Abstract
Loop-mediated isothermal amplification (LAMP) and recombinase polymerase amplification (RPA) are two rapid isothermal amplification methods for detecting three common fungal root pathogens of cool-season turfgrass: Gaeumannomyces avenae, Magnaporthiopsis poae and Ophiosphaerella korrae, “Detection of root-infecting fungi on cool-season turfgrasses using loop-mediated isothermal amplification and recombinase polymerase amplification” (Karakkat et al., 2018) [1]. The data provided here describe the information for designing primers and probes for LAMP and RPA, how specific they are for each of the three fungi, and the evaluation of RPA on field samples.
Highlights
Data for designing two isothermal amplification assays for the detection of root-infecting fungi on cool-season turfgrasses
The data provided here describe the information for designing primers and probes for Loop-mediated isothermal amplification (LAMP) and recombinase polymerase amplification (RPA), how specific they are for each of the three fungi, and the evaluation of RPA on field samples
Specificity of LAMP primers and RPA primer and probes, RPA evaluation on field samples Madison, Wisconsin, USA 43.0731°N, 89.4012°W The data are available with article Karakkat, B.B., Hockemeyer, K., Franchett, M., Olson, M., Mullenberg, C., Koch, P.L, Detection of root-infecting fungi on cool-season turfgrasses using loop-mediated isothermal amplification and recombinase polymerase amplification
Summary
The sequences between the F3 and B3 primers is the largest product formed in a LAMP reaction. In Gaeumannomyces avenae and Magnaporthiopsis poae these sequences share a very high homology (86% identity), but both G. avenae and M. poae had a lesser homology with Ophiosphaerella korrae in this region (45% and 43% identity, respectively) (Fig. 1). The carboxyfluorescein (FAM) and biotin labeled RPA products for G. avenae, M. poae and O. korrae were 89 bp, 94 bp and 108 bp, respectively (Fig. 3). Both assays were tested for false positives that can occur with root-infecting pathogens other than G. avenae, M. poae and O. korrae [1]
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