Fast detection by loop-mediated isothermal amplification (LAMP) of the three begomovirus species infecting tomato in Panama

Herrera-Vásquez, J. A.; Puchades, Alice; Elvira-González, Laura; Jaén-Sanjur, José Natividad; Carpino, C.; Rubio, Luís; Galipienso, Luis

doi:10.1007/s10658-017-1358-7

Cited by 4 publications

(4 citation statements)

References 23 publications

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“…To diagnose several important DNA and RNA plant viruses, LAMP and reverse transcription LAMP (RT-LAMP) have been used. These viruses include Squash leaf curl virus (SLCV) [35], Tomato chlorosis virus (ToCV) [36], Cucurbit chlorotic yellows virus (CCYV) [37,38], Tomato yellow leaf curl virus (TYLCV) [39], Tomato spotted wilt virus (TSWV) [40], Cucumber mosaic virus (CMV) [41], Potato virus Y (PYV) [42], Potato leafroll virus (PRLV) [43], Cucumber green mottle mosaic virus (CGMMV) [44], Chinese wheat mosaic virus (WCHMV0) [45], Barley yellow dwarf viruses (BYDV) [46], Japanese yam mosaic virus (JYMV) [47], Plum pox virus (PPV) [48], Tobacco mosaic virus (TMV) [49], nine rice-infecting viruses [50], and three begomoviruses infecting tomato in Panama, i.e., Potato yellow mosaic Panama virus (PYMPV), Tomato leaf curl Sinaloa virus (STLCV) and Tomato yellow mottle virus (TYMV) [51]. However, no LAMP technique for the identification of CuLCrV has been previously reported.…”

Section: Introductionmentioning

confidence: 99%

Development of Loop-Mediated Isothermal Amplification Assay for Rapid Detection of Cucurbit Leaf Crumple Virus

Waliullah

Ling

Cieniewicz

et al. 2020

IJMS

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A loop-mediated isothermal amplification (LAMP) assay was developed for simple, rapid and efficient detection of Cucurbit leaf crumple virus (CuLCrV), one of the most important begomoviruses that infects cucurbits worldwide. A set of six specific primers targeting a total 240 nt sequence regions in the DNA A of CuLCrV were designed and synthesized for detection of CuLCrV from infected leaf tissues using real-time LAMP amplification with the Genie® III system, which was further confirmed by gel electrophoresis and SYBR™ Green I DNA staining for visual observation. The optimum reaction temperature and time were determined, and no cross-reactivity was seen with other begomoviruses. The LAMP assay could amplify CuLCrV from a mixed virus assay. The sensitivity assay demonstrated that the LAMP reaction was more sensitive than conventional PCR, but less sensitive than qPCR. However, it was simpler and faster than the other assays evaluated. The LAMP assay also amplified CuLCrV-infected symptomatic and asymptomatic samples more efficiently than PCR. Successful LAMP amplification was observed in mixed virus-infected field samples. This simple, rapid, and sensitive method has the capacity to detect CuLCrV in samples collected in the field and is therefore suitable for early detection of the disease to reduce the risk of epidemics.

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Section: Introductionmentioning

confidence: 99%

Development of Loop-Mediated Isothermal Amplification Assay for Rapid Detection of Cucurbit Leaf Crumple Virus

Waliullah

Ling

Cieniewicz

et al. 2020

IJMS

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“…It is also important to highlight that samples infected with TYLCV, PepGMV and ToLCSiV were found in the border region with Panama. In this country, the bipartite begomoviruses Potato yellow mosaic Panama virus (PYMPV), ToLCSiV and ToYMoV have been reported (Herrera‐Vásquez et al, 2018). Furthermore, considering that B. tabaci MEAM1, which has been associated with the transmission of TYLCV, has also been reported in Panama (Brown & Bird, 1992; Kriticos et al, 2020), special attention should be paid to this border area to avoid or eventually control the transmission of TYLCV.…”

