Author

Nobuyoshi Yagi

University of the RyukyusORCID 0000-0003-2814-4455Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Organism:E. coli· 2 Approach:statistical model· 2 Research Focus:variant calling· 2 Assay:whole-genome sequencing· 2 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1 Research Focus:clustering· 1 Approach:deep learning· 1

Frequent Co-Authors

Itaru HiraiiD· 3 shared Ayumi UechiiD· 2 shared Nanase Miyagi· 1 shared Rin Nashiro· 1 shared

Activity by Year

2024-2026 · peak 2/yr

Co-Author Collaboration Network

4 top collaborators · 4 mutual co-author links

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3 shared papersMicrobiology

Itaru HiraiORCID

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3 papers

Recent·Most cited

GenomicsMicrobiology SpectrumPeer-reviewedApr 16, 2026

Species identification and genotyping of Citrobacter spp. using genes with high nucleotide diversity.

Nobuyoshi Yagi, Rin Nashiro, Itaru Hirai

This study identifies two genes with high nucleotide diversity for species and genetic lineage classification of Citrobacter spp., reducing costs compared to whole-genome sequencing.

DOI 10.1128/spectrum.03646-25

whole-genome sequencingstatistical model

𝕏 PostBluesky

MicrobiologybioRxivPreprintJul 11, 2024

A rapid method to determine the genetic lineage of Escherichia coli using open reading frame composition in the shallow sequencing

Nobuyoshi Yagi, Ayumi Uechi, Itaru Hirai

This study develops a rapid method to determine the genetic lineage of Escherichia coli isolates using open reading frame composition, achieving results in under 30 minutes with high accuracy.

1 citation

E. coliwhole-genome sequencing

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MicrobiologybioRxivPreprintJun 25, 2024

Shallow sequencing (Shall-seq) procedure: A method for determining the genetic lineages and detecting antimicrobial resistance genes of antimicrobial-resistant bacteria using minimum Nanopore sequencing data

Nobuyoshi Yagi, Nanase Miyagi, Ayumi Uechi, Itaru Hirai

This paper introduces a shallow sequencing method using Nanopore data to determine genetic lineages and detect antimicrobial resistance genes in E. coli with minimal data.

2 citations

E. colilong-read sequencing

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