Yamashita Akifumi 山下明史

… Alternative Names

YAMASHITA Akifumi 山下明史

山下明史ヤマシタアキフミ

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Researcher Number	00573180
Affiliation (based on the past Project Information) *help	2016 – 2017: 国立感染症研究所, 病原体ゲノム解析研究センター, 主任研究官 2015: 国立感染症研究所, その他部局等, 研究員 2013: 東北大学, 大学院生命科学研究科, 助教 2011: 東北大学, 大学院・生命科学研究科, 助教
Review Section/Research Field	Principal Investigator Bacteriology (including mycology) Except Principal Investigator Boundary agriculture
Keywords	Principal Investigator 不和合性タイプ / webアプリ / 薬剤耐性遺伝子 / 不和合性タイピング / 臨床由来株 / バイオインフォマティクス / ネットワーク解析 / 薬剤耐性 / プラスミド Except Principal Investigator 根圏微生物 … More / 植物マイクロビオーム / 窒素施肥 / メタン酸化 / 植物マークロビオーム / 物質代謝 / メタゲノム解析 / 植物共生微生物 Less

Dynamics of clinically derived drug-resistant plasmid by plasmid network analysisPrincipal Investigator
- Principal Investigator
  
  Yamashita Akifumi
- Project Period (FY)
  2015 – 2017
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Research Field
  
  Bacteriology (including mycology)
- Research Institution
  National Institute of Infectious Diseases
Material cycling in plant-associated bacteria by metagenome analysis
- Principal Investigator
  
  MINAMISAWA Kiwamu
- Project Period (FY)
  2011 – 2013
- Research Category
  
  Grant-in-Aid for Scientific Research (A)
- Research Field
  
  Boundary agriculture
- Research Institution
  Tohoku University

All 2018 2017 2016 2015 2014 2013 2011 Other

All Journal Article Presentation Other

[Journal Article] Isolation and Complete Genome Sequencing of Zika Virus Imported from the Dominican Republic to Japan2018
- Author(s)
  Ozawa H, Tajima S, Nakayama E, Kato K, Yamashita A, Sekizuka T, Kuroda M, Usuku S.
- Journal Title
  
  Jpn J Infect Dis
  
  Volume: 71 Issue: 1 Pages: 72-74
- DOI
  10.7883/yoken.JJID.2017.256
- NAID
  130006317353
- ISSN
  1344-6304, 1884-2836
- Language
  English
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-15K08488
[Journal Article] Molecular Evolution of the VP1 Gene in Human Norovirus GII.4 Variants in 1974?20152017
- Author(s)
  Motoya Takumi、Nagasawa Koo、Matsushima Yuki、Nagata Noriko、Ryo Akihide、Sekizuka Tsuyoshi、Yamashita Akifumi、Kuroda Makoto、Morita Yukio、Suzuki Yoshiyuki、Sasaki Nobuya、Katayama Kazuhiko、Kimura Hirokazu
- Journal Title
  
  Frontiers in Microbiology
  
  Volume: 8
- DOI
  10.3389/fmicb.2017.02399
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-15K08488
[Journal Article] Elucidation of quantitative structural diversity of remarkable rearrangement regions, shufflons, in IncI2 plasmids2017
- Author(s)
  Sekizuka Tsuyoshi、Kawanishi Michiko、Ohnishi Mamoru、Shima Ayaka、Kato Kengo、Yamashita Akifumi、Matsui Mari、Suzuki Satowa、Kuroda Makoto
- Journal Title
  
  Scientific Reports
  
  Volume: 7 Issue: 1
- DOI
  10.1038/s41598-017-01082-y
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-15K08488
[Journal Article] A summary of the imported cases of Chikungunya fever in Japan from 2006 to June 20162017
- Author(s)
  Nakayama Eri、Tajima Shigeru、Kotaki Akira、Shibasaki Ken-ichi、Itokawa Kentaro、Kato Kengo、Yamashita Akifumi、Sekizuka Tsuyoshi、Kuroda Makoto、Tomita Takashi、Saijo Masayuki、Takasaki Tomohiko
- Journal Title
  
  Journal of Travel Medicine
  
  Volume: 25 Issue: 1
- DOI
  10.1093/jtm/tax072
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-15K08488
[Journal Article] DGV: Dengue Genographic Viewer.2016
- Author(s)
  Yamashita A, Sakamoto T, Sekizuka T, Kato K, Takasaki T, Kuroda M.
- Journal Title
  
  Front Microbiol.
  
