Yoshiyuki Ohtsubo

Profile Information

Affiliation: Associate Professor, Tohoku University

Degree: 博士(農学)(The University of Tokyo)

J-GLOBAL ID: 200901009017909830
researchmap Member ID: 5000064656

Research Interests

Research Areas

Research History

Apr, 2001 - Mar, 2003

基礎科学特別研究員, 理化学研究所

Education

- Mar, 2001

Graduate School of Agricultural and Life Sciences, The University of Tokyo
- Mar, 1996

Faculty of Agriculture, The University of Tokyo

Committee Memberships

Apr, 2017 - Present

化学と生物編集委員, 日本農芸化学会
Apr, 2013 - Present

ニュースレター編集幹事, ゲノム微生物学会
Apr, 2013 - Present

男女共同参画委員, ゲノム微生物学会
Apr, 2013 - Present

ニュースレター編集幹事, ゲノム微生物学会
Apr, 2013 - Present

男女共同参画委員, ゲノム微生物学会

Awards

Mar, 2014

農芸化学奨励賞, 日本農芸化学会
Mar, 2013

日本ゲノム微生物学会研究奨励賞, 日本ゲノム微生物学会

Major Papers

120

Algorisms used for in silico finishing of bacterial genomes based on short-read assemblage implemented in GenoFinisher, AceFileViewer, and ShortReadManager.

Yoshiyuki Ohtsubo, Yuu Hirose, Yuji Nagata

Bioscience, biotechnology, and biochemistry, 86(6) 693-703, Apr 14, 2022 Peer-reviewedInvitedLead authorCorresponding author
Properties and efficient scrap-and-build repairing of mechanically sheared 3' DNA ends.

Yoshiyuki Ohtsubo, Keiichiro Sakai, Yuji Nagata, Masataka Tsuda

Communications biology, 2 409-409, 2019 Peer-reviewed
Optimization of single strand DNA incorporation reaction by Moloney murine leukaemia virus reverse transcriptase.

Yoshiyuki Ohtsubo, Haruna Sasaki, Yuji Nagata, Masataka Tsuda

DNA research : an international journal for rapid publication of reports on genes and genomes, 25(5) 477-487, Oct 1, 2018 Peer-reviewed
Compounds that enhance the tailing activity of Moloney murine leukemia virus reverse transcriptase

Yoshiyuki Ohtsubo, Yuji Nagata, Masataka Tsuda

SCIENTIFIC REPORTS, 7(1) 6520, Jul, 2017 Peer-reviewed
Efficient N-tailing of blunt DNA ends by Moloney murine leukemia virus reverse transcriptase

Yoshiyuki Ohtsubo, Yuji Nagata, Masataka Tsuda

SCIENTIFIC REPORTS, 7 41769, Feb, 2017 Peer-reviewed
Bacterial clade with the ribosomal RNA operon on a small plasmid rather than the chromosome.

Anda Mizue, OhtsuboYoshiyuki, Okubo Takashi, Sugawara Masayuki, Nagata Yuji, Tsuda Masataka, Minamisawa Kiwamu, Mitsui Hisayuki

Proc Natl Acad Sci U S A, 112(46) 14343-14347, Nov 17, 2015 Peer-reviewed

Major Misc.

ゲノム DNA を鋳型にしたサンガーシーケンシング

大坪嘉行

日本ゲノム微生物学会ニュースレター, (24), Dec, 2021 Lead authorLast authorCorresponding author
イルミナシーケンスライブラリー、ハイブリッド型のススメ

大坪嘉行

日本ゲノム微生物学会ニュースレター, (23), Jul, 2021 Lead authorLast authorCorresponding author
実験技術紹介コーナー(ニュースレター20号)

大坪嘉行

日本ゲノム微生物学会ニュースレター, (20), Dec, 2019
DNA精製用ミニカラムの作り方

大坪嘉行

日本ゲノム微生物学会ニュースレター, (19), Jun, 2019 Lead authorLast authorCorresponding author
実験技術紹介コーナー「実験室での消耗品切れを防ぐ方法」

大坪嘉行

日本ゲノム微生物学会ニュースレター, (16), Nov, 2017 Lead authorLast authorCorresponding author
実験技術紹介コーナー

