荒 武

Last Update: 2017/06/21 14:39:52

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Name(Kanji/Kana/Abecedarium Latinum)
荒 武/アラ タケシ/Takeshi Ara
Primary department(Org1/Org2/Org3/Job title)
農学研究科/食品生物科学専攻食品健康科学講座/特定准教授
Faculty
Org1 Org2 Org3 Job title
農学部
E-mail address
メールアドレス
ara @ kais.kyoto-u.ac.jp
Affiliated academic organization(s) (Japanese)
Organization name(Japanese) Organization name(English)
日本バイオインフォマティクス学会 Japanese Society for Bioinformatics
日本植物細胞分子生物学会 Japanese Society for Plant Cell and Molecular Biology
日本質量分析学会 The Mass Spectrometry Society of Japan
日本食品科学工学会 The Japanese Society for Food Science and Technology
Academic degree
Field(Japanese) Field(English) University(Japanese) University(English) Method
修士(農学) 京都大学
博士(農学) 京都大学
Personal website address
URL
http://www.kagometomato.kais.kyoto-u.ac.jp/
http://researchmap.jp/read0116102
http://www.foodfunc.kais.kyoto-u.ac.jp/
Research Topics
(Japanese)
トマト代謝成分のメタボローム解析
(English)
Metabolome analysis of tomato
Fields of research (key words)
Key words(Japanese) Key words(English)
バイオインフォマティクス Bioinformatics
データベース Database
メタボローム Metabolome
ゲノム Genome
Published Papers > Published Papers
(文系研究者の一般的な論文集への寄稿や単行本の分担執筆などは「著書等」を参照してください)
Authors Title Bibliography Date Peer-Review Language
荒 武、青江誠一郎、渡邊 昌 新世代の栄養学研究メタボローム 医と食,9,1,9-16 2017/02 Japanese
Akimoto N, Ara T, Nakajima D, Suda K, Ikeda C, Takahashi S, Muneto R, Yamada M, Suzuki H, Shibata D, Sakurai N FlavonoidSearch: A system for comprehensive flavonoid annotation by mass spectrometry Scientific Reports,7,1243 2017 Refereed English
荒 武 メタボロームはじめの一歩 - 食品の新しい姿を求めて 工業材料,64,9 2016/08 Japanese
Yamamoto N, Ara T, Sakurai N, Tsugane T, Suzuki H and Shibata D An improved MatchedIonsFinder algorithm for refining ion feature assignments among chromatograms in liquid chromatography-mass spectrometry Journal of Life Sciences and Technologies,4,2,75-78 2016 Refereed English
Ara T, Enomoto M, Arita M, Ikeda C, Kera K, Yamada M, Nishioka T, Ikeda T, Nihei Y, Shibata D, Kanaya S, Sakurai N Metabolonote: A wiki-based database for managing hierarchical metadata of metabolome analyses Frontiers in Bioengineering and Biotechnology,3,38 2015 Refereed English
Sakurai N, Ara T, Enomoto M, Motegi T, Morishita Y, Kurabayashi A, Iijima Y, Ogata Y, Nakajima D, Suzuki H and Shibata D Tools and Databases of the KOMICS Web Portal for Preprocessing, Mining, and Dissemination of Metabolomics Data BioMed Research International,2014,1-11 2014 Refereed English
Kota Kera, Yoshiyuki Ogata, Takeshi Ara, Yoshiki Nagashima, Norimoto Shimada, Nozomu Sakurai, Daisuke Shibata, Hideyuki Suzuki ShiftedIonsFinder: A standalone Java tool for finding peaks with specified mass differences by comparing mass spectra of isotope-labeled and unlabeled data sets Plant Biotechnology,31,3,269-274 2014 Refereed English
Sakurai N, Ara T, Kanaya S, Nakamura Y, Iijima Y, Enomoto M, Motegi T, Aoki K, Suzuki H and Shibata D An application of a relational database system for high-throughput prediction of elemental compositions from accurate mass values. Bioinformatics,29,2,290-291 2013 Refereed English
Yamamoto N, Suzuki T, Ara T, Sakurai N, Shinpo S, Morishita Y, Sasaki R, Tsugane T, Suzuki H and Shibata D MatchedIonsFinder: A software tool for revising alignment matrices of spectrograms from liquid chromatography-mass spectrometry Plant Biotechnology,29,1,109-113 2012 Refereed English
Sano R, Ara T, Akimoto N, Sakurai N, Suzuki H, Fukuzawa Y, Kawamitsu Y, Ueno M and Shibata D Dynamic metabolic changes during fruit maturation in Jatropha curcas L. Plant Biotechnology,29,2,175-178 2012 Refereed English