  Volume: 7 Pages: 875-875
- DOI
  10.3389/fmicb.2016.00875
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PROJECT-15K08488
[Journal Article] Characterization of the Pathogenicity of Streptococcus intermedius TYG1620 Isolated from a Human Brain Abscess Based on the Complete Genome Sequence with Transcriptome Analysis and Transposon Mutagenesis in a Murine Subcutaneous Abscess Model.2016
- Author(s)
  Hasegawa N, Sekizuka T, Sugi Y, Kawakami N, Ogasawara Y, Kato K, Yamashita A, Takeuchi F, Kuroda M
- Journal Title
  
  Infect Immun.
  
  Volume: 85 Issue: 2
- DOI
  10.1128/iai.00886-16
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-15K08488
[Journal Article] Prevalence of Colistin Resistance Gene mcr-1 and Absence of mcr-2 in Escherichia coli Isolated from Healthy Food-Producing Animals in Japan.2016
- Author(s)
  Kawanishi M, Abo H, Ozawa M, Uchiyama M, Shirakawa T, Suzuki S, Shima A, Yamashita A, Sekizuka T, Kato K, Kuroda M, Koike R, Kijima M.
- Journal Title
  
  Antimicrob Agents Chemother.
  
  Volume: 61 Issue: 1
- DOI
  10.1128/aac.02057-16
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-15K08488
[Journal Article] VirusTAP: Viral Genome-Targeted Assembly Pipeline2016
- Author(s)
  Akifumi Yamashita, Tsuyoshi Sekizuka, Makoto Kuroda
- Journal Title
  
  Frontiers in Microbiology
  
  Volume: 7 Pages: 32-32
- DOI
  10.3389/fmicb.2016.00032
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-15K08488
[Journal Article] Distribution and relationships of antimicrobial resistance determinants among extended-spectrum cephalosporin or carbapenem-resistant Escherichia coli isolated from rivers and sewage treatment plants in India.2016
- Author(s)
  Masato Akiba, Tsuyoshi Sekizuka, Akifumi Yamashita, Makoto Kuroda, Yuki Fujii, Misato Murata, Ken-Ichi Lee, Derrick Ian Joshua, Keshava Balakrishna, Indira Bairy, Kaushik Subramanian, Padma Krishnan, Natesan Munuswamy, Ravindra K Sinha, Taketoshi Iwata, Masahiro Kusumoto, Keerthi S Guruge
- Journal Title
  
  Antimicrobial agents and chemotherapy
  
  Volume: 60 Issue: 5 Pages: 2972-2980
- DOI
  10.1128/aac.01950-15
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K08488
[Journal Article] Two different dengue virus strains in the Japanese epidemics of 2014.2016
- Author(s)
  Nakayama E, Kotaki A, Tajima S, Kawada M, Miura K, Gemma A, Adachi T, Sekizuka T, Kato K, Yamashita A, Moi ML, Ikeda M, Yagasaki K, Shibasaki K, Saijo M, Kuroda M, Takasaki T.
- Journal Title
  
  Virus Genes.
  
  Volume: 52 Issue: 5 Pages: 722-6
- DOI
  10.1007/s11262-016-1356-4
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-15K08488
[Journal Article] TGS-TB: Total Genotyping Solution for Mycobacterium tuberculosis Using Short-Read Whole-Genome Sequencing.2015
- Author(s)
  Tsuyoshi Sekizuka, Akifumi Yamashita, Yoshiro Murase, Tomotada Iwamoto, Satoshi Mitarai, Seiya Kato, Makoto Kuroda
- Journal Title
  
  PloS one
  
  Volume: 10 Issue: 11 Pages: 142951-142951
- DOI
  10.1371/journal.pone.0142951
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-15K08488
[Journal Article] Characterization of the gut microbiota of Kawasaki disease patients by metagenomic analysis2015
- Author(s)
  Akiko Kinumaki, Tsuyoshi Sekizuka, Hiromichi Hamada, Kengo Kato, Akifumi Yamashita, Makoto Kuroda
- Journal Title
  
  Frontiers in Microbiology
  
  Volume: 6 Pages: 824-824
- DOI
  10.3389/fmicb.2015.00824
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-15K08488, KAKENHI-PROJECT-26460542
[Journal Article] Low nitrogen fertilization adapts rice root microbiome to low nutrient environment by changing biogeochemical functions2014
- Author(s)
  Ikeda, S., K. Sasaki, T. Okubo, A. Yamashita, K. Terasawa, Z. Bao, D. Liu, T. Watanabe, J. Murase, S. Asakawa, S. Eda, H. Mitsui, T. Sato, and K. Minamisawa
- Journal Title
  
  Microbes Environ.
  
