Yohei Nishikawa

Profile Information

Affiliation: Researcher, AIST-Waseda CBBD-OIL, National Institute of Advanced Industrial Science and Technology
: Research Organization for Nano & Life Innovation, Waseda University

Degree: 工学 (Engineering)(Mar, 2019, 早稲田大学)

ORCID iD: https://orcid.org/0000-0001-5443-7230
J-GLOBAL ID: 202001017357793641
researchmap Member ID: R000004072

Research Interests

Research Areas

Life sciences / Applied microbiology /

Research History

Oct, 2022 - Present

AIST-WASEDA CBBD-OIL, National Institute of Advanced Industrial Science and Technology
Apr, 2021 - Present

Research Organization for Nano & Life Innovation, Waseda University
Apr, 2019 - Mar, 2021

AIST-Waseda University Comptational Bio Big-Data Open Innovation Laboratory, National Institute of Advanced Industrial Science and Technology
Apr, 2016 - Mar, 2019

Japan Society for the Promotion of Science

Major Awards

Sep, 2016

-, The Society for Biotechnology, Japan

Papers

Large-scale single-virus genomics uncovers hidden diversity of river water viruses and diversified gene profiles

Yohei Nishikawa, Ryota Wagatsuma, Yuko Tsukada, Lin Chia-ling, Rieka Chijiiwa, Masahito Hosokawa, Haruko Takeyama

The ISME Journal, Jul 8, 2024 Peer-reviewedLead authorCorresponding author
Analysis of microbial dynamics in the soybean root-associated environments from community to single-cell levels

Masako Kifushi, Yohei Nishikawa, Masahito Hosokawa, Keigo Ide, Masato Kogawa, Toyoaki Anai, Haruko Takeyama

Journal of Bioscience and Bioengineering, Apr, 2024 Peer-reviewed
Comparative single-cell genomics of Atribacterota JS1 in the Japan Trench hadal sedimentary biosphere

Kana Jitsuno, Tatsuhiko Hoshino, Yohei Nishikawa, Masato Kogawa, Katsuhiko Mineta, Michael Strasser, Ken Ikehara, Jeremy Everest, Lena Maeda, Fumio Inagaki …

mSphere, Jan 3, 2024 Peer-reviewed
Tools for microbial single-cell genomics for obtaining uncultured microbial genomes

Masahito Hosokawa, Yohei Nishikawa

Biophysical Reviews, Sep 8, 2023 Peer-reviewed
Combined actions of bacteriophage-encoded genes in Wolbachia-induced male lethality

Hiroshi Arai, Hisashi Anbutsu, Yohei Nishikawa, Masato Kogawa, Kazuo Ishii, Masahito Hosokawa, Shiou-Ruei Lin, Masatoshi Ueda, Madoka Nakai, Yasuhisa Kunimi …

iScience, 26(6) 106842-106842, Jun, 2023 Peer-reviewedLead author
Revealing within-species diversity in uncultured human gut bacteria with single-cell long-read sequencing

Masato Kogawa, Yohei Nishikawa, Tatsuya Saeki, Takuya Yoda, Koji Arikawa, Haruko Takeyama, Masahito Hosokawa

Frontiers in microbiology, 14 1133917-1133917, Feb 24, 2023 Peer-reviewed
Targeted single-cell genomics reveals novel host adaptation strategies of the symbiotic bacteria Endozoicomonas in Acropora tenuis coral.

Keigo Ide, Yohei Nishikawa, Toru Maruyama, Yuko Tsukada, Masato Kogawa, Hiroki Takeda, Haruka Ito, Ryota Wagatsuma, Rimi Miyaoka, Yoshikatsu Nakano …

Microbiome, 10(1) 220-220, Dec 12, 2022 Peer-reviewedLead author
Massively parallel single-cell genomics of microbiomes in rice paddies

Wataru Aoki, Masato Kogawa, Shuhei Matsuda, Keisuke Matsubara, Shintaro Hirata, Yohei Nishikawa, Masahito Hosokawa, Haruko Takeyama, Toru Matoh, Mitsuyoshi Ueda

Frontiers in Microbiology, 13 1024640-1024640, Nov 3, 2022 Peer-reviewed
Validation of the application of gel beads-based single-cell genome sequencing platform to soil and seawater

Yohei Nishikawa, Masato Kogawa, Masahito Hosokawa, Ryota Wagatsuma, Katsuhiko Mineta, Kai Takahashi, Keigo Ide, Kei Yura, Hayedeh Behzad, Takashi Gojobori …

ISME Communications, 2(1), Sep 29, 2022 Peer-reviewedLead author
The Effect of Co-Culture of Two Coral Species on Their Bacterial Composition Under Captive Environments

Keigo Ide, Yoshikatsu Nakano, Michihiro Ito, Yohei Nishikawa, Hiroyuki Fujimura, Haruko Takeyama

Marine Biotechnology, Aug 23, 2022 Peer-reviewed
Male-killing-associated bacteriophage WO identified from comparisons of Wolbachia endosymbionts of Homona magnanima

Hiroshi Arai, Hisashi Anbutsu, Yohei Nishikawa, Masato Kogawa, Kazuo Ishii, Masahito Hosokawa, Shiou-Ruei Lin, Masatoshi Ueda, Madoka Nakai, Yasuhisa Kunimi …

biorxiv, Jun 13, 2022 Lead author
Identification of Lipolytic Enzymes Using High-Throughput Single-cell Screening and Sorting of a Metagenomic Library

Amani Alma’abadi, Hayedeh Behzad, Mohammed Alarawi, David Conchouso, Yoshimoto Saito, Masahito Hosokawa, Yohei Nishikawa, Masato Kogawa, Haruko Takeyama, Katsuhiko Mineta …

New Biotechnology, 70 102-108, May, 2022 Peer-reviewed
Single-cell metabolite detection and genomics reveals uncultivated talented producer

Masato Kogawa, Rimi Miyaoka, Franziska Hemmerling, Masahiro Ando, Kei Yura, Keigo Ide, Yohei Nishikawa, Masahito Hosokawa, Yuji Ise, Jackson K B Cahn …

PNAS Nexus, 1(1) pgab007, Mar 2, 2022 Peer-reviewed
Strain-level profiling of viable microbial community by selective single-cell genome sequencing

Masahito Hosokawa, Taruho Endoh, Kazuma Kamata, Koji Arikawa, Yohei Nishikawa, Masato Kogawa, Tatsuya Saeki, Takuya Yoda, Haruko Takeyama

Scientific Reports, 12(1) 4443-4443, Mar, 2022 Peer-reviewed
Integration of Droplet Microfluidic Tools for Single-cell Functional Metagenomics: An Engineering Head Start

David Conchouso, Amani Al-Ma'abadi, Hayedeh Behzad, Mohammed Alarawi, Masahito Hosokawa, Yohei Nishikawa, Haruko Takeyama, Katsuhiko Mineta, Takashi Gojobori

Genomics, Proteomics & Bioinformatics, 19(3) 504-518, Dec, 2021 Peer-reviewed
Multi-omics analysis reveals cross-organism interactions in coral holobiont

Toru Maruyama, Michihiro Ito, Satoshi Wakaoji, Yusuke Okubo, Keigo Ide, Yohei Nishikawa, Hiroyuki Fujimura, Shoichiro Suda, Yoshikatsu Nakano, Noriyuki Satoh …

Oct 26, 2021
MBC2019: Marine Biotechnology Conference 2019.

Haruko Takeyama, Hiroshi Saito, Yohei Nishikawa

Marine biotechnology (New York, N.Y.), 22(6) 725-726, Dec, 2020
High-Quality Draft Genome Sequence of a Rickettsiales Bacterium Found in Acropora tenuis Coral from Okinawa, Japan.

Keigo Ide, Yohei Nishikawa, Masato Kogawa, Eisuke Iwamoto, Ashok Zachariah Samuel, Yoshikatsu Nakano, Haruko Takeyama

Microbiology resource announcements, 9(48), Nov 25, 2020 Peer-reviewedLead author
Draft Genome Sequence of Okeania sp. Strain KiyG1, Assembled from Single-Amplified Genomes Collected from Cape Kiyan, Okinawa, Japan.

