Yuji Nagata

Yuji Nagata

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Yuji Nagata

Yuji Nagata

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Lessons from the genomes of lindane-degrading sphingomonads.

Environ Microbiol Rep 2019 Oct 21;11(5):630-644. Epub 2019 May 21.

Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai, 980-8577, Japan.

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http://dx.doi.org/10.1111/1758-2229.12762DOI Listing
October 2019

Conjugative Transfer of IncP-9 Catabolic Plasmids Requires a Previously Uncharacterized Gene, , Whose Homologs Are Conserved in Various MPF-Type Plasmids.

Appl Environ Microbiol 2019 Oct 11. Epub 2019 Oct 11.

Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan

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http://dx.doi.org/10.1128/AEM.01850-19DOI Listing
October 2019

Suppression of substrate inhibition in phenanthrene-degrading Mycobacterium by co-cultivation with a non-degrading Burkholderia strain.

Microbiology 2019 Jun 17;165(6):625-637. Epub 2019 Apr 17.

1 Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://dx.doi.org/10.1099/mic.0.000801DOI Listing
June 2019

Optimization of single strand DNA incorporation reaction by Moloney murine leukaemia virus reverse transcriptase.

DNA Res 2018 Oct;25(5):477-487

Department of Molecular and Chemical Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai, Japan.

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http://dx.doi.org/10.1093/dnares/dsy018DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6191310PMC
October 2018

Establishment of plasmid vector and allelic exchange mutagenesis systems in a mycobacterial strain that is able to degrade polycyclic aromatic hydrocarbon.

Biosci Biotechnol Biochem 2018 Jul 9;82(7):1169-1171. Epub 2018 Mar 9.

a Graduate School of Life Sciences , Tohoku University , Sendai , Japan.

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http://dx.doi.org/10.1080/09168451.2018.1445522DOI Listing
July 2018

Compounds that enhance the tailing activity of Moloney murine leukemia virus reverse transcriptase.

Sci Rep 2017 07 26;7(1):6520. Epub 2017 Jul 26.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai, 980-8577, Japan.

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http://dx.doi.org/10.1038/s41598-017-04765-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5529421PMC
July 2017

Efficient N-tailing of blunt DNA ends by Moloney murine leukemia virus reverse transcriptase.

Sci Rep 2017 02 2;7:41769. Epub 2017 Feb 2.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://www.nature.com/articles/srep41769
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http://dx.doi.org/10.1038/srep41769DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5288710PMC
February 2017

Host Range of the Conjugative Transfer System of IncP-9 Naphthalene-Catabolic Plasmid NAH7 and Characterization of Its oriT Region and Relaxase.

Appl Environ Microbiol 2017 01 15;83(1). Epub 2016 Dec 15.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai, Japan

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http://aem.asm.org/lookup/doi/10.1128/AEM.02359-16
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http://dx.doi.org/10.1128/AEM.02359-16DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5165122PMC
January 2017

Biodegradation of γ-hexachlorocyclohexane by transgenic hairy root cultures of Cucurbita moschata that accumulate recombinant bacterial LinA.

Plant Cell Rep 2016 Sep 13;35(9):1963-74. Epub 2016 Jun 13.

Genetically Modified Organism Research Center, National Institute of Agrobiological Sciences, 2-1-2 Kannondai, Tsukuba, Ibaraki, 305-8602, Japan.

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http://dx.doi.org/10.1007/s00299-016-2011-1DOI Listing
September 2016

Complete genome sequence of Burkholderia caribensis Bcrs1W (NBRC110739), a strain co-residing with phenanthrene degrader Mycobacterium sp. EPa45.

J Biotechnol 2016 Jun 26;228:67-68. Epub 2016 Apr 26.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai, Japan.

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http://dx.doi.org/10.1016/j.jbiotec.2016.04.042DOI Listing
June 2016

Properties and biotechnological applications of natural and engineered haloalkane dehalogenases.

Appl Microbiol Biotechnol 2015 Dec 16;99(23):9865-81. Epub 2015 Sep 16.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai, 980-8577, Japan.

