RESOURCES

A single amplified genome catalog reveals the dynamics of mobilome and resistome in the human microbiome

Kawano-Sugaya T et al. Microbiome (2024) DOI:https://doi.org/10.1186/s40168-024-01903-z

Uncovering Endolysins against Methicillin-Resistant Staphylococcus aureus Using a Microbial Single-Cell Genome Database

Yoda T et. al ACS Infect. Dis(2024) DOI：https://doi.org/10.1021/acsinfecdis.4c00039

Hybrid sequence-based analysis reveals the distribution of bacterial species and genes in the oral microbiome at a high resolution

Yamaguchi M et. al Biochemistry and Biophysics Reports(2024) DOI：https://doi.org/10.1016/j.bbrep.2024.101717

Analysis of microbial dynamics in the soybean root-associated environments from community to single-cell levels

Kifushi M et. al Journal of Bioscience and Bioengineering (2024) DOI:https://doi.org/10.1016/j.jbiosc.2024.02.007

A combination of two-enzyme system and enzyme engineering improved the activity of a new PET hydrolase identified from soil bacterial genome

Mabashi-Asazuma H et. al bioRxiv (2024) DOI:https://doi.org/10.1101/2024.02.01.578500

Comparative single-cell genomics of Atribacterota JS1 in the Japan Trench hadal sedimentary biosphere

Jitsuno K et al mSphere(2024) DOI:https://doi.org/10.1128/msphere.00337-23

Uncultured prokaryotic genomes in the spotlight: An examination of publicly available data from metagenomics and single-cell genomics

Arikawa K. et al Computational and Structural Biotechnology Journal(2023) DOI:https://doi.org/10.1016/j.csbj.2023.09.010

Tools for microbial single-cell genomics for obtaining uncultured microbial genomes

Hosokawa M et. al Biophys Rev.(2023) DOI:https://doi.org/10.1007/s12551-023-01124-y

Target enrichment of uncultured human oral bacteria with phage-derived molecules found by single-cell genomics

Hosokawa M et. al Journal of Bioscience and Bioengineering.(2023) DOI：https://doi.org/10.1016/j.jbiosc.2023.04.005

Revealing within-species diversity in uncultured human gut bacteria with single-cell long-read sequencing

Kogawa M et. al Front. Microbiol.(2023) DOI: https://doi.org/10.3389/fmicb.2023.1133917

Targeted single-cell genomics reveals novel host adaptation strategies of the symbiotic bacteria Endozoicomonas in Acropora tenuis coral

Ide K et. al Microbiome. (2022) DOI: https://doi.org/10.1186/s40168-022-01395-9

Exploring strain diversity of dominant human skin bacterial species using single-cell genome sequencing

Ide K et. al Front. Microbiol.(2022), DOI https://doi.org/10.3389/fmicb.2022.955404

Massively parallel single-cell genomics of microbiomes in rice paddies

Aoki, W. et al Front. Microbiol. (2022), DOI: https://doi.org/10.3389/fmicb.2022.1024640

Strain-level profiling of viable microbial community by selective single-cell genome sequencing

Hosokawa M, Endo T et al. Scientific Report(2022) DOI https://doi.org/10.1038/s41598-022-08401-y

Validation of the application of gel beads-based single-cell genome sequencing platform to soil and seawater

Nishikawa Y et al. ISME. (2022) DOI: https://doi.org/10.1038/s43705-022-00179-4

Recovery of strain-resolved genomes from human microbiome through an integration framework of single-cell genomics and metagenomics

Arikawa K. et al Microbiome (2021) DOI: https://doi.org/10.1186/s40168-021-01152-4

High-Quality Draft Single-Cell Genome Sequences of Two Gammaproteobacteria Strains Sampled from Soil in a Strawberry Farm.

Yoda T et al. Genome Resource Announcement. (2020) DOI: 10.1128/MRA.00743-20

Single-cell genomics of uncultured bacteria reveals dietary fiber responders in the mouse gut microbiota.

Chijiiwa R et al. Microbiome. (2020) DOI: 10.1186/s40168-019-0779-2

Obtaining high-quality draft genomes from uncultured microbes by cleaning and co-assembly of single-cell amplified genomes

Kogawa M et al. Scientific Reports (2018) DOI: 10.1038/s41598-018-20384-3