Muhammad Wahyudin Lewaru, Yohei Nishikawa, Keigo Ide, Masato Kogawa, Masahito Hosokawa, Ashok Zachariah Samuel, Shinpei Sumimoto, Handung Nuryadi, Shoichiro Suda, Haruko Takeyama

Microbiology resource announcements, 9(46), Nov 12, 2020 Peer-reviewedLead author
Extensive single-cell genomics reveals bacterial diversity and diverse phage host ranges in the area in and around the Red Sea

Yohei Nishikawa, Masato Kogawa, Masahito Hosokawa, Ryota Wagatsuma, Katsuhiko Mineta, Kai Takahashi, Keigo Ide, Kei Yira, Chikako Sakanashi, Hayedeh Behzad …

bioRxiv, Mar 6, 2020

Misc.

日本海溝に生息する超深海微生物群の遺伝的機能の解明

實野佳奈, 西川洋平, 星野辰彦, 稲垣史生, 稲垣史生, 稲垣史生, 竹山春子, 竹山春子, 竹山春子

マリンバイオテクノロジー学会大会講演要旨集, 23rd, 2023
Occurrence of Small Microplastics in Sediment Columnar Samples in the Japan Trench

田中周平, 實野佳奈, 實野佳奈, 星野辰彦, 西川洋平, 西川洋平, 竹山春子, 竹山春子, 稲垣史生

日本水環境学会シンポジウム講演集, 26th, 2023
微生物群集の構造と動態の理解シングルセルゲノミクスによる環境微生物相の分布調査(Understanding microbial community structures and dynamics A distribution survey of environmental microbiome by single-cell genomics)

星野仁彦, 吉田光範, 西川洋平, 鈴木仁人, 深野華子, 竹山春子, 鈴木敏彦

日本細菌学雑誌, 77(1) 17-17, Feb, 2022
Genomic analysis of bacterial diversity and function along the Japan Trench

實野佳奈, 實野佳奈, 西川洋平, 西川洋平, 小川雅人, 星野辰彦, 稲垣史生, 竹山春子, 竹山春子, 竹山春子 …

日本農芸化学会大会講演要旨集(Web), 2022, 2022
Challenges and prospects in single-cell genomics for uncultivable bacteria

68(2) 150-154, Mar, 2017
Droplet-microfluidics for Massively Parallel Single-cell Analysis

32(4) 159-165, 2016
1P-257 Identification of the producers of bioactive compounds from marine sponge Theonella swinhoei by using Raman microspectroscopy

Miyaoka Rimi, Mori Tetsushi, Hosokawa Masahito, Ando Masahiro, Kogawa Masato, Nishikawa Yohei, Hamaguchi Hiro-o, Piel Jorn, Takeyama Haruko

67 153-153, 2015
1P-256 Development of a technique for massively parallel genome amplification of single cells using droplet microfluidics

Hosokawa Masahito, Nishikawa Yohei, Kogawa Masato, Takeyama Haruko

67 152-152, 2015

Books and Other Publications

バイオサイエンスとインダストリー. Vol.82 No.2

安藤正浩, 西川洋平, 竹山春子 (Role: Contributor, 未知微生物を紐解く技術：シングルセルゲノミクスからメタボロミクスへの挑戦)

バイオインダストリー協会, Feb, 2024
海の生物と環境をどう守るか

坂本茂樹, 前川美湖 (Role: Contributor, 第2部-3 海洋遺伝資源の利活用の進展)

西日本出版社, Oct, 2022 (ISBN: 9784908443442)
Novel insights and possibilities in single cell

(Role: Contributor, High-throughput platform for screening of novel bioactive compound producers)

Aug, 2021
-

(Role: Joint author)

2020
バイオイノベーションに向けて : バイオテクノロジーの新技術からの新しい視点

植田, 充美 (Role: Contributor)

シーエムシー出版, Mar, 2019 (ISBN: 9784781314112)