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http://link.springer.com/content/pdf/10.1007%2Fs00253-015-69
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http://link.springer.com/10.1007/s00253-015-6954-x
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http://dx.doi.org/10.1007/s00253-015-6954-xDOI Listing
December 2015

Bacterial clade with the ribosomal RNA operon on a small plasmid rather than the chromosome.

Proc Natl Acad Sci U S A 2015 Nov 3;112(46):14343-7. Epub 2015 Nov 3.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Katahira, Aoba-ku, Sendai 980-8577, Japan

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http://dx.doi.org/10.1073/pnas.1514326112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4655564PMC
November 2015

Complete Genome Sequence of a Phenanthrene Degrader, Burkholderia sp. HB-1 (NBRC 110738).

Genome Announc 2015 Nov 5;3(6). Epub 2015 Nov 5.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai, Japan.

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http://genomea.asm.org/lookup/doi/10.1128/genomeA.01283-15
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http://dx.doi.org/10.1128/genomeA.01283-15DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4645203PMC
November 2015

Isolation of oxygenase genes for indigo-forming activity from an artificially polluted soil metagenome by functional screening using Pseudomonas putida strains as hosts.

Appl Microbiol Biotechnol 2015 May 10;99(10):4453-70. Epub 2015 Jan 10.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai, 980-8577, Japan.

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http://dx.doi.org/10.1007/s00253-014-6322-2DOI Listing
May 2015

Design and experimental application of a novel non-degenerate universal primer set that amplifies prokaryotic 16S rRNA genes with a low possibility to amplify eukaryotic rRNA genes.

DNA Res 2014 25;21(2):217-27. Epub 2013 Nov 25.

1Department of Biological Information, Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 B-36, Nagatsuta-cho, Midori-ku, Yokohama 226-8501, Japan.

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https://academic.oup.com/dnaresearch/article-lookup/doi/10.1
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http://dx.doi.org/10.1093/dnares/dst052DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3989492PMC
April 2015

Structural and functional analysis of a novel haloalkane dehalogenase with two halide-binding sites.

Acta Crystallogr D Biol Crystallogr 2014 Jul 29;70(Pt 7):1884-97. Epub 2014 Jun 29.

Loschmidt Laboratories, Department of Experimental Biology and Research Centre for Toxic Compounds in the Environment RECETOX, Masaryk University, 625 00 Brno, Czech Republic.

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http://dx.doi.org/10.1107/S1399004714009018DOI Listing
July 2014

Identification of Burkholderia multivorans ATCC 17616 genetic determinants for fitness in soil by using signature-tagged mutagenesis.

Microbiology 2014 May 14;160(Pt 5):883-91. Epub 2014 Feb 14.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai 980-8577, Japan.

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http://dx.doi.org/10.1099/mic.0.077057-0DOI Listing
May 2014

Complete Genome Sequence of the Thermophilic Polychlorinated Biphenyl Degrader Geobacillus sp. Strain JF8 (NBRC 109937).

Genome Announc 2014 Jan 23;2(1). Epub 2014 Jan 23.

Department of Applied Chemistry and Biochemical Engineering, Graduate School of Engineering, Shizuoka University, Hamamatsu, Japan.

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http://dx.doi.org/10.1128/genomeA.01213-13DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3900906PMC
January 2014

Complete Genome Sequence of Pseudomonas sp. Strain TKP, Isolated from a γ-Hexachlorocyclohexane-Degrading Mixed Culture.

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

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai, Japan.

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http://dx.doi.org/10.1128/genomeA.01241-13DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3907731PMC
January 2014

Complete Genome Sequence of Ralstonia pickettii DTP0602, a 2,4,6-Trichlorophenol Degrader.

Genome Announc 2013 Oct 31;1(6). Epub 2013 Oct 31.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai, Japan.

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http://dx.doi.org/10.1128/genomeA.00903-13DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3814637PMC
October 2013

Inhibitory effect of Pseudomonas putida nitrogen-related phosphotransferase system on conjugative transfer of IncP-9 plasmid from Escherichia coli.

