Journal of Environmental Biology

Real-Time loop-mediated isothermal

amplification assay for rapid detection of Banana

bunchy top virus in North-east India

D. Kaushik¹, M.H. Halabi¹, P. Barua^1,2* and P.D. Nath¹    

¹Department of Plant Pathology, Assam Agricultural University, Jorhat-785 013, India

²Regional Agricultural Research Station, Assam Agricultural University, Titabor-785 630, India

*Corresponding Author Email : parindabarua@gmail.com                      *ORCiD: https://orcid.org/0000-0001-8976-8822

Received: 22.06.2021                                                                                                           Revised: 21.10.2021                                                                             Accepted: 25.06.2022

Abstract

Aim: The study aims to standardize a Real-Time LAMP assay for effective, highly sensitive, and rapid detection of BBTV in North-east India.

Methodology: Forty samples of banana showing BBTV like symptoms were collected from Assam, India and subjected to conventional PCR for confirmation. Six sets of BBTV LAMP primers were designed and the PCR positive samples were subjected to Real-Time LAMP assay for detection of BBTV. Finally, a sensitivity test of BBTV LAMP assay and comparison of BBTV LAMP assay with conventional PCR was done using seven 10-fold dilutions of total genomic DNA of leaf samples with the highest dilution starting from 100 ng µl^-1.

Results: Initially a total of twenty six out of forty banana samples were tested positive for BBTV with conventional PCR method. The Real-Time LAMP assay for BBTV detection resulted in typical sigmoidal amplification curves with the peak values ranging between 8.00 to 12.15 min and annealing derivatives ranging between 83.3^oC to 84.3^oC in the tested samples. Sensitivity testing and comparison of BBTV Real-Time LAMP assay with conventional PCR revealed that the BBTV LAMP assay could efficiently detect up to 0.0001ng µl^-1 of total DNA against 0.01ng µl^-1 in conventional PCR.

Interpretation: The findings highlight rapid, sensitive, accurate and effective diagnosis of BBTV using Real-Time LAMP method. This method can be preferred over conventional diagnostic techniques like PCR or ELISA for rapid large scale detection of BBTV in banana plants in North-east India.

Key words: Banana, Banana bunchy top virus, Rapid detection, Real-Time LAMP assay

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