Presentations

Single-virus genomics of environmental DNA viruses reveals genomic micro-diversities

Yohei Nishikawa

UQ-Waseda University Joint Symposium, Feb 29, 2024
土壌微生物叢アトラスに基づいた環境制御による循環型協生農業プラットフォーム構築

西川洋平

ムーンショット早稲田デー「わが国の破壊的イノベーションを先導するためには何をすべきか？」, Feb 13, 2024
Single-genome sequencing of environmental bacteria and phages to elucidate their functions

Yohei Nishikawa

Nov 28, 2023 Invited
Exploration and utilization of genetic resources for novel microbes and viruses

Yohei Nishikawa

BioJapan2023, Oct 11, 2023
Comprehensive Analysis of Phage Diversity in Suruga Bay, Japan, through droplet-based Single-Virus Genomics

13th Asia Pacific Marine Biotechnology Conference (APMBC), Oct 3, 2023
Large-scale single-genome sequencing of microbes and bacteriophages in Suruga Bay, Japan

13th Asia Pacific Marine Biotechnology Conference (APMBC), Oct 3, 2023
Single cell genomics uncovered uncultured virus-host links in a deep freshwater lake

Symposium of Aquatic Microbial Ecology -SAME17, Aug 20, 2023
環境中の未知微生物・ウイルスを対象としたシングルセルゲノム解析技術の開発と応用

西川洋平

Webセミナー「シングルセルゲノム解析が明らかにする未知の環境微生物」, Jun 15, 2023 Invited
シングルゲノム解析を用いた駿河湾海域に生息するファージの多様性・宿主域の網羅解析

我妻竜太, 西川洋平, 細川正人, 峯田克彦, 木村彰伸, 平木優到, 實野佳奈, 鈴木朋和, 小林憲一, 岡本一利, 竹山春子

第23回マリンバイオテクノロジー学会大会, May 28, 2023
駿河湾の微生物及びファージを対象としたシングルセルレベルでの大規模ゲノム解析

西川洋平, 我妻竜太, 細川正人, 小川雅人, 木村彰伸, 平木優到, 實野佳奈, 峯田克彦, 鈴木朋和, 小林憲一, 岡本一利, 竹山春子

第23回マリンバイオテクノロジー学会大会, May 28, 2023
Single-virus genomics method for elucidating the diversities of environmental viruses

Yohei Nishikawa, Ryota Wagatsuma, Masahito Hosokawa, Haruko Takeyama

The 96th Annual Meeting of Japanese Society for Bacteriology., Mar 17, 2023
1粒子レベルのゲノム解析技術が紐解く、環境ウイルスのマクロとミクロなゲノム多様性

西川洋平, 我妻竜太, Lin Chia-ling, 小川雅人, 千々岩樹佳, 細川正人, 竹山春子

第45回日本分子微生物学会年会, Dec 1, 2022 Invited
Single-cell genomics of bacteria and viruses to analyze gene transfer in river water

Oct 19, 2022
環境細菌・ウイルスを対象とした 1細胞・1粒子レベルのゲノム解析技術の開発と応用

西川洋平

第4回ファーマラボ EXPO, Jul 13, 2022
コロナ禍で再認識した、微生物1細胞ゲノム解析におけるサンプル調製の重要性

西川洋平

第22回マリンバイオテクノロジー学会大会, May 28, 2022 Invited
1細胞・1粒子レベルのゲノム情報から読み解く、環境細菌とファージの相互作用

西川洋平

バイオインフォマティクス相談部会第五回講演会, Mar 7, 2022 Invited
Microfluidic droplet-based single-cell genome sequencing reveals biological diversities of environmental microbiome in the surrounding area of the Red Sea

Yohei Nishikawa, Masato Kogawa, Masahito Hosokawa, Katsuhiko Mineta, Kai Takahashi, Keigo Ide, Kei Yura, Hayedeh Behzad, Takashi Gojobori, Haruko Takeyama

The 2020 International Chemical Congress of Pacific Basin Societies (Pacifichem 2020), Dec 17, 2021
Microfluidic droplet-based single-cell genomics in aquatic and marine environments for revealing microbial and phage diversity.