FEMS Microbiol Lett 2013 Aug 19;345(2):102-9. Epub 2013 Jun 19.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai, Japan.

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http://dx.doi.org/10.1111/1574-6968.12188DOI Listing
August 2013

The effect of a unique halide-stabilizing residue on the catalytic properties of haloalkane dehalogenase DatA from Agrobacterium tumefaciens C58.

FEBS J 2013 Jul 8;280(13):3149-59. Epub 2013 Apr 8.

Loschmidt Laboratories, Department of Experimental Biology and Research Centre for Toxic Compounds in the Environment, Faculty of Science, Masaryk University, Brno, Czech Republic.

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http://dx.doi.org/10.1111/febs.12238DOI Listing
July 2013

Crystal structure and site-directed mutagenesis analyses of haloalkane dehalogenase LinB from Sphingobium sp. strain MI1205.

J Bacteriol 2013 Jun 5;195(11):2642-51. Epub 2013 Apr 5.

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

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http://jb.asm.org/cgi/doi/10.1128/JB.02020-12
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http://dx.doi.org/10.1128/JB.02020-12DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3676048PMC
June 2013

Cointegrate-resolution of toluene-catabolic transposon Tn4651: determination of crossover site and the segment required for full resolution activity.

Plasmid 2013 Jan 1;69(1):24-35. Epub 2012 Aug 1.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://dx.doi.org/10.1016/j.plasmid.2012.07.004DOI Listing
January 2013

Complete genome sequence of Acidovorax sp. strain KKS102, a polychlorinated-biphenyl degrader.

J Bacteriol 2012 Dec;194(24):6970-1

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai, Japan.

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http://dx.doi.org/10.1128/JB.01848-12DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3510582PMC
December 2012

ParI, an orphan ParA family protein from Pseudomonas putida KT2440-specific genomic island, interferes with the partition system of IncP-7 plasmids.

Environ Microbiol 2012 Nov 28;14(11):2946-59. Epub 2012 Aug 28.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://dx.doi.org/10.1111/j.1462-2920.2012.02861.xDOI Listing
November 2012

Conjugal transfer of polychlorinated biphenyl/biphenyl degradation genes in Acidovorax sp. strain KKS102, which are located on an integrative and conjugative element.

J Bacteriol 2012 Aug 8;194(16):4237-48. Epub 2012 Jun 8.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Katahira, Sendai, Japan.

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http://dx.doi.org/10.1128/JB.00352-12DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3416211PMC
August 2012

Crystallization and preliminary X-ray analysis of the haloalkane dehalogenase DatA from Agrobacterium tumefaciens C58.

Acta Crystallogr Sect F Struct Biol Cryst Commun 2012 Jun 23;68(Pt 6):652-4. Epub 2012 May 23.

Department of Applied Biological Chemistry, Graduate School of Agricultural and Life Sciences, University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan.

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http://dx.doi.org/10.1107/S1744309112013942DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3370902PMC
June 2012

Pivotal role of anthranilate dioxygenase genes in the adaptation of Burkholderia multivorans ATCC 17616 in soil.

FEMS Microbiol Lett 2012 May 12;330(1):46-55. Epub 2012 Mar 12.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai, Japan.

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http://dx.doi.org/10.1111/j.1574-6968.2012.02532.xDOI Listing
May 2012

Suppression of pleiotropic phenotypes of a Burkholderia multivorans fur mutant by oxyR mutation.

Microbiology 2012 May 23;158(Pt 5):1284-93. Epub 2012 Feb 23.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai, Japan.

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http://dx.doi.org/10.1099/mic.0.057372-0DOI Listing
May 2012

The lin genes for γ-hexachlorocyclohexane degradation in Sphingomonas sp. MM-1 proved to be dispersed across multiple plasmids.

Biosci Biotechnol Biochem 2011 7;75(3):466-72. Epub 2011 Mar 7.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai, Japan.

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http://dx.doi.org/10.1271/bbb.100652DOI Listing
August 2011

Stereoselectivity and conformational stability of haloalkane dehalogenase DbjA from Bradyrhizobium japonicum USDA110: the effect of pH and temperature.

