Author

S.-i. Nakano

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Microbiology· 6 Ecology· 2

Signature Assays, Organisms & Methods

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Approach:statistical model· 6 Assay:metagenomics· 5 Organism:bacteria (other)· 4 Research Focus:chromatin & epigenetic regulation· 3 Research Focus:cell type annotation· 2 Approach:deep learning· 2 Research Focus:ecology & biodiversity· 2 Assay:bulk RNA-seq· 1

Frequent Co-Authors

Y. Okazaki· 6 shared M. M. Salcher· 3 shared A. Kohzu· 2 shared A. Tanaka· 2 shared A. Toyoda· 2 shared A.-S. Andrei· 2 shared H. Oyagi· 2 shared H. Tamaki· 2 shared

Activity by Year

2016-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 26 mutual co-author links

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6 shared papersMicrobiology

Y. Okazaki

Mutual co-authors in cluster

Author profile →

8 papers

Recent·Most cited

Advancing marker-gene-based methods for prokaryote-mediated multifunctional redundancy: exploring random and nonrandom extinctions in a watershed

W.-H. Cheng, T. Miki, M. Ido, K. Yoneya, K. Matsui, T. Yokokawa, H. Yamanaka, S.-i. Nakano

The paper refines a marker-gene-based method to quantify multifunctional redundancy in prokaryotic communities by incorporating non-random extinction scenarios and applying it to aquatic ecosystems.

bioRxiv · Mar 14, 2024 · PreprintEcology

Long-read-resolved, ecosystem-wide exploration of nucleotide and structural microdiversity of lake bacterioplankton genomes

Y. Okazaki, S.-i. Nakano, A. Toyoda, H. Tamaki

The paper explores microdiversity in lake bacterioplankton genomes using long-read sequencing and identifies factors driving genomic diversification, finding that viral load drives diversity while population bottlenecks constrain it.

bioRxiv · Mar 23, 2022Microbiology

Microdiversity and phylogeographic diversification of bacterioplankton in pelagic freshwater systems revealed through long-read amplicon sequencing

Y. Okazaki, S. Fujinaga, M. M. Salcher, C. Callieri, A. Tanaka, A. Kohzu, H. Oyagi, H. Tamaki, S.-i. Nakano

This study uses long-read amplicon sequencing to reveal microdiversity and phylogeographic patterns in freshwater bacterioplankton lineages across lakes in Japan and Europe.

Microbiome · Jan 22, 2021Peer-reviewedMicrobiology

A freshwater radiation of diplonemids

I. Mukherjee, M. M. Salcher, A.-S. Andrei, V. Kavagutti, T. Shabarova, V. Grujcic, M. Haber, P. Layoun, Y. Hodoki, S.-i. Nakano, K. Simek, R. Ghai

The paper detects freshwater diplonemids in multiple lakes, finds they form a new lineage, and suggests marine diplonemid diversity may be overestimated.

bioRxiv · May 14, 2020Microbiology

Genome-resolved viral and cellular metagenomes revealed potential key virus-host interactions in a deep freshwater lake

Y. Okazaki, Y. Nishimura, T. Yoshida, H. Ogata, S.-i. Nakano

This study analyzes metagenomic data from a freshwater lake to identify viral-host interactions and diversity patterns in viral and bacterial communities.

bioRxiv · Oct 1, 2019Microbiology

Metaepigenomic analysis reveals the unexplored diversity of DNA methylations in an environmental prokaryotic community

S. Hiraoka, Y. Okazaki, M. Anda, A. Toyoda, S.-i. Nakano, W. Iwasaki

The paper uses metaepigenomic analysis to uncover diverse DNA methylation systems in an environmental prokaryotic community, identifying novel methylated motifs and their associated methyltransferases.

bioRxiv · Aug 7, 2018Microbiology

Hidden in plain sight - highly abundant and diverse planktonic freshwater Chloroflexi

M. Mehrshad, M. M. Salcher, Y. Okazaki, S.-i. Nakano, K. Simek, A.-S. Andrei, R. Ghai

The paper examines the diversity and distribution of freshwater Chloroflexi in various pelagic habitats, revealing their genomic diversity and ecological roles.

bioRxiv · Jul 10, 2018Microbiology

Ubiquity and quantitative significance of bacterioplankton lineages inhabiting the oxygenated hypolimnion of deep freshwater lakes

Y. Okazaki, S. Fujinaga, A. Tanaka, A. Kohzu, H. Oyagi, S.-i. Nakano

The study identifies common and abundant bacterioplankton lineages in the oxygenated hypolimnion of deep lakes, showing their ubiquity and quantitative significance.

bioRxiv · Nov 21, 2016Ecology