Kenshiro Oshima

Kenshiro Oshima

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Kenshiro Oshima

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Draft Genome Sequence of Sporolactobacillus inulinus NBRC 111894, Isolated from Kôso, a Japanese Sugar-Vegetable Fermented Beverage.

Microbiol Resour Announc 2019 Oct 10;8(41). Epub 2019 Oct 10.

ARSOA Research & Development Center, AOB Keioh Group Corporation, Hokuto, Yamanashi, Japan.

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http://dx.doi.org/10.1128/MRA.00751-19DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6787315PMC
October 2019

Long-read metagenomic exploration of extrachromosomal mobile genetic elements in the human gut.

Microbiome 2019 08 27;7(1):119. Epub 2019 Aug 27.

Department of Computational Biology and Medical Sciences, Graduate School of Frontier Sciences, The University of Tokyo, Chiba, 277-8568, Japan.

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http://dx.doi.org/10.1186/s40168-019-0737-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6712665PMC
August 2019

Genome Sequence of " Serratia symbiotica" Strain IS, a Facultative Bacterial Symbiont of the Pea Aphid .

Microbiol Resour Announc 2019 May 9;8(19). Epub 2019 May 9.

Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology, Tsukuba, Japan

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http://dx.doi.org/10.1128/MRA.00272-19DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6509525PMC
May 2019

Draft Genome Sequence of NBRC 113063, Isolated from Kôso, a Japanese Sugar-Vegetable Fermented Beverage.

Microbiol Resour Announc 2018 Nov 21;7(20). Epub 2018 Nov 21.

ARSOA Research & Development Center, AOB Keioh Group Corporation, Hokuto, Yamanashi, Japan.

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http://genomea.asm.org/lookup/doi/10.1128/MRA.01173-18
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http://dx.doi.org/10.1128/MRA.01173-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6256611PMC
November 2018

Lactobacillus kosoi sp. nov., a fructophilic species isolated from kôso, a Japanese sugar-vegetable fermented beverage.

Antonie Van Leeuwenhoek 2018 Jul 20;111(7):1149-1156. Epub 2018 Jan 20.

AOB Keioh Group Corporation, ARSOA Research & Development Center, 2961 Kobuchisawa-cho, Hokuto, Yamanashi, 408-8522, Japan.

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http://dx.doi.org/10.1007/s10482-018-1019-7DOI Listing
July 2018

Small genome symbiont underlies cuticle hardness in beetles.

Proc Natl Acad Sci U S A 2017 10 18;114(40):E8382-E8391. Epub 2017 Sep 18.

Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology, Tsukuba 305-8566, Japan;

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http://dx.doi.org/10.1073/pnas.1712857114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5635926PMC
October 2017

DNA hypermethyation and silencing of correlated with advanced stage and poor postoperative prognosis of esophageal squamous cell carcinoma.

Oncotarget 2017 Oct 28;8(48):84434-84448. Epub 2017 Sep 28.

Department of Gastroenterology, The Research Center for Hepatitis and Immunology, Research Institute, National Center for Global Health and Medicine, Chiba, Japan.

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http://dx.doi.org/10.18632/oncotarget.21375DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5663609PMC
October 2017

Genomic structure and evolution of the mating type locus in the green seaweed Ulva partita.

Sci Rep 2017 09 15;7(1):11679. Epub 2017 Sep 15.

Department of Integrated Biosciences, Graduate School of Frontier Sciences, University of Tokyo, Kashiwa, Chiba, Japan.

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http://dx.doi.org/10.1038/s41598-017-11677-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5601483PMC
September 2017

Circadian oscillations of microbial and functional composition in the human salivary microbiome.

DNA Res 2017 Jun;24(3):261-270

Laboratory of Metagenomics, Department of Computational Biology and Medical Science, Graduate School of Frontier Sciences, The University of Tokyo, 5-1-5, Kashiwanoha, Kashiwa, Chiba 277-8561, Japan.

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http://dx.doi.org/10.1093/dnares/dsx001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5499806PMC
June 2017

Changes in the bacterial community in the fermentation process of kôso, a Japanese sugar-vegetable fermented beverage.

Biosci Biotechnol Biochem 2017 Feb 1;81(2):403-410. Epub 2016 Nov 1.

e ARSOA Research & Development Center, AOB Keioh Group Corporation , Hokuto , Japan.

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http://dx.doi.org/10.1080/09168451.2016.1249449DOI Listing
February 2017

Draft Genome Sequencing of the Highly Halotolerant and Allopolyploid Yeast NBRC 1876.

Genome Announc 2017 Feb 16;5(7). Epub 2017 Feb 16.

Research & Development Division, Kikkoman Corporation, Noda, Chiba, Japan.

