Author

Soichiro Tsuda

bitBiome, Inc. 513 Wasedatsurumaki‐cho, Shinjuku‐ku Tokyo 162‐0041 JapanORCID 0000-0002-1424-5266Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioengineering· 1 Microbiology· 1 Synthetic Biology· 1

Signature Assays, Organisms & Methods

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Research Focus:differential expression· 2 Approach:experimental assay· 2 Organism:bacteria (other)· 1 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Organism:E. coli· 1 Research Focus:protein folding & dynamics· 1 Assay:protein sequence· 1

Frequent Co-Authors

Ai Matsushita· 1 shared Emi MatsumuraiD· 1 shared Hideaki Mabashi‐AsazumaiD· 1 shared Hiromi KatoiD· 1 shared Keigo IdeiD· 1 shared Kiwamu MinamisawaiD· 1 shared Koji ItoiD· 1 shared Makoto Hirai· 1 shared

Activity by Year

2017-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 21 mutual co-author links

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1 shared paperBioengineering

Ai Matsushita

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3 papers

Recent·Most cited

MicrobiologyFrontiers in MicrobiologyPeer-reviewedApr 7, 2025

Single-cell genomics of single soil aggregates: methodological assessment and potential implications with a focus on nitrogen metabolism

Emi Matsumura, Hiromi Kato, Shintaro Hara…·Rota Wagai

This study evaluates methods for extracting microbial cells from soil aggregates and finds that sonication improves microbial recovery and diversity compared to bead-vortexing.

16 citationstop 2%

bulk RNA-seqexperimental assay

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BioengineeringbioRxivFeb 1, 2024

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

Hideaki Mabashi‐Asazuma, Makoto Hirai, Shigeru Sakurai…·Soichiro Tsuda

The paper identifies a novel PET hydrolase from soil bacteria, enhances its activity with CALB and protein engineering, achieving 95.5% PET degradation.

DOI 10.1002/cctc.202500364

bacteria (other)proteomics

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Synthetic BiologybioRxivPreprintNov 10, 2017

Uncovering cell-free protein expression dynamics by a promoter library with diverse strengths

Sabrina Galiñanes Reyes, Yutetsu Kuruma, Soichiro Tsuda

The paper investigates protein expression dynamics in two cell-free systems using promoter libraries and mathematical models to identify different limiting factors and feedback effects.

5 citations

E. coliprotein sequence

𝕏 PostBluesky