Yohei Nishikawa, Masato Kogawa, Masahito Hosokawa, Keigo Ide, Ryota Wagatsuma, Yuko Tsukada, Haruko Takeyama

2021 AFOB virtual conference, Nov 3, 2021 Invited
河川水中の細菌・ウイルスを対象とした1細胞・1粒子レベルでのゲノム解析

西川洋平, 我妻竜太, 塚田祐子, 井手圭吾, 小川雅人, 細川正人, 竹山春子

日本水処理生物学会第57回（神奈川）大会, Oct 29, 2021
シングルゲノム情報を用いた水圏ファージ-宿主間の相互作用解析

西川洋平

第73回日本生物工学会大会, Oct 28, 2021

Industrial Property Rights

特開2021-118717 シングルセル解析を行う方法およびそのための装置

細川正人, 竹山春子, 西川洋平, 小川雅人
特許第6877804号シングルセル解析を行う方法およびそのための装置

細川正人, 竹山春子, 西川洋平, 小川雅人
WO2019-216271 シングルセル解析を行う方法およびそのための装置

細川正人, 竹山春子, 西川洋平, 小川雅人

Education

Apr, 2014 - Mar, 2016

Graduate School of Advanced Science and Engineering, Waseda University
Apr, 2010 - Mar, 2014

School of Advanced Science and Engineering, Waseda University

Research Projects

Fate of antimicrobial resistance genes in wastewater treatment processes focusing on their carrier bacteria and viruses.

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (B), Japan Society for the Promotion of Science, Apr, 2023 - Mar, 2026
一細胞ドロップレット技術による難培養性抗酸菌/薬剤耐性菌のpathogenomics解析

新興・再興感染症研究基盤創生事業, 国立研究開発法人日本医療研究開発機構, Apr, 2023 - Mar, 2026

吉田光範, 野田尚宏, 鈴木敏彦, 星野仁彦, 鈴木仁人, 齋藤良一, 西川洋平
Development of single-virus genomics method from small amounts of soil for functional analysis of rhizosphere viruses.

Grants-in-Aid for Scientific Research, Grant-in-Aid for Early-Career Scientists, Japan Society for the Promotion of Science, Apr, 2023 - Mar, 2025
-

Grants-in-Aid for Scientific Research Grant-in-Aid for Scientific Research (A), Grant-in-Aid for Scientific Research (A), Japan Society for the Promotion of Science, Apr, 2022 - Mar, 2025
Construction of circulating production platform by environmental control based on Soil Microbe Atlas

Dec, 2020 - Mar, 2025

Haruko takeyama
シングルセルゲノムデータに基づく未培養微生物の戦略的資源化プロセスの開発

Grants-in-Aid for Scientific Research Grant-in-Aid for Scientific Research (B), Grant-in-Aid for Scientific Research (B), Japan Society for the Promotion of Science, Apr, 2021 - Mar, 2024
シングルゲノム情報を用いた水圏ファージ-宿主間の相互作用解析

戦略的創造研究推進事業（ACT-X）, 国立研究開発法人科学技術振興機構（JST）, Dec, 2020 - Mar, 2023

西川洋平
Analysis of spatio-temporal distribution of drug resistance genes in river water with single-cell genome sequencing

Grants-in-Aid for Scientific Research Grant-in-Aid for Early-Career Scientists, Grant-in-Aid for Early-Career Scientists, Japan Society for the Promotion of Science, Apr, 2020 - Mar, 2022

nishikawa yohei
育種を加速するパスウェイ型シミュレータの開発とバイオデータ連携基盤構築

2019 - Mar, 2020
マイクロドロップレットを用いた単一微生物からの生合成遺伝子クラスターの超並列解析

科学研究費助成事業特別研究員奨励費, 特別研究員奨励費, 日本学術振興会, Apr, 2016 - Mar, 2019

西川洋平

Profile Information

Research Interests

Research Areas

Research History

Major Awards

Papers

Misc.

Books and Other Publications

Presentations

Industrial Property Rights

Education

Research Projects

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