  Volume: 29 Pages: 50-59
- NAID
  40020028957
- URL
  http://www.ncbi.nlm.nih.gov/pubmed/24463575
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23248052
[Journal Article] The type III Secretion System of Bradyrhizobium japonicum USDA122 mediates symbiotic incompatibility with Rj2 soybean plants2013
- Author(s)
  Tsukui T, Eda S, Kaneko T, Sato S,Okazaki S, Kakizaki-Chiba K, Itakura M,Mitsui H, Yamashita A, Terasawa K,Minamisawa K
- Journal Title
  
  Appl Environ Microbiol
  
  Volume: 79 Issue: 3 Pages: 1048-1051
- DOI
  10.1128/aem.03297-12
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21310130, KAKENHI-PROJECT-22380048, KAKENHI-PROJECT-23248052, KAKENHI-PROJECT-23658057
[Presentation] DGV: Dengue Genographic Viewer2017
- Author(s)
  Akifumi Yamashita, Tsuyoshi Sekizuka, Kengo Kato, Tomohiko Takasaki, Makoto Kuroda
- Organizer
  第52回日本脳炎ウイルス生態学研究会
- Data Source
  KAKENHI-PROJECT-15K08488
[Presentation] Prediction Tool for Drug-resistant Genetic Marker Based on Whole Genome Sequence of TB2017
- Author(s)
  山下明史、加藤健吾、岩本朋忠、関塚剛史、村瀬良朗、瀧井猛将、手洗聡、加藤誠也、黒田誠
- Organizer
  第90回日本細菌学会総会
- Place of Presentation
  宮城県仙台市青葉区青葉山　仙台国際センター
- Year and Date
  2017-03-19
- Data Source
  KAKENHI-PROJECT-15K08488
[Presentation] Genetic prediction tool for antimicrobial susceptibility of Mycobacterium tuberculosis using TGS-TBamr.2017
- Author(s)
  Akifumi Yamashita, Tomotada Iwamoto, Tsuyoshi Sekizuka, Yoshiro Murase, Takemasa Takii, Satoshi Mitarai, Kengo Kato, Seiya Kato, and Makoto Kuroda
- Organizer
  ICC2017
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K08488
[Presentation] Total Genotyping Solution for Mycobacterium tuberculosis (TGS-TB) による結核菌薬剤耐性マーカー検出と感受性予測法の構築2017
- Author(s)
  山下明史、瀧井猛将、御手洗聡、黒田誠
- Organizer
  第65回化学療法学会学術集会
- Data Source
  KAKENHI-PROJECT-15K08488
[Presentation] プラスミドネットワーク解析ツールiPAT (inter Plasmid Analyzing Tool)2016
- Author(s)
  山下明史、黒田誠
- Organizer
  第64回日本化学療法学会総会
- Place of Presentation
  神戸市中央区港島中町　神戸国際会議場
- Year and Date
  2016-06-09
- Data Source
  KAKENHI-PROJECT-15K08488
[Presentation] DGV: Gengue Genographic Viewer2016
- Author(s)
  山下明史、関塚剛史、加藤健吾、高崎智彦、黒田誠
- Organizer
  JOINT INTERNATIONAL TROPICAL MEDICINE MEETING 2016
- Place of Presentation
  Amari Watergate, Bangkok, Thailand
- Year and Date
  2016-12-07
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K08488
[Presentation] TGS-TB: Total Genotyping Solution for M. tuberculosis using short-read whole-genome sequencing2016
- Author(s)
  Tsuyoshi Sekizuka, Akifumi Yamashita, Yoshihiro Murase, Tomotada Iwamoto, Satoshi Mitarai, Seiya Kato, Makoto Kuroda
- Organizer
  第89回日本細菌学会
- Place of Presentation
  大阪国際交流センター
- Year and Date
  2016-03-23
- Data Source
  KAKENHI-PROJECT-15K08488
[Presentation] DGV: Gengue Genographic Viewer2016
- Author(s)
  山下明史、関塚剛史、加藤健吾、高崎智彦、黒田誠
- Organizer
  The 11th Japan-China International Conference of Virology
- Place of Presentation
  香川県観音寺市琴弾荘
- Year and Date
  2016-07-01
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K08488
[Presentation] Virus genome-targeted assembly pipeline: VirusTAP2016
- Author(s)
  山下明史、関塚剛史、黒田誠
- Organizer
  第5回生命医薬情報学連合大会
- Place of Presentation
  東京都江東区青海　東京国際交流プラザ平成
- Year and Date
  2016-09-29
- Data Source
  KAKENHI-PROJECT-15K08488
[Presentation] TGS-TB: Total Genotyping Solution for Mycobacterium tuberculosis using short-read whole-genome sequencing2015
- Author(s)
  Tsuyoshi Sekizuka, Akifumi Yamashita, Yoshiro Murase, Tomotada Iwamoto, Satoshi Mitarai, Seiya Kato, Makoto Kuroda
- Organizer
  8th Meeting on Global Microbial Identifier (GMI)
- Place of Presentation
  Sunworld Dynasty Hotel, 50 Wangfujing Avenue, Beijing, China
- Year and Date
  2015-05-11
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K08488
[Presentation] Geographical view of dengue genotype distribution2015
- Author(s)
  Akifumi Yamashita, Tetsuya Sakamoto, Tsuyoshi Sekizuka, and Makoto Kuroda
- Organizer
  DENGUE SURVEILLANCE: INFORMATION-SHARING AMONG ASIAN COUNTRIES FOR A BETTER PREPARED REGION
- Place of Presentation
  国立感染症研究所戸山庁舎
- Year and Date
  2015-09-30
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K08488
[Presentation] TGS-TB: Total Genotyping Solution for Mycobacterium tuberculosis using short-read whole-genome sequencing2015
- Author(s)
  Tsuyoshi Sekizuka, Akifumi Yamashita, Yoshihiro Murase, Tomotada Iwamoto, Satoshi Mitarai, Seiya Kato, Makoto Kuroda
- Organizer
  1st ASM Conference on Rapid Next-Generation Sequencing and Bioinformatic Pipelines for Enhanced Molecular Epidemiologic Investigation of Pathogens
- Place of Presentation
  Omni Shoreham Hotel 2500 Calvert St NW, Washington, DC
- Year and Date
  2015-09-24
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K08488
[Presentation] メタゲノムデータから目的の配列を効率よく探す方法2011
- Author(s)
  山下明史
- Organizer
  ゲノム微生物学会ワークショップ-ゲノムで繋がる微生物研究の新展開-
- Place of Presentation
  東北大学片平キャンパスさくらホール(仙台)
- Year and Date
  2011-08-20
- Data Source
  KAKENHI-PROJECT-23248052
[]