Sakurai N, Ogata Y, Ara T, Sano R, Akimoto N, Suzuki H, Kajikawa M, Widyastuti U, Suharsono S, Yokota A, Akashi K, Kikuchi J and Shibata D Development of KaPPA-View4 for omics studies on Jatropha and a database system KaPPA-Loader for construction of local omics databases Plant Biotechnology,29,2,131-135 2012 Refereed English
Sakurai N, Ara T, Ogata Y, Sano R, Ohno T, Sugiyama K, Hiruta A, Yamazaki K, Yano K, Aoki K, Aharoni A, Hamada K, Yokoyama, Kawamura S, Otsuka H, Tokimatsu T, Kanehisa M, Suzuki H, Saito K and Shibata G KaPPA-View4: A metabolic pathway database for representation and analysis of correlation networks of gene co-expression and metabolite co-accumulation and omics data Nucleic Acids Research,29,1,D677-D684 2011 Refereed English
Ogawa T, Ara T, Aoki K, Suzuki H and Shibata D Transient increase in salicylic acid and its glucose conjugates after wounding in Arabidopsis leaves. Plant Biotechnology,27,2,205-209 2010 Refereed English
Aono E, Baba T, Ara T, Nishi T, Nakamichi T, Inamoto E, Toyonaga H, Hasegawa M, Takai Y, Okumura Y, Baba M, Tomita M, Kato C, Oshima T, Nakasone K and Mori H Complete genome sequence and comparative analysis of Shewanella violacea, a psychrophilic and piezophilic bacterium from deep sea floor sediments. Molecular BioSystems,6,7,1216-1226 2010 Refereed English
Horai H, Arita M, Kanaya S, Nihei Y, Ikeda T, Suwa K, Ojima Y, Tanaka K, Tanaka S, Aoshima K, Oda Y, Kakazu Y, Kusano M, Tohge T, Matsuda F, Sawada Y, Hirai MY, Nakanishi H, Ikeda K, Akimoto N, Maoka T, Takahashi H, Ara T, Sakurai N, Suzuki H, Shibata D, Neumann S, Iida T, Tanaka K, Funatsu K, Matsuura F, Soga T, Taguchi R, Saito K, Nishioka T MassBank: a public repository for sharing mass spectral data for life sciences. Journal of Mass Spectrometry,45,7,703-714 2010 Refereed English
Koscielny G, Le Texier V, Gopalakrishnan C, Kumanduri V, Riethoven JJ, Nardone F, Stanley E, Fallsehr C, Hofmann O, Kull M, Harrington E, Boue S, Eyras E, Plass M, Lopez F, Ritchie W, Moucadel V, Ara T, Pospisil H, Herrmann A, G Reich J, Guigo R, Bork P, Doeberitz MK, Vilo J, Hide W, Apweiler R, Thanaraj TA, Gautheret D ASTD: The Alternative Splicing and Transcript Diversity database. Genomics,93,3,213-220 2009 Refereed English
Ara T, Sakurai N, Tange Y, Morishita Y, Suzuki H, Aoki K, Saito K and Shibata D Improvement of the quantitative differential metabolome pipeline for gas chromatography-mass spectrometry data by automated reliable peak selection. Plant Biotechnology,26,5,445-449 2009 Refereed English
Chen C, Ara T and Gautheret D. Using Alu Elements as Polyadenylation Sites: A Case of Retroposon Exaptation. Molecular Biology and Evolution,Epub ahead of print 2008 Refereed English
Moucadel V, Lopez F, Ara T, Philippe Benech and Gautheret D Beyond the 3' end: experimental validation of extended transcript isoforms. Nucleic Acids Research,35,6,1947-1957 2007 Refereed English
Arifuzzaman M, Maeda M, Itoh A, Nishikata K, Takita C, Saito R, Ara T, Nakahigashi K, Huang HC, Hirai A, Tsuzuki K, Nakamura S, Altaf-Ul-Amin M, Oshima T, Baba T, Yamamoto N, Kawamura T, Ioka-Nakamichi T, Kitagawa M, Tomita M, Kanaya S, Wada C and Mori H Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Research,16,686-691 2006 Refereed English
Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, Baba M, Datsenko KA, Tomita M, Wanner BL and Mori H Construction of Escherichia coli K-12 in-frame, singlegene knockout mutants: the Keio collection. Mol. Sys. Biol.,2,2006.0008 2006 Refereed English
Ara T, Lopez F, Ritchie W, Benech P and Gautheret D Conservation of Alternative Polyadenylation Patterns in Mammals. BMC Genomics,7,189 2006 Refereed English