FEBS J 2011 Aug 27;278(15):2728-38. Epub 2011 Jun 27.

Loschmidt Laboratories, Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czech Republic.

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http://dx.doi.org/10.1111/j.1742-4658.2011.08203.xDOI Listing
August 2011

Biochemical characteristics of the novel haloalkane dehalogenase DatA, isolated from the plant pathogen Agrobacterium tumefaciens C58.

Appl Environ Microbiol 2011 Mar 30;77(5):1881-4. Epub 2010 Dec 30.

oschmidt Laboratories, Department of Experimental Biology and Research Centre for Toxic Compounds in the Environment, Faculty of Science, Masaryk University, Kamenice 5/A13, 625 00 Brno, Czech Republic.

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http://dx.doi.org/10.1128/AEM.02109-10DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3067286PMC
March 2011

Crystal structure of γ-hexachlorocyclohexane Dehydrochlorinase LinA from Sphingobium japonicum UT26.

J Mol Biol 2010 Oct 8;403(2):260-9. Epub 2010 Sep 8.

Department of Applied Biological Chemistry, Graduate School of Agricultural and Life Sciences, University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan.

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http://dx.doi.org/10.1016/j.jmb.2010.08.043DOI Listing
October 2010

Identification of Burkholderia multivorans ATCC 17616 genes induced in soil environment by in vivo expression technology.

Environ Microbiol 2010 Sep 19;12(9):2539-58. Epub 2010 Apr 19.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://dx.doi.org/10.1111/j.1462-2920.2010.02227.xDOI Listing
September 2010

Enantioselectivity of haloalkane dehalogenases and its modulation by surface loop engineering.

Angew Chem Int Ed Engl 2010 Aug;49(35):6111-5

Loschmidt Laboratories, Department of Experimental Biology and Centre for Toxic Compounds in the Environment, Faculty of Science, Masaryk University, Kamenice 5/A13, 625 00 Brno, Czech Republic.

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http://dx.doi.org/10.1002/anie.201001753DOI Listing
August 2010

Analysis of extracellular alginate lyase and its gene from a marine bacterial strain, Pseudoalteromonas atlantica AR06.

Appl Microbiol Biotechnol 2010 Mar 21;86(2):567-76. Epub 2009 Oct 21.

National Research Institute of Fisheries Science, Fisheries Research Agency, 2-12-4 Fukuura, Yokohama, 236-8648, Japan.

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http://dx.doi.org/10.1007/s00253-009-2278-zDOI Listing
March 2010

Redesigning dehalogenase access tunnels as a strategy for degrading an anthropogenic substrate.

Nat Chem Biol 2009 Oct 23;5(10):727-33. Epub 2009 Aug 23.

Loschmidt Laboratories, Institute of Experimental Biology and National Centre for Biomolecular Research, Faculty of Science, Masaryk University, Brno, Czech Republic.

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http://dx.doi.org/10.1038/nchembio.205DOI Listing
October 2009

Crystallization and preliminary X-ray analysis of gamma-hexachlorocyclohexane dehydrochlorinase LinA from Sphingobium japonicum UT26.

Acta Crystallogr Sect F Struct Biol Cryst Commun 2009 Aug 30;65(Pt 8):822-4. Epub 2009 Jul 30.

Department of Applied Biological Chemistry, Graduate School of Agricultural and Life Sciences, University of Tokyo, Bunkyo-ku, Tokyo 113-8657, Japan.

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http://dx.doi.org/10.1107/S1744309109026645DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2720343PMC
August 2009

Crystallization and preliminary X-ray analysis of a novel haloalkane dehalogenase DbeA from Bradyrhizobium elkani USDA94.

Acta Crystallogr Sect F Struct Biol Cryst Commun 2009 Apr 21;65(Pt 4):353-6. Epub 2009 Mar 21.

Institute of Physical Biology, University of South Bohemia, Nove Hrady, Czech Republic.

