: Meloidogynidae), parasitizing ginger (Zingiber sp.). Journal of Nematology 37, 343-53.
22. Kiatpathomchai W, Jaroenram W, Arunrut N, Jitrapakdee S, Flegel TW, 2008. Shrimp Taura syndrome virus detection by reverse transcription loop-mediated isothermal amplification combined with a lateral flow dipstick. Journal of Virological Methods 153, 214-7.
23. Kikuchi T, Aikawa T, Oeda Y, Karim N, Kanzaki N, 2009. A rapid and precise diagnostic method for detecting the pinewood nematode Bursaphelenchus xylophilus by loop-mediated isothermal amplification. Phytopathology 99, 1365-9.
24. Larkin MA, Blackshields G, Brown NP et al., 2007. ClustalW and ClustalX version 2.0. Bioinformatics 23, 2947-8.
25. Lee SY, Huang JG, Chuang TL et al., 2008. Compact optical diagnostic device for isothermal nucleic acids amplification. Sensors and Actuators B: Chemical 133, 493-501.
26. Lucchi NW, Demas A, Narayanan J et al., 2010. Real-time fluorescence loop mediated isothermal amplification for the diagnosis of malaria. PLoS ONE 5, e13733.
27. Mori Y, Notomi T, 2009. Loop-mediated isothermal amplification (LAMP): a rapid, accurate, and cost-effective diagnostic method for infectious diseases. Journal of Infection and Chemotherapy 15, 62-9.
28. Niessen L, Vogel RF, 2010. Detection of Fusarium graminearum DNA using a loop-mediated isothermal amplification (LAMP) assay. International Journal of Food Microbiology 140, 183-91.
29. Niu JH, Guo QX, Jian H et al., 2011. Rapid detection of Meloidogyne spp. by LAMP assay in soil and roots. Crop Protection 8, 1063-9.
30. Notomi T, Okayama H, Masubuchi H et al., 2000. Loop-mediated isothermal amplification of DNA. Nucleic Acids Research 28, E63.
31. Rammah A, Hirschmann H, 1988. Meloidogyne mayaguensis n. sp. (Meloidogynidae), a root-knot nematode from Puerto Rico. Journal of Nematology 20, 58-69.
32. Randig O, Deau F, Santos MFA, Tigano MS, Carneiro RMDG, Catagnone-Sereno P, 2009. A novel species-specific satellite DNA family in the invasive root-knot nematode Meloidogyne mayaguensis and its potential use for diagnostics. European Journal of Plant Pathology 125, 485-95.
33. Skantar AM, Carta LK, Handoo ZA, 2008. Molecular and morphological characterization of an unusual Meloidogyne arenaria population from traveler's tree, Ravenala madagascariensis. Journal of Nematology 40, 179-89.
34. Stratford R, Shields R, 1994. A trans-spliced leader RNA sequence in plant parasitic nematodes. Molecular and Biochemical Parasitology 67, 147-55.
35. Sun J, Li X, Zeng H et al., 2010. Development and evaluation of loop-mediated isothermal amplification (LAMP) for the rapid diagnosis of Penicillium marneffei in archived tissue samples. FEMS Immunology and Medical Microbiology 58, 381-8.
36. Tigano M, De Siqueira K, Castagnone-Sereno P et al., 2010. Genetic diversity of the root-knot nematode Meloidogyne enterolobii and development of a SCAR marker for this guava-damaging species. Plant Pathology 59, 1054-61.
37. Tomita N, Mori Y, Kanda H, Notomi T, 2008. Loop-mediated isothermal amplification (LAMP) of gene sequences and simple visual detection of products. Nature Protocols 3, 877-82.
38. Tomlinson JA, Boonham N, Dickinson M, 2010a. Development and evaluation of a one-hour DNA extraction and loop-mediated isothermal amplification assay for rapid detection of phytoplasmas. Plant Pathology 59, 465-71.
39. Tomlinson JA, Dickinson M, Boonham N, 2010b. A rapid method for detection of plant pathogens, comprising a two-minute DNA extraction method, isothermal amplification, and amplicon detection by generic lateral flow device. Phytopathology 100, 143-9.
40. Wishart J, Phillips MS, Blok VC, 2002. Ribosomal intergenic spacer: a polymerase chain reaction diagnostic for Meloidogyne chitwoodi, M. fallax, and M. hapla. Phytopathology 92, 884-92.
41. Xu J, Liu P, Meng Q, Long H, 2004. Characterization of Meloidogyne species from China using isozyme, phenotypes and amplified mitochondrial DNA restriction fragment length polymorphism. European Journal of Plant Pathology 110, 309-15.
42. Yang B, Eisenback JD, 1983. Meloidogyne enterolobii n. sp. (Meloidogynidae), a root-knot nematode parasitizing pacara earpod tree in China. Journal of Nematology 15, 381-91.
43. Zijlstra C, Uenk BJ, Van Silfhout CH, 1997. A reliable, precise method to differentiate species of root-knot nematodes in mixtures on the basis of ITS-RFLPs. Fundamental and Applied Nematology 20, 59-63.
44. Zijlstra C, Donkers-Venne DTHM, Fargette M, 2000. Identification of Meloidogyne incognita, M. javanica and M. arenaria using sequence characterised amplified region (SCAR) based PCR assays. Nematology 2, 847-53.
45. Zoheir KM, Allam AA, 2011. A rapid improved method for sexing embryo of water buffalo. Theriogenology 76, 83-7.