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http://dx.doi.org/10.1128/genomeA.01610-16DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5313615PMC
February 2017

A Histone Methyltransferase ESET Is Critical for T Cell Development.

J Immunol 2016 09 10;197(6):2269-79. Epub 2016 Aug 10.

Department of Immunology and Pathology, Research Center for Hepatitis and Immunology, Research Institute, National Center for Global Health and Medicine, Chiba 272-8516, Japan;

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http://dx.doi.org/10.4049/jimmunol.1502486DOI Listing
September 2016

The gut microbiome of healthy Japanese and its microbial and functional uniqueness.

DNA Res 2016 Apr 6;23(2):125-33. Epub 2016 Mar 6.

Graduate School of Frontier Sciences, The University of Tokyo, Chiba 277-8561, Japan Graduate School of Advanced Science and Engineering, Waseda University, Tokyo 169-8555, Japan

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http://dx.doi.org/10.1093/dnares/dsw002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4833420PMC
April 2016

Interferon-γ constrains cytokine production of group 2 innate lymphoid cells.

Immunology 2016 Jan 25;147(1):21-9. Epub 2015 Oct 25.

Department of Immune Regulation, Research Centre for Hepatitis and Immunology, Research Institute, National Centre for Global Health and Medicine, Chiba, Japan.

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http://doi.wiley.com/10.1111/imm.12537
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http://dx.doi.org/10.1111/imm.12537DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4693881PMC
January 2016

Genomic and metagenomic analysis of microbes in a soil environment affected by the 2011 Great East Japan Earthquake tsunami.

BMC Genomics 2016 Jan 14;17:53. Epub 2016 Jan 14.

Department of Computational Biology and Medical Sciences, Graduate School of Frontier Sciences, the University of Tokyo, Chiba, 277-8568, Japan.

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http://dx.doi.org/10.1186/s12864-016-2380-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4712596PMC
January 2016

Draft Genome Sequence of Lactobacillus farciminis NBRC 111452, Isolated from Kôso, a Japanese Sugar-Vegetable Fermented Beverage.

Genome Announc 2016 Jan 14;4(1). Epub 2016 Jan 14.

ARSOA Research & Development Center, AOB Keioh Group Corporation, Hokuto, Yamanashi, Japan.

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http://dx.doi.org/10.1128/genomeA.01514-15DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4714107PMC
January 2016

Unique pioneer microbial communities exposed to volcanic sulfur dioxide.

Sci Rep 2016 Jan 21;6:19687. Epub 2016 Jan 21.

Ibaraki University College of Agriculture, Ibaraki 300-0332, Japan.

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http://dx.doi.org/10.1038/srep19687DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4726209PMC
January 2016

Distribution and evolution of nitrogen fixation genes in the phylum Bacteroidetes.

Microbes Environ 2015 16;30(1):44-50. Epub 2015 Jan 16.

Japan Collection of Microorganisms/Microbe Division, RIKEN BioResource Center, Koyadai 3–1–1, Tsukuba, Ibaraki 305–0074, Japan; Synaptech Co. Ltd., Ohte 1–2–37–C–105, Kofu, Yamanashi 400–0015, Japan.

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http://dx.doi.org/10.1264/jsme2.ME14142DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4356463PMC
December 2015

Complete genome sequence of Bifidobacterium angulatum JCM 7096(T) isolated from human feces.

J Biotechnol 2015 Oct 30;211:10-1. Epub 2015 Jun 30.

Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Chiba, Japan.

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http://dx.doi.org/10.1016/j.jbiotec.2015.06.412DOI Listing
October 2015

Complete genome sequence of Bifidobacterium pseudocatenulatum JCM 1200(T) isolated from infant feces.

J Biotechnol 2015 Sep 29;210:68-9. Epub 2015 Jun 29.

Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Chiba, Japan.

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http://dx.doi.org/10.1016/j.jbiotec.2015.06.416DOI Listing
September 2015

Complete genome sequence of Bifidobacterium breve JCM 1192(T) isolated from infant feces.

J Biotechnol 2015 Sep 30;210:81-2. Epub 2015 Jun 30.

Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Chiba, Japan.

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http://dx.doi.org/10.1016/j.jbiotec.2015.06.414DOI Listing
September 2015

Inhibition of Dectin-1 Signaling Ameliorates Colitis by Inducing Lactobacillus-Mediated Regulatory T Cell Expansion in the Intestine.

