Speaker: Dr. So Nakagawa
Affiliation: Associate Professor Department of Molecular Life Science, Tokai University School of Medicine
Title: Microbial genome analyses using mass nucleotide sequencing data
Date/Time: Oct, 5th, 2023, 14:00~
Place: Hiroshima University, Graduate School of Advanced Sciences of Matter Build, 6F Seminar room
We have been working on microbial genome analyses utilizing mass nucleotide sequencing data. To rapidly identify disease-causing bacteria, we developed a bioinformatics pipeline, GSTK, utilizing the genome sequence database GenomeSync (https://genomesync.org/). With a portable DNA nanopore sequencer, MinION, we have identified bacteria, fungi, and RNA viruses from various samples. For RNA virus identification, a database of RNA-dependent RNA polymerases (RdRp) named NeoRdRp (https://github.com/shoichisakaguchi/NeoRdRp) was developed to identify novel RNA viruses from various RNA-seq data. In addition, we have been working on RNA viruses that cause zoonotic diseases, including Ebola viruses and SARS-CoV-2, by comparative genomic analysis. Through these studies, we have identified their various viral properties. In this seminar, I would like to introduce some of these studies.