佐藤勉, 大坪嘉行

日本ゲノム微生物学会ニュースレター, (15), Jun, 2017
実験技術紹介コーナー「オートクレーブ後につかう器具乾燥機の整理法」

本ゲノム微生物学会ニュースレター, (14), Nov, 2016
実験技術紹介コーナー「汚れがこびりついてしまったL字管の洗い方」

日本ゲノム微生物学会ニュースレター, (13), May, 2016
Bacterial Glade with the ribosomal RNA operon on a small plasmid rather than the chromosome

Mizue Anda, Yoshiyuki Ohtsubo, Takashi Okubo, Masayuki Sugawara, Yuji Nagata, Masataka Tsuda, Kiwamu Minamisawa, Hisayuki Mitsui

GENES & GENETIC SYSTEMS, 90(6) 376-376, Dec, 2015

Books and Other Publications

Causes and Solutions of Science and Technology Decline in Japan

Jun, 2022 (ISBN: 9798428260090)

Presentations

共創:微生物エコシステム構成原理土壌細菌叢変動とレジームシフト

第89回日本細菌学会総会, Mar 23, 2016

Professional Memberships

Works

QR-code based Attendance Management System "QR AMS"

Yoshiyuki Ohtsubo

Mar 1, 2023 - Present Web Service
DNA配列、アミノ酸配列の相互比較描画ソフトウエア「SeqView」

大坪嘉行

Aug 1, 2021 - Present
研究機器共用利用促進システム「DeviceFace」

大坪嘉行

Apr 1, 2020 - Present Web Service
シーケンサーウエブ使用簿システム

大坪嘉行

Jan, 2018 Software
シーケンサー予約システム

大坪嘉行

Jan, 2018 Web Service
シーケンサー由来データの解析ソフトTraceViewer

Jan 1, 2016 Software
DNA配列の相補鎖を返すエクセル関数comp()

Jul 22, 2012 Software
DNA配列を翻訳するエクセル関数honyaku()

Jul 22, 2012 Software
Finishing用ツールAceFileViewer

Jul 20, 2012 Software
次世代シーケンサーデータ解析ツールShortReadManager

Jul 17, 2012 Software
Finishing用ツールGenoFinisher

Jul 4, 2011 Software
遺伝子の座標データをもとに描画するエクセルマクロ

Apr 8, 2008 Software
サーキュラーマップ描画ツールArcWithColor

Feb 21, 2008 Software
比較ゲノム他有用ツールGenomeMatcher

Nov 12, 2007 Software

Research Projects

土壌微生物機能発揮の鍵となる群集・メタゲノム構造の特定

科学研究費助成事業学術変革領域研究(A), 学術変革領域研究(A), 日本学術振興会, Sep, 2021 - Mar, 2026

近藤倫生, 川津一隆, 永田裕二, 大坪嘉行, 加藤広海
Advanced utilization strategies of beneficial bacteria based on the survival and growth mechanisms of bacteria under poor conditions

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, 2022 - Mar, 2025
Approach to the substance of bacterial extracellular genetic information storage device

Grants-in-Aid for Scientific Research Grant-in-Aid for Challenging Research (Exploratory), Grant-in-Aid for Challenging Research (Exploratory), Japan Society for the Promotion of Science, Jun, 2022 - Mar, 2024
Development of practical use of useful bacteria by understanding their behavior in the environment

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, 2019 - Mar, 2022
Soil-derived bacterial consortium capable of degrading chemical pollutant: interaction between pollutant-degrader and co-residing non-degraders

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, 2017 - Mar, 2020

Tsuda Masataka
Behavior of environmental bacteria in microbial community and oligotrophic growth state

Grants-in-Aid for Scientific Research Grant-in-Aid for Challenging Exploratory Research, Grant-in-Aid for Challenging Exploratory Research, Japan Society for the Promotion of Science, Apr, 2016 - Mar, 2018

Nagata Yuji, KATO HIROMI
Understanding of PCB-degrading soil bacterium and development of experimental methods for applied microbiology

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, 2015 - Mar, 2018

Ohtsubo Yoshiyuki
Studies on metabolic pathway involved in oligotrophic growth of heterotrophic bacteria