Section: Discussionmentioning

confidence: 99%

Begomovirus diversity in tomato crops in Costa Rica

Valverde‐Méndez,

Hernández,

Matamoros

et al. 2023

Annals of Applied Biology

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Begomoviruses (Geminiviridae family) are characterized by their high recombination rate and a wide range of hosts, making their control difficult. In Costa Rica, various species of bipartite begomoviruses have been reported, which are Pepper golden mosaic virus (PepGMV), Tomato yellow mottle virus (ToYMoV), Tomato leaf curl Sinaloa virus (ToLCSiV) and the monopartite begomovirus Tomato yellow leaf curl virus (TYLCV). Since the TYLCV first report in Costa Rica, neither additional knowledge has been produced on how this begomovirus has spread in the country's territory nor on the distribution of the other bipartite species. A total of 429 tomato samples collected during the years 2015–2016 were used to study these aspects. Each sample was georeferenced and analysed with various techniques such as nucleic acid hybridization, polymerase chain reaction (PCR) and sequencing for the begomoviruses previously reported in Costa Rica. It was found that the presence/absence of the different species can vary, depending on the province. TYLCV is present in the six provinces analysed in this work, with a proportion from 3.7 to 86.6 per cent. Alajuela, Cartago, and Heredia are the provinces most affected by tomato‐infecting begomoviruses. Fourteen different haplotypes of TYLCV were detected, but all were identified as TYLCV‐IL. The distribution of TYLCV was related to the presence of the whitefly Bemisia tabaci MED, especially in the country's main tomato production areas. This information allows the phytosanitary surveillance services to develop strategies for the integrated management of the disease and to contribute data to the genetic improvement programmes of the crop.

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“…Keizerweerd et al showed that LAMP and real-time PCR had the same sensitivity in 0.1 ng for the detection of Puccinia kuehnii and reported that LAMP was specific and rapid [42]. Herrera-Vasquez and colleagues used LAMP for the detection of Begomovirus species infecting tomato; they report the same sensitivity between LAMP and PCR, but mention that LAMP is a rapid specific and cheap method [43]. LAMP isothermal amplification has already been used to detect Pseudomonas syringae pv.…”

Section: Discussionmentioning

confidence: 99%

Loop-mediated isothermal amplification: a rapid molecular technique for early diagnosis of Pseudomonas syringae pv. syringae of stone fruits

Goudarzi

Mortazavi

2020

Journal of Genetic Engineering and Biotechnology

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Background Pathogenic bacteria cause significant economic damages in agriculture. The detection of such bacteria is considered as a continual interest for plant pathologists to prevent disease dissemination. Pseudomonas syringae pv. syringae is one of the most important bacterial pathogens infecting yield and quality of stone fruits throughout the world. Biochemical assays such as a LOPAT and GATTa are common methods to detect this pathogen. Serological tests and culturing on King’s B selective medium also used to isolate this bacterium. Selective media is composed of specific and effective ingredients to inhibit the growth of certain species of microbes in a mixed culture while allowing others to grow. These are used for the growth of only selected microorganisms. King’s B medium can be used as a general medium for the non-selective isolation cultivation and pigment production of Pseudomonas species from foods, cosmetic samples, plants, etc. Nevertheless, the mentioned methods are not enough accurate to differentiate the strains. On the other hand, PCR-based techniques are sensitive and efficient in detecting plant diseases. However, these techniques are not practicable for those researchers who do not have access to a thermal cycler. We have used loop-mediated isothermal amplification to couple with a target. The amplification of syrD gene using loop and bumper primers can be used to prevent disease dissemination. Results The outcome of this investigation indicated more sensitivity of LAMP in comparison to PCR. The direct addition of SYBR Gold in microtube is more sensitive than gel in both LAMP and PCR byproducts so we can eliminate gel electrophoresis, while the LAMP showed high sensitivity and high specificity in comparison to results obtained by cultivation. The described molecular test could detect Pseudomonas syringae pv. syringae type in nearly 1 h, and this is the first time that Lamp molecular detection of Pseudomonas syringae pv. syringae particularly on stone fruits is described and introduced. Conclusions The obtained data confirmed that LAMP is a fast, cheap, and high specific method for the rapid detection of Pseudomonas syringae pv. syringae to the comparison of PCR and culture.

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Fast detection by loop-mediated isothermal amplification (LAMP) of the three begomovirus species infecting tomato in Panama

Cited by 4 publications

References 23 publications

Development of Loop-Mediated Isothermal Amplification Assay for Rapid Detection of Cucurbit Leaf Crumple Virus

Development of Loop-Mediated Isothermal Amplification Assay for Rapid Detection of Cucurbit Leaf Crumple Virus

Begomovirus diversity in tomato crops in Costa Rica

Loop-mediated isothermal amplification: a rapid molecular technique for early diagnosis of Pseudomonas syringae pv. syringae of stone fruits

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