Cell Host Microbe 2015 Aug;18(2):183-97

Center for Animal Disease Models, Research Institute for Biomedical Sciences, Tokyo University of Science, Noda, Chiba 278-0022, Japan; Center for Experimental Medicine and Systems Biology, Institute of Medical Science, The University of Tokyo, Minato-ku, Tokyo 108-8639, Japan; Core Research for Evolutional Science and Technology (CREST), Japan Science and Technology Agency (JST), Saitama 332-0012, Japan; Graduate School of Science, The University of Tokyo, Bunkyo-ku, Tokyo 113-8654, Japan; Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Chiba 277-8561, Japan; Medical Mycology Research Center, Chiba University, Chiba 260-8673, Japan. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S19313128150029
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http://dx.doi.org/10.1016/j.chom.2015.07.003DOI Listing
August 2015

Proteome analysis of shell matrix proteins in the brachiopod Laqueus rubellus.

Proteome Sci 2015 15;13:21. Epub 2015 Aug 15.

Department of Earth and Planetary Science, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-0033 Japan.

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http://dx.doi.org/10.1186/s12953-015-0077-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4536745PMC
August 2015

Tepidicaulis marinus gen. nov., sp. nov., a marine bacterium that reduces nitrate to nitrous oxide under strictly microaerobic conditions.

Int J Syst Evol Microbiol 2015 Jun 4;65(Pt 6):1749-54. Epub 2015 Mar 4.

1Institute for Geo-resources and Environments, National Institute of Advanced Industrial Science and Technology (AIST), 1-1-1 Higashi, Tsukuba, Ibaraki 305-8567, Japan.

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http://dx.doi.org/10.1099/ijs.0.000167DOI Listing
June 2015

Characterization of the 17 strains of regulatory T cell-inducing human-derived Clostridia.

Gut Microbes 2014 May-Jun;5(3):333-9. Epub 2014 Mar 18.

RIKEN Center for Integrative Medical Sciences (IMS-RCAI); Yokohama, Japan; Japan Science and Technology Agency; Core Research for Evolutional Science and Technology (CREST); Kawaguchi, Japan.

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http://dx.doi.org/10.4161/gmic.28572DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4153770PMC
May 2015

Loss of cytochrome cM stimulates cyanobacterial heterotrophic growth in the dark.

Plant Cell Physiol 2015 Feb 20;56(2):334-45. Epub 2014 Nov 20.

Graduate School of Bioagricultural Sciences, Nagoya University, Nagoya, 464-8601 Japan

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http://dx.doi.org/10.1093/pcp/pcu165DOI Listing
February 2015

Methylocaldum marinum sp. nov., a thermotolerant, methane-oxidizing bacterium isolated from marine sediments, and emended description of the genus Methylocaldum.

Int J Syst Evol Microbiol 2014 Sep 30;64(Pt 9):3240-6. Epub 2014 Jun 30.

Institute for Geo-resources and Environments, National Institute of Advanced Industrial Science and Technology (AIST), 1-1-1 Higashi, Tsukuba, Ibaraki 305-8567, Japan.

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http://dx.doi.org/10.1099/ijs.0.063503-0DOI Listing
September 2014

Genome evolution and plasticity of Serratia marcescens, an important multidrug-resistant nosocomial pathogen.

Genome Biol Evol 2014 Aug;6(8):2096-110

Department of Infectious Diseases, Faculty of Medicine, University of Miyazaki, JapanDepartment of Genomics and Bioenvironmental Science, Frontier Science Research Center, University of Miyazaki, Japan

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http://dx.doi.org/10.1093/gbe/evu160DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4231636PMC
August 2014

Evolutionary origin of insect-Wolbachia nutritional mutualism.

Proc Natl Acad Sci U S A 2014 Jul 30;111(28):10257-62. Epub 2014 Jun 30.

Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology, Tsukuba 305-8566, Japan; and

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http://dx.doi.org/10.1073/pnas.1409284111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4104916PMC
July 2014

Complete Genome Sequence of Winogradskyella sp. Strain PG-2, a Proteorhodopsin-Containing Marine Flavobacterium.

Genome Announc 2014 May 29;2(3). Epub 2014 May 29.

Department of Computational Biology, Graduate School of Frontier Sciences, the University of Tokyo, Kashiwa, Chiba, Japan.

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http://dx.doi.org/10.1128/genomeA.00490-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4038882PMC
May 2014

Seasonal transition of active bacterial and archaeal communities in relation to water management in paddy soils.

Microbes Environ 2013 5;28(3):370-80. Epub 2013 Sep 5.

Department of Applied Biological Chemistry, Graduate School of Agricultural and Life Sciences, The University of Tokyo.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4070958PMC
http://dx.doi.org/10.1264/jsme2.me13030DOI Listing
April 2014

Draft Genome Sequence of Paenibacillus pini JCM 16418T, Isolated from the Rhizosphere of Pine Tree.

Genome Announc 2014 Mar 20;2(2). Epub 2014 Mar 20.

Biomass Research Platform Team, RIKEN Biomass Engineering Program Cooperation Division, RIKEN Center for Sustainable Resource Science, Tsukuba, Ibaragi, Japan.