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http://dx.doi.org/10.1107/S1744309109007039DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2664758PMC
April 2009

Characterization of the traD operon of naphthalene-catabolic plasmid NAH7: a host-range modifier in conjugative transfer.

J Bacteriol 2008 Oct 1;190(19):6281-9. Epub 2008 Aug 1.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://dx.doi.org/10.1128/JB.00709-08DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2566000PMC
October 2008

GenomeMatcher: a graphical user interface for DNA sequence comparison.

BMC Bioinformatics 2008 Sep 16;9:376. Epub 2008 Sep 16.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai, Japan.

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http://dx.doi.org/10.1186/1471-2105-9-376DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2553346PMC
September 2008

Insertion sequence-based cassette PCR: cultivation-independent isolation of gamma-hexachlorocyclohexane-degrading genes from soil DNA.

Appl Microbiol Biotechnol 2008 Jun 19;79(4):627-32. Epub 2008 Apr 19.

Department of Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai, Japan.

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http://dx.doi.org/10.1007/s00253-008-1463-9DOI Listing
June 2008

Pleiotropic roles of iron-responsive transcriptional regulator Fur in Burkholderia multivorans.

Microbiology 2008 Jun;154(Pt 6):1763-74

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://mic.microbiologyresearch.org/content/journal/micro/10
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http://dx.doi.org/10.1099/mic.0.2007/015537-0DOI Listing
June 2008

Degradation of beta-hexachlorocyclohexane by haloalkane dehalogenase LinB from gamma-hexachlorocyclohexane-utilizing bacterium Sphingobium sp. MI1205.

Arch Microbiol 2007 Oct 22;188(4):313-25. Epub 2007 May 22.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://link.springer.com/10.1007/s00203-007-0251-8
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http://dx.doi.org/10.1007/s00203-007-0251-8DOI Listing
October 2007

Aerobic degradation of lindane (gamma-hexachlorocyclohexane) in bacteria and its biochemical and molecular basis.

Appl Microbiol Biotechnol 2007 Sep 19;76(4):741-52. Epub 2007 Jul 19.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai, 980-8577, Japan.

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http://link.springer.com/10.1007/s00253-007-1066-x
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http://dx.doi.org/10.1007/s00253-007-1066-xDOI Listing
September 2007

Identification and characterization of genes encoding a putative ABC-type transporter essential for utilization of gamma-hexachlorocyclohexane in Sphingobium japonicum UT26.

J Bacteriol 2007 May 16;189(10):3712-20. Epub 2007 Mar 16.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://dx.doi.org/10.1128/JB.01883-06DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1913331PMC
May 2007

Crystallization and preliminary crystallographic analysis of a haloalkane dehalogenase, DbjA, from Bradyrhizobium japonicum USDA110.

Acta Crystallogr Sect F Struct Biol Cryst Commun 2007 Apr 12;63(Pt 4):294-6. Epub 2007 Mar 12.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://scripts.iucr.org/cgi-bin/paper?S1744309107008652
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http://dx.doi.org/10.1107/S1744309107008652DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2330215PMC
April 2007

Weak activity of haloalkane dehalogenase LinB with 1,2,3-trichloropropane revealed by X-Ray crystallography and microcalorimetry.

Appl Environ Microbiol 2007 Mar 26;73(6):2005-8. Epub 2007 Jan 26.

Loschmidt Laboratories, Masaryk University, Kamenice 5/A4, 625 00 Brno, Czech Republic.

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http://dx.doi.org/10.1128/AEM.02416-06DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1828796PMC
March 2007

Isolation and characterization of naphthalene-catabolic genes and plasmids from oil-contaminated soil by using two cultivation-independent approaches.

Appl Microbiol Biotechnol 2007 Feb 10;74(2):501-10. Epub 2006 Nov 10.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://link.springer.com/10.1007/s00253-006-0671-4
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http://dx.doi.org/10.1007/s00253-006-0671-4DOI Listing
February 2007

Complete nucleotide sequence of an exogenously isolated plasmid, pLB1, involved in gamma-hexachlorocyclohexane degradation.

Appl Environ Microbiol 2006 Nov 8;72(11):6923-33. Epub 2006 Sep 8.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://aem.asm.org/cgi/doi/10.1128/AEM.01531-06
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http://dx.doi.org/10.1128/AEM.01531-06DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1636184PMC
November 2006

Identification of a response regulator gene for catabolite control from a PCB-degrading beta-proteobacteria, Acidovorax sp. KKS102.

Mol Microbiol 2006 Jun;60(6):1563-75

Department of Environmental Life Sciences, Graduate School of Life Sciences, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://dx.doi.org/10.1111/j.1365-2958.2006.05197.xDOI Listing
June 2006

Growth inhibition by metabolites of gamma-hexachlorocyclohexane in Sphingobium japonicum UT26.

Biosci Biotechnol Biochem 2006 Apr;70(4):1029-32

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai, Japan.

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April 2006

Expression of glycosylated haloalkane dehalogenase LinB in Pichia pastoris.

Protein Expr Purif 2006 Mar 22;46(1):85-91. Epub 2005 Sep 22.

Loschmidt Laboratories, Masaryk University, Kamenice 5/A4, 625 00 Brno, Czech Republic.

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http://dx.doi.org/10.1016/j.pep.2005.08.022DOI Listing
March 2006

Distribution of gamma-hexachlorocyclohexane-degrading genes on three replicons in Sphingobium japonicum UT26.

FEMS Microbiol Lett 2006 Mar;256(1):112-8

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai, Japan.

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http://dx.doi.org/10.1111/j.1574-6968.2005.00096.xDOI Listing
March 2006

Functional analysis of unique class II insertion sequence IS1071.

Appl Environ Microbiol 2006 Jan;72(1):291-7

Department of Biological Sciences, 222 Life Sciences North, University of Idaho, Moscow, ID 83844-3051, USA.

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http://dx.doi.org/10.1128/AEM.72.1.291-297.2006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1352228PMC
January 2006

[Metabolic pathway, genes, and enzymes for the degradation of chlorinated pesticide, gamma-hexachlorocyclohexane].

Tanpakushitsu Kakusan Koso 2005 Oct;50(12):1511-8

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October 2005

Organization and localization of the dnaA and dnaK gene regions on the multichromosomal genome of Burkholderia multivorans ATCC 17616.

J Biosci Bioeng 2005 Jun;99(6):603-10

Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://dx.doi.org/10.1263/jbb.99.603DOI Listing
June 2005

High-temperature-induced transposition of insertion elements in burkholderia multivorans ATCC 17616.

Appl Environ Microbiol 2005 Apr;71(4):1822-8

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://dx.doi.org/10.1128/AEM.71.4.1822-1828.2005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1082539PMC
April 2005

Degradation of beta-Hexachlorocyclohexane by Haloalkane Dehalogenase LinB from Sphingomonas paucimobilis UT26.

Appl Environ Microbiol 2005 Apr;71(4):2183-5

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://aem.asm.org/cgi/doi/10.1128/AEM.71.4.2183-2185.2005
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1082558PMC
April 2005

Quantitative analysis of substrate specificity of haloalkane dehalogenase LinB from Sphingomonas paucimobilis UT26.

Biochemistry 2005 Mar;44(9):3390-401

National Centre for Biomolecular Research, Masaryk University, Kotlarska 2, 611 37 Brno, Czech Republic.

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http://dx.doi.org/10.1021/bi047912oDOI Listing
March 2005

Identification and characterization of genes involved in the downstream degradation pathway of gamma-hexachlorocyclohexane in Sphingomonas paucimobilis UT26.

J Bacteriol 2005 Feb;187(3):847-53

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai, 980-8577, Japan.

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http://dx.doi.org/10.1128/JB.187.3.847-853.2005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC545726PMC
February 2005

Identification of insertion sequence from a gamma-hexachlorocyclohexane degrading bacterium, Sphingomonas paucimobilis UT26.

Biosci Biotechnol Biochem 2005 Jan;69(1):216-9

Department of Bioengineering, Nagaoka University of Technology, Niigata, Japan.

