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Availability of Nanopore sequences in the genome taxonomy for Vibrionaceae systematics: Rumoiensis Glade species as a test case

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Title: Availability of Nanopore sequences in the genome taxonomy for Vibrionaceae systematics: Rumoiensis Glade species as a test case
Authors: Tanaka, Mami Browse this author
Mino, Sayaka Browse this author
Ogura, Yoshitoshi Browse this author
Hayashi, Tetsuya Browse this author
Sawabe, Tomoo Browse this author →KAKEN DB
Keywords: Vibrionaceae
Genome taxonomy
Nanopore
Issue Date: 18-Jun-2018
Publisher: PeerJ
Journal Title: Peerj
Volume: 6
Start Page: e5018
Publisher DOI: 10.7717/peerj.5018
Abstract: Whole genome sequence comparisons have become essential for establishing a robust scheme in bacterial taxonomy. To generalize this genome-based taxonomy, fast, reliable, and cost-effective gnome sequencing methodologies are required. MinION, the palm -sized sequencer from Oxford Nanopore Technologies, enables rapid sequencing of bacterial genomes using minimal laboratory resources. Here we tested the ability of Nanopore sequences for the genome-based taxonomy of Vibrionaceae and compared Nanopore- only assemblies to complete gnomes of fiw Rumoiensis clade species: Vibrio aphrogenes, V. algivorus, V. casei, V. litoralis, and V. rumoiensis. Comparison of overall gnome relatedness indices (OGRI) and multilocus sequence analysis (MLSA) based on Nanopore-only assembly and Illumina or hybrid assemblies revealed that errors in Nanopore-only assembly do not Influence average nucleotide identity (ANI), in silico DNA -DNA hybridization (DDH), G+C content, or MLSA tree topology in Vibrionaceae. Our results show that the genome sequences frorn Nanopore-based approach can be used for rapid species identification based on the OGRI and MLSA.
Rights: https://creativecommons.org/licenses/by/4.0/
Type: article
URI: http://hdl.handle.net/2115/71059
Appears in Collections:水産科学院・水産科学研究院 (Graduate School of Fisheries Sciences / Faculty of Fisheries Sciences) > 雑誌発表論文等 (Peer-reviewed Journal Articles, etc)

Submitter: 澤辺 智雄

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