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http://dx.doi.org/10.1128/genomeA.00210-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3961731PMC
March 2014

Draft Genome Sequences of Two Lactobacillus Strains, L. farraginis JCM 14108T and L. composti JCM 14202T, Isolated from Compost of Distilled Shōchū Residue.

Genome Announc 2014 Mar 27;2(2). Epub 2014 Mar 27.

Biomass Research Platform Team, RIKEN Biomass Engineering Program Cooperation Division, RIKEN Center for Sustainable Resource Science, Tsukuba, Ibaragi, Japan.

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http://dx.doi.org/10.1128/genomeA.00257-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3968344PMC
March 2014

Dysbiosis of salivary microbiota in inflammatory bowel disease and its association with oral immunological biomarkers.

DNA Res 2014 Feb 7;21(1):15-25. Epub 2013 Sep 7.

1Department of Computational Biology, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwanoha 5-1-5, Kashiwa, Chiba 277-8561, Japan.

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http://dx.doi.org/10.1093/dnares/dst037DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3925391PMC
February 2014

Methyloceanibacter caenitepidi gen. nov., sp. nov., a facultatively methylotrophic bacterium isolated from marine sediments near a hydrothermal vent.

Int J Syst Evol Microbiol 2014 Feb 4;64(Pt 2):462-8. Epub 2013 Oct 4.

Institute for Geo-resources and Environments, National Institute of Advanced Industrial Science and Technology (AIST), 1-1-1 Higashi, Tsukuba, Ibaraki 305-8567, Japan.

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http://ijs.microbiologyresearch.org/content/journal/ijsem/10
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http://dx.doi.org/10.1099/ijs.0.053397-0DOI Listing
February 2014

Draft Genome Sequence of Bacteroides reticulotermitis Strain JCM 10512T, Isolated from the Gut of a Termite.

Genome Announc 2014 Feb 13;2(1). Epub 2014 Feb 13.

Biomass Research Platform Team, RIKEN Biomass Engineering Program Cooperation Division, RIKEN Center for Sustainable Resource Science, Tsukuba, Ibaragi, Japan.

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http://genomea.asm.org/cgi/doi/10.1128/genomeA.00072-14
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http://dx.doi.org/10.1128/genomeA.00072-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3924377PMC
February 2014

Draft Genome Sequence of Clostridium straminisolvens Strain JCM 21531T, Isolated from a Cellulose-Degrading Bacterial Community.

Genome Announc 2014 Feb 20;2(1). Epub 2014 Feb 20.

Biomass Research Platform Team, RIKEN Biomass Engeneering Program Cooperation Division, RIKEN Center for Sustainable Resource Science, Tsukuba, Ibaragi, Japan.

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http://dx.doi.org/10.1128/genomeA.00110-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3931369PMC
February 2014

Draft Genome Sequences of Three Strains of Bacteroides pyogenes Isolated from a Cat and Swine.

Genome Announc 2014 Jan 30;2(1). Epub 2014 Jan 30.

Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki, Japan.

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http://dx.doi.org/10.1128/genomeA.01242-13DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3907732PMC
January 2014

Emergence of Staphylococcus aureus carrying multiple drug resistance genes on a plasmid encoding exfoliative toxin B.

Antimicrob Agents Chemother 2013 Dec 30;57(12):6131-40. Epub 2013 Sep 30.

Department of Bacteriology, Hiroshima University Graduate School of Biomedical & Health Sciences, Hiroshima City, Hiroshima, Japan.

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http://dx.doi.org/10.1128/AAC.01062-13DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3837849PMC
December 2013

Qualitative rather than quantitative changes are hallmarks of fibroblasts in bleomycin-induced pulmonary fibrosis.

Am J Pathol 2013 Sep 22;183(3):758-73. Epub 2013 Jul 22.

Department of Molecular Preventive Medicine, Graduate School of Medicine, University of Tokyo, Tokyo, Japan.

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http://dx.doi.org/10.1016/j.ajpath.2013.06.005DOI Listing
September 2013

Complete Genome Sequence of the Equol-Producing Bacterium Adlercreutzia equolifaciens DSM 19450T.

Genome Announc 2013 Sep 19;1(5). Epub 2013 Sep 19.

Medical Institute of Bioregulation, Kyushu University, Higashi-ku, Fukuoka, Japan.

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http://dx.doi.org/10.1128/genomeA.00742-13DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3778203PMC
September 2013

Defensive bacteriome symbiont with a drastically reduced genome.

Curr Biol 2013 Aug 11;23(15):1478-84. Epub 2013 Jul 11.

Electronics-Inspired Interdisciplinary Research Institute (EIIRIS), Toyohashi University of Technology, Toyohashi 441-8580, Japan.

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http://dx.doi.org/10.1016/j.cub.2013.06.027DOI Listing
August 2013