Lopez F, Granjeaud S, Ara T, Ghattas B and Gautheret D The disparate nature of "intergenic" polyadenylation sites. RNA,12,10,1794-1801 2006 Refereed English
Kitagawa M., Ara T., Arifuzzaman M., Ioka-Nakamichi T., Inamoto E., Toyonaga H., and Mori H Complete set of ORF clones of Escherichia coli ASKA library (A Complete Set of E. coli K-12 ORF Archive): Unique Resources for Biological Research. DNA Research,12,5,291-299 2005 Refereed English
荒 武、青野英司 深海微生物の比較ゲノム生物学 月刊海洋,411,655-672 2004 Japanese
Kawano M., Kanaya S., Oshima T., Masuda Y., Ara T. and Mori H Distribution of repetitive sequences on the leading and lagging strands of the Escherichia coli genome: comparative study of Long Direct Repeat (LDR) sequences. DNA Research,9,1,1-10 2002 Refereed English
Yamagishi K., Oshima T., Masuda Y., Ara T., Kanaya S. and Mori H. Conservation of translation initiation sites based on dinucleotide frequency and codon usage in Escherichia coli K-12 (W3110): non-random distribution of A/T-rich sequences immediately upstream of the translation initiation codon. DNA Research,9,1,19-24 2002 Refereed English
Murata T., Ohnishi M., Ara T., Kaneko J., Han C. G., Li Y. F., Takashima K., Nojima H., Nakayama K., Kaji A., Kamio Y., Miki T., Mori H., Ohtsubo E., Terawaki Y. and Hayashi T. Complete nucleotide sequence of plasmid Rts1: implications for evolution of large plasmid genomes. J. Bacteriol.,184,12,3194-3202 2002 Refereed English
Oshima T., Wada C., Kawagoe Y., Ara T., Maeda M., Masuda Y., Hiraga S., and Mori H Genome-wide analysis of deoxyadenosine methyltransferase-mediated control of gene expression in Escherichia coli. Mol. Microbiol.,45,3,673-695 2002 Refereed English
森 浩禎、堀内 嵩、磯野 克己、和田 千恵子、金谷 重彦、北川 正成、荒  武、大島 拓 大腸菌のポストシーケンスゲノム解析 蛋白質核酸酵素,46,1977-1985 2001 Japanese
荒 武、旭 浩子、森 浩禎 大腸菌ゲノムデータベースの構築 Computer Today,101,19-25 2001 Japanese
Ara T. and Sekiya J Purification and characterization of APS sulfotransferase from spinach leaves Sulphur Metabolism in Higher Plants,177-179 1997 Refereed English
Ara T. and Sekiya J. Non-radioactive adenosine 5'-phosphosulfate sulfotransferase assay by coupling with sulfite reductase and O-acetylserine(thiol)lyase. Biosci Biotechnol Biochem.,61,4,621-624 1997 Refereed English

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Published Papers > International Society
(文系研究者の一般的な論文集への寄稿や単行本の分担執筆などは「著書等」を参照してください)
Authors Title Bibliography Date Peer-Review Language
Ara T, Takahashi S, Waki N, Sakurai N, Aizawa K, Suganuma H, Matsumura Y, Kawada T and Shibata D Comparative metabolomic analysis of two tomato cultivars during fruit maturation Acta Horticulturae 2017 Refereed English
Published Papers > Other
(文系研究者の一般的な論文集への寄稿や単行本の分担執筆などは「著書等」を参照してください)
Authors Title Bibliography Date Peer-Review Language
ARA Takeshi Studies of Adenosine 5'-phosphosulfate Reducing Enzymes in Higher Plants Kyoto University 1998/09 English
Publications > Books
Authors Title Publisher Date Language
バイオデータベースとウェブツールの手とり足とり活用法 第2版(分担執筆) 羊土社 2007 Japanese
ゲノミクス・プロテオミクスの新展開(分担執筆) 羊土社 2004 Japanese
バイオデータベースとウェブツールの手とり足とり活用法(分担執筆) 羊土社 2002 Japanese
Teaching subject(s)
Name(Japanese) Name(English) Term Department Period
代謝栄養学特論 Advanced Course of Metabolism and Nutritional Chemistry 後期集中 農学研究科 2017/04-2018/03
食品分子機能学専攻実験1 Experimental Course in Molecular Function of Food1 通年 農学研究科 2017/04-2018/03
食品分子機能学専攻実験2 Experimental Course in Molecular Function of Food2 通年 農学研究科 2017/04-2018/03
食品分子機能学専攻演習1 Seminar in Molecular Function of Food1 通年 農学研究科 2017/04-2018/03
食品分子機能学専攻演習2 Seminar in Molecular Function of Food2 通年 農学研究科 2017/04-2018/03
History of staying abroad
Organization Department Research theme Country Period
INSERM TAGC 哺乳類ゲノム比較解析 フランス 2004/04/01-2006/06/30