AB005. Genomics on site of detection of malaria
Part 1: Plenary

AB005. Genomics on site of detection of malaria

Sumio Sugano1, Junya Yamagishi2, Arthur E. Mongan3, Joesf Tuda3, Yutaka Suzuki1

1Department of Computational Biology and Medical Sciences, the University of Tokyo, Tokyo, Japan; 2National Research Center for Protozoan Diseases, Obihiro University of Agriculture and Veterinary Medicine, Obihiro, Hokkaido 080-8555, Japan; 3Department of Medicine, Sam Ratulangi University, Kampus Unsrat, Bahu Manado, 95115, Indonesia

Abstract: Nanopore sequencer, MinION, has enabled sequencing analysis without pre-installation of expensive conventional sequencers or pre-requisite of specific skills in biological experiments. Even electric supply is not always necessary, by connecting MinION to a laptop PC. These features of MinION have opened the opportunity to enable precise genotyping of pathogens on site. In this study, we conducted genotyping of presumed drug resistance-causing SNVs in malaria parasites, Plasmodium falciparum. We subjected ten PCR amplicon-mixes covering these SNVs to the MinION sequencing. In spite that the sequence alignments generated by a Smith-Waterman-based program, SSEACH showed that the average sequence identity was 75%, we found that the mutations at a particular position could be called by the accuracy of 90%, when all the reads covering the corresponding positions were collectively evaluated. We provide the first simple experimental and analytical MinION sequencing procedure, which can be easily followed on site to effectively genotype pathogens of other tropical diseases.

Keywords: MinION; sequencing analysis; sequencers; tropical diseases

Cite this abstract as: Sugano S, Yamagishi J, Mongan AE, Tuda J, Suzuki Y. Genomics on site of detection of malaria. Ann Transl Med 2015;3(S2):AB005. doi: 10.3978/j.issn.2305-5839.2015.AB005

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