1. MINAMISAWA Kiwamu (70167667)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
2. SHINANO Takuro (20235542)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
3. IKEDA Seishi (20396609)

# of Collaborated Projects: 1 results

# of Collaborated Products: 1 results
4. IKEDA Seishi (40414750)

# of Collaborated Projects: 1 results

# of Collaborated Products: 1 results
5. KURODA MAKOTO (80317411)

# of Collaborated Projects: 1 results

# of Collaborated Products: 23 results
6. 南沢究

# of Collaborated Projects: 0 results

# of Collaborated Products: 2 results
7. 佐藤修正

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
8. 金子貴一

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results

Yamashita Akifumi 山下 明史

YAMASHITA Akifumi 山下 明史

山下 明史 ヤマシタ アキフミ

Research Projects

Research Products

Co-Researchers

Dynamics of clinically derived drug-resistant plasmid by plasmid network analysisPrincipal Investigator

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

Material cycling in plant-associated bacteria by metagenome analysis

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

[Journal Article] Isolation and Complete Genome Sequencing of Zika Virus Imported from the Dominican Republic to Japan2018

Author(s)

Journal Title

DOI

NAID

ISSN

Language

Data Source

[Journal Article] Molecular Evolution of the VP1 Gene in Human Norovirus GII.4 Variants in 1974?20152017

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Elucidation of quantitative structural diversity of remarkable rearrangement regions, shufflons, in IncI2 plasmids2017

Author(s)

Journal Title

DOI

Data Source

[Journal Article] A summary of the imported cases of Chikungunya fever in Japan from 2006 to June 20162017

Author(s)

Journal Title

DOI

Data Source

[Journal Article] DGV: Dengue Genographic Viewer.2016

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Characterization of the Pathogenicity of Streptococcus intermedius TYG1620 Isolated from a Human Brain Abscess Based on the Complete Genome Sequence with Transcriptome Analysis and Transposon Mutagenesis in a Murine Subcutaneous Abscess Model.2016

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Prevalence of Colistin Resistance Gene mcr-1 and Absence of mcr-2 in Escherichia coli Isolated from Healthy Food-Producing Animals in Japan.2016

Author(s)

Journal Title

DOI

Data Source

[Journal Article] VirusTAP: Viral Genome-Targeted Assembly Pipeline2016

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Distribution and relationships of antimicrobial resistance determinants among extended-spectrum cephalosporin or carbapenem-resistant Escherichia coli isolated from rivers and sewage treatment plants in India.2016

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Two different dengue virus strains in the Japanese epidemics of 2014.2016

Author(s)

Journal Title

DOI

Data Source

[Journal Article] TGS-TB: Total Genotyping Solution for Mycobacterium tuberculosis Using Short-Read Whole-Genome Sequencing.2015

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Characterization of the gut microbiota of Kawasaki disease patients by metagenomic analysis2015

Author(s)

Journal Title

DOI

Yamashita Akifumi 山下明史

YAMASHITA Akifumi 山下明史

山下明史ヤマシタアキフミ