Grants-in-Aid for Scientific Research Grant-in-Aid for Challenging Exploratory Research, Grant-in-Aid for Challenging Exploratory Research, Japan Society for the Promotion of Science, Apr, 2014 - Mar, 2016

Nagata Yuji, TSUDA MASATAKA, OHTSUBO YOSHIYUKI
Mechanisms for acquiring ability to degrade novel compounds in sphingomonads and their applications

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, 2013 - Mar, 2016

Nagata Yuji, TSUDA MASATAKA, OHTSUBO YOSHIYUKI, Jiri Damborsky, Zbynek Prokop, TANOKURA MASARU, OKAI MASAHIKO
Behavior of microbial community in the environment polluted by aromatic compound

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, 2013 - Mar, 2016

Tsuda Masataka, KUROKAWA Ken, NAGATA Yuji, OHTSUBO Yoshiyuki
Studies on oligotrophic mutants of an aerobic heterotrophic bacterium

Grants-in-Aid for Scientific Research Grant-in-Aid for Challenging Exploratory Research, Grant-in-Aid for Challenging Exploratory Research, Japan Society for the Promotion of Science, Apr, 2012 - Mar, 2014

NAGATA Yuji, TSUDA Masataka, OHTSUBO Yoshiyuki
Studies on features and frequencies of recombination in bacterial evolution

Grants-in-Aid for Scientific Research Grant-in-Aid for Challenging Exploratory Research, Grant-in-Aid for Challenging Exploratory Research, Japan Society for the Promotion of Science, 2011 - 2013

OHTSUBO Yoshiyuki
Studies on molecular mechanisms for functional evolution of bacteria in the environment

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, 2010 - 2012

NAGATA Yuji, TSUDA Masataka, OHTSUBO Yoshiyuki, DAMBORSKY Jiri, SENDA Toshiya, TANOKURA Masaru
Response of soil microbial community to exposure of environmental pollutants

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, 2010 - 2012

TSUDA Masataka, KUROKAWA Ken, NAGATA Yuji, OHTSUBO Yoshiyuki
Genomic organization and genomic dynamism of versatile sphingomonads

Grants-in-Aid for Scientific Research Grant-in-Aid for Challenging Exploratory Research, Grant-in-Aid for Challenging Exploratory Research, Japan Society for the Promotion of Science, 2010 - 2011

NAGATA Yuji, TSUDA Masataka, OHTSUBO Yoshiyuki
Revealing catabolite-control mechanisms of soil bacteria

Grants-in-Aid for Scientific Research Grant-in-Aid for Scientific Research (C), Grant-in-Aid for Scientific Research (C), Japan Society for the Promotion of Science, 2008 - 2010

YOSHIYUKI Ohtsubo
挿入配列の土壌環境での動態の解明と新規遺伝子獲得への応用

科学研究費助成事業萌芽研究, 萌芽研究, 日本学術振興会, 2007 - 2008

永田裕二, 津田雅孝, 大坪嘉行
Comprehensive development of bacterial ability for the degradation ofchlorinated environmental pollutants using unexplored genetic sources

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, 2006 - 2008

NAGATA Yuji, TSUDA Masataka, OHTSUBO Yoshiyuki, JIRI Damborsky, SENDA Toshiya, TANOKURA Masaru, TAKEYAM Haaruko
Horizontal transfer of bacterial genes for degradation of environmental pollutants

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, 2006 - 2008

TSUDA Masataka, NAGATA Yuji, OHTSUBO Yoshiyuki
環境細菌のカタボライト調節分子メカニズムの解明

科学研究費助成事業若手研究(B), 若手研究(B), 日本学術振興会, 2006 - 2007

大坪嘉行

Industrial Property Rights

特願2018-523956 二本鎖ＤＮＡ末端の加工方法

Other

細菌の比較ゲノム解析研究に関する研究

Apr, 2014 - Apr, 2014

不明

Profile Information

Research Interests

Research Areas

Research History

Education

Committee Memberships

Awards

Major Papers

Major Misc.

Books and Other Publications

Presentations

Professional Memberships

Works

Research Projects

Industrial Property Rights

Other

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