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http://dx.doi.org/10.1271/bbb.69.216DOI Listing
January 2005

Strategies for bioremediation of polychlorinated biphenyls.

Appl Microbiol Biotechnol 2004 Aug 10;65(3):250-8. Epub 2004 Jul 10.

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai, 980-8577, Japan.

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http://dx.doi.org/10.1007/s00253-004-1654-yDOI Listing
August 2004

Crystal structure of haloalkane dehalogenase LinB from Sphingomonas paucimobilis UT26 at 0.95 A resolution: dynamics of catalytic residues.

Biochemistry 2004 Feb;43(4):870-8

Crystallography Centre, School of Biomedical and Chemical Sciences, University of Western Australia, 35 Stirling Highway, Crawley 6009, Western Australia, Australia.

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http://dx.doi.org/10.1021/bi034748gDOI Listing
February 2004

Modification of activity and specificity of haloalkane dehalogenase from Sphingomonas paucimobilis UT26 by engineering of its entrance tunnel.

J Biol Chem 2003 Dec 2;278(52):52622-8. Epub 2003 Oct 2.

National Centre for Biomolecular Research, Masaryk University, Kotlarska 2, 611 37 Brno, Czech Republic.

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http://dx.doi.org/10.1074/jbc.M306762200DOI Listing
December 2003

Catalytic mechanism of the maloalkane dehalogenase LinB from Sphingomonas paucimobilis UT26.

J Biol Chem 2003 Nov 1;278(46):45094-100. Epub 2003 Sep 1.

National Centre for Biomolecular Research, Masaryk University, Kotlarska 2, 611 37 Brno, Czech Republic.

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http://www.jbc.org/lookup/doi/10.1074/jbc.M307056200
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November 2003

Haloalkane dehalogenase LinB from Sphingomonas paucimobilis UT26: X-ray crystallographic studies of dehalogenation of brominated substrates.

Biochemistry 2003 Sep;42(34):10104-12

Crystallography Centre, School of Biomedical and Chemical Sciences, University of Western Australia, 35 Stirling Highway, Crawley 6009, Western Australia, Australia.

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http://dx.doi.org/10.1021/bi027280aDOI Listing
September 2003

Distribution and organization of auxotrophic genes on the multichromosomal genome of Burkholderia multivorans ATCC 17616.

J Bacteriol 2003 Jun;185(11):3333-43

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai 980-8577, Japan.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC155387PMC
http://dx.doi.org/10.1128/jb.185.11.3333-3343.2003DOI Listing
June 2003

Reconstruction of mycobacterial dehalogenase Rv2579 by cumulative mutagenesis of haloalkane dehalogenase LinB.

Appl Environ Microbiol 2003 Apr;69(4):2349-55

Department of Life Sciences, Graduate School of Life Sciences, Tohoku University, Sendai 980-8577, Japan.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC154798PMC
http://dx.doi.org/10.1128/aem.69.4.2349-2355.2003DOI Listing
April 2003

Halide-stabilizing residues of haloalkane dehalogenases studied by quantum mechanic calculations and site-directed mutagenesis.

Biochemistry 2002 Dec;41(48):14272-80

National Centre for Biomolecular Research, Masaryk University, Kotlarska 2, 611 37 Brno, Czech Republic.

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http://dx.doi.org/10.1021/bi026427vDOI Listing
December 2002

Site-specific recombination system encoded by toluene catabolic transposon Tn4651.

J Bacteriol 2002 Sep;184(17):4757-66

Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Sendai 980-8577, Japan.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC135285PMC
http://dx.doi.org/10.1128/jb.184.17.4757-4766.2002DOI Listing
September 2002

Exploring the structure and activity of haloalkane dehalogenase from Sphingomonas paucimobilis UT26: evidence for product- and water-mediated inhibition.

Biochemistry 2002 Apr;41(15):4847-55

Department of Pharmacology/Crystallography Centre, University of Western Australia, 35 Stirling Highway, Crawley, WA 6009, Australia.

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http://dx.doi.org/10.1021/bi015734iDOI Listing
April 2002