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Smut is a fungal disease with widespread prevalence in sugarcane planting areas. Early detection and proper identification of  Sporisorium scitamineum  are essential in smut management practices. In the present study, four specific primers targeting the core effector  Pep1  gene of  S. scitamineum  were designed. Optimal concentrations of Mg 2+ , primer and  Bst  DNA polymerase, the three important components of the loop-mediated isothermal amplification (LAMP) reaction system, were screened using a single factor experiment method and the L 16 (4 5 ) orthogonal experimental design. Hence, a LAMP system suitable for detection of  S. scitamineum  was established. High specificity of the LAMP method was confirmed by the assay of  S. scitamineum ,  Fusarium moniliforme ,  Pestalotia ginkgo ,  Helminthospcrium sacchari ,  Fusarium oxysporum  and endophytes of Yacheng05-179 and ROC22. The sensitivity of the LAMP method was equal to that of the conventional PCR targeting  Pep1  gene and was 100 times higher than that of the conventional PCR assay targeting  bE  gene in  S. scitamineum . The results suggest that this novel LAMP system has strong specificity and high sensitivity. This method not only provides technological support for the epidemic monitoring of sugarcane smut, but also provides a good case for development of similar detection technology for other plant pathogens.

Development and application of a rapid and visual loop-mediated isothermal amplification for the detection of Sporisorium scitamineum in sugarcane