Table 4 In silico specificity and cross reactivity analysis of LAMP primers through NCBI database and details of 100 hits generated in nBLAST.
List of primers | R. bataticola/M. phaseolina | Other microbes | |||
|---|---|---|---|---|---|
Identity (%) | Number of hits | Identity (%) | Number of hits | Name of the dominant microbes hit in primer blast (numbers in the parentheses denote the number of hits) | |
RB_F3 | 100 | 96 | 100 | 4 | Uncultured Helotiales sp. (4) |
RB_B3 | 100 | 40 | 100 | 60 | Botryosphaeria dothidea (51), Uncultured fungal strains (7), Fusicoccum fabicercianum (2) |
RB_F1c | 100 | 100 | — | — | — |
RB_F2 | 100 | 100 | — | — | — |
RB_B1c | — | ?* | 100 | 100 | Uncultured fungal strains (22), Coniella spp. (14), Uncultured Helotiales sp. (7), Fusarium spp. (6), Oidiodendron sp. (5), Xylariaceae sp. (5), Botryosphaeria dothidea (4), Nemania sp. (4) and remaining hits are of different microbes with single entry |
RB_B2 | — | ?* | 100 | 100 | Coniella sp. (60), Uncultured fungal strains (9), Oidiodendron sp. (9), Fusarium spp. (6), Xylariaceae sp. (5), Microsporum gypseum (4), Nemania sp. (4) and remaining hits are of different microbes with single entry |
RB_Loop_F | 100 | 89 | 100 | 11 | Botryosphaeria mamane (11) |
RB_Loop_B | 100 | 3 | 100 | 6 | Dothideomycetes sp. (1), Hormonema sp. (1), Saccharomyces cerevisiae (1), Ampelomyces quisqualis (1), Uncultured Heyderia (1), Uncultured Helotiales (1) |
— | — | 85–95 | 91 | Uncultured fungal strains (36), Lasiodiplodia theobromae, (10), Russula sp. (4), Mesorhizobium (3), Uncultured Helotiales sp (2) and remaining hits are of different microbes with single entry | |
