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List of works by Hideaki Nojiri

A CysB-regulated and sigma54-dependent regulator, SfnR, is essential for dimethyl sulfone metabolism of Pseudomonas putida strain DS1.

scientific article published in April 2003

A series of crystal structures of a meta-cleavage product hydrolase from Pseudomonas fluorescens IP01 (CumD) complexed with various cleavage products

scientific article published in March 2005

Alteration of the substrate specificity of the angular dioxygenase carbazole 1,9a-dioxygenase

scientific article

Alterations of RNA maps of IncP-7 plasmid pCAR1 in various Pseudomonas bacteria

scientific article published on 25 June 2011

Analysis of cumene (isopropylbenzene) degradation genes from Pseudomonas fluorescens IP01

scientific article

Bacterial degradation of aromatic compounds via angular dioxygenation

scientific article published in December 2001

Behavior of the IncP-7 carbazole-degradative plasmid pCAR1 in artificial environmental samples

scientific article published in July 2008

Behavior of various hosts of the IncP-7 carbazole-degradative plasmid pCAR1 in artificial microcosms

scientific article published on 7 February 2010

Bioremediation, a broad perspective

scientific article published on March 2009

Carbazole angular dioxygenation and mineralization by bacteria isolated from hydrocarbon-contaminated tropical African soil.

scientific article

Carbazole-degradative IncP-7 plasmid pCAR1.2 is structurally unstable in Pseudomonas fluorescens Pf0-1, which accumulates catechol, the intermediate of the carbazole degradation pathway

scientific article published on 17 April 2009

Carbazole/dioxin-degrading car gene cluster is located on the chromosome of Pseudomonas stutzeri strain OM1 in a form different from the simple transposition of Tn4676.

scientific article published in August 2003

Characterization and identification of genes essential for dimethyl sulfide utilization in Pseudomonas putida strain DS1.

scientific article published on 20 February 2003

Characterization of [3Fe-4S] ferredoxin DbfA3, which functions in the angular dioxygenase system of Terrabacter sp. strain DBF63.

scientific article

Characterization of an elicitor-induced rice WRKY gene, OsWRKY71

scientific article published on 07 January 2008

Characterization of novel carbazole catabolism genes from gram-positive carbazole degrader Nocardioides aromaticivorans IC177.

scientific article published on May 2006

Characterization of the replication, maintenance, and transfer features of the IncP-7 plasmid pCAR1, which carries genes involved in carbazole and dioxin degradation.

scientific article

Characterization of the upper pathway genes for fluorene metabolism in Terrabacter sp. strain DBF63.

scientific article

Cloning and characterization of a jasmonic acid-responsive gene encoding 12-oxophytodienoic acid reductase in suspension-cultured rice cells.

scientific article

Cloning and characterization of cDNAs for the jasmonic acid-responsive Genes RRJ1 and RRJ2 in suspension-cultured rice cells

scientific article published in May 2002

Cloning and characterization of genes encoding an enzyme which oxidizes dimethyl sulfide in Acinetobacter sp. strain 20B.

scientific article published in October 1997

Cloning of genes involved in carbazole degradation of Pseudomonas sp. strain CA10: nucleotide sequences of genes and characterization of meta-cleavage enzymes and hydrolase

scientific article

Comparisons of the transferability of plasmids pCAR1, pB10, R388, and NAH7 among Pseudomonas putida at different cell densities

scientific article published on 25 January 2016

Complete Genome Sequence of Bacillus licheniformis TAB7, a Compost-Deodorizing Strain with Potential for Plant Growth Promotion

article

Complete Genome Sequence of Thalassococcus sp. Strain S3, a Marine Roseobacter Clade Member Capable of Degrading Carbazole

scientific article published on 11 July 2019

Complete Genome Sequence of a Dimethyl Sulfide-Utilizing Bacterium, Acinetobacter guillouiae Strain 20B (NBRC 110550).

scientific article

Complete Genome Sequence of an Anaerobic Benzene-Degrading Bacterium, sp. Strain DN11

scientific article published on 14 March 2019

Complete Genome Sequence of the Marine Carbazole-Degrading Bacterium Erythrobacter sp. Strain KY5

scientific article published on 30 August 2018

Complete nucleotide sequence of carbazole/dioxin-degrading plasmid pCAR1 in Pseudomonas resinovorans strain CA10 indicates its mosaicity and the presence of large catabolic transposon Tn4676.

scientific article published on February 2003

Conjugative Selectivity of Plasmids Is Affected by Coexisting Recipient Candidates

scientific article published on 19 December 2018

Conjugative transfer of the IncP-7 carbazole degradative plasmid, pCAR1, in river water samples

scientific article published on 12 September 2007

Crystal structure of a histidine-tagged serine hydrolase involved in the carbazole degradation (CarC enzyme)

scientific article (publication date: 4 April 2003)

Crystal structure of the ferredoxin component of carbazole 1,9a-dioxygenase of Pseudomonas resinovorans strain CA10, a novel Rieske non-heme iron oxygenase system

scientific article published in March 2005

Crystal structures of a meta-cleavage product hydrolase from Pseudomonas fluorescens IP01 (CumD) complexed with cleavage products

scientific article

Crystallization and preliminary X-ray diffraction studies of a ferredoxin reductase component of carbazole 1,9a-dioxygenase from Novosphingobium sp. KA1.

scientific article

Crystallization and preliminary X-ray diffraction studies of the reduced form of the terminal oxygenase component of the Rieske nonhaem iron oxygenase system carbazole 1,9a-dioxygenase.

scientific article published on 30 October 2013

Crystallization and preliminary X-ray diffraction studies of the terminal oxygenase component of carbazole 1,9a-dioxygenase from Nocardioides aromaticivorans IC177

scientific article

Crystallization and preliminary crystallographic analysis of the 2'-aminobiphenyl-2,3-diol 1,2-dioxygenase from the carbazole-degrader Pseudomonas resinovorans strain CA10.

scientific article published on 26 November 2004

Crystallization and preliminary crystallographic analysis of the ferredoxin component of carbazole 1,9a-dioxygenase from Nocardioides aromaticivorans IC177

scientific article published on 19 September 2007

Crystallization and preliminary crystallographic analysis of the terminal oxygenase component of carbazole 1,9a-dioxygenase of Pseudomonas resinovorans strain CA10.

scientific article

DNA rearrangement has occurred in the carbazole-degradative plasmid pCAR1 and the chromosome of its unsuitable host, Pseudomonas fluorescens Pf0-1.

scientific article

Degradation characteristics of a dibenzofuran-degrader Terrabacter sp. strain DBF63 toward chlorinated dioxins in soil

scientific article published in July 2002

Degradation of chlorinated dibenzofurans and dibenzo-p-dioxins by two types of bacteria having angular dioxygenases with different features.

scientific article

Differentiation of carbazole catabolic operons by replacement of the regulated promoter via transposition of an insertion sequence

scientific article published on 2 February 2006

Dioxin catabolic genes are dispersed on the Terrabacter sp. DBF63 genome

scientific article published in August 2002

Divergence of mobile genetic elements involved in the distribution of xenobiotic-catabolic capacity.

scientific article published on 20 December 2003

Divergent structures of carbazole degradative car operons isolated from gram-negative bacteria

scientific article

Diverse oxygenations catalyzed by carbazole 1,9a-dioxygenase from Pseudomonas sp. Strain CA10.

scientific article

Diversity of carbazole-degrading bacteria having the car gene cluster: isolation of a novel gram-positive carbazole-degrading bacterium

scientific article published in April 2005

Effects of carbazole-degradative plasmid pCAR1 on biofilm morphology in Pseudomonas putida KT2440.

scientific article published on 7 January 2016

Effects of three different nucleoid-associated proteins encoded on IncP-7 plasmid pCAR1 on host Pseudomonas putida KT2440.

scientific article

Electron transfer complex formation between oxygenase and ferredoxin components in Rieske nonheme iron oxygenase system

scientific article

Elicitor induced activation of the methylerythritol phosphate pathway toward phytoalexins biosynthesis in rice.

scientific article published on 17 July 2007

Enhanced degradation of carbazole and 2,3-dichlorodibenzo-p-dioxin in soils by Pseudomonas resinovorans strain CA10.

scientific article published in November 2002

Evidence for the presence of DNA-binding proteins involved in regulation of the gene expression of indole-3-pyruvic acid decarboxylase, a key enzyme in indole-3-acetic acid biosynthesis in Azospirillum lipoferum FS.

scientific article published in May 2001

Evolutionary mechanisms of microbial genomes

scientific article published on 31 May 2011

Evolutionary mechanisms of microbial genomes 2012.

scientific article published on 22 August 2012

Expression, purification, and characterization of 2'-aminobiphenyl-2,3-diol 1,2-dioxygenase from carbazole-degrader Pseudomonas resinovorans strain CA10.

scientific article published in February 2003

Functional identification of a rice ent-kaurene oxidase, OsKO2, using the Pichia pastoris expression system

scientific article published on 7 December 2008

Genes involved in aniline degradation by Delftia acidovorans strain 7N and its distribution in the natural environment

scientific article published in December 2004

Genes involved in the synthesis of the exopolysaccharide methanolan by the obligate methylotroph Methylobacillus sp strain 12S.

scientific article published on February 2003

Genetic characterization and evolutionary implications of a car gene cluster in the carbazole degrader Pseudomonas sp. strain CA10.

scientific article

Genetic characterization of the dibenzofuran-degrading Actinobacteria carrying the dbfA1A2 gene homologues isolated from activated sludge

scientific article published on October 2004

Genetic evidence for the role of isopentenyl diphosphate isomerases in the mevalonate pathway and plant development in Arabidopsis

scientific article

Growth phase-dependent expression profiles of three vital H-NS family proteins encoded on the chromosome of Pseudomonas putida KT2440 and on the pCAR1 plasmid

scientific article published on 29 August 2017

High-resolution mapping of plasmid transcriptomes in different host bacteria

scientific article

Identification and characterization of genes encoding carbazole 1,9a-dioxygenase in Pseudomonas sp. strain CA10.

scientific article

Identification of a biosynthetic gene cluster in rice for momilactones.

scientific article

Identification of the OsOPR7 gene encoding 12-oxophytodienoate reductase involved in the biosynthesis of jasmonic acid in rice

scientific article

Identification of the electron transfer flavoprotein as an upregulated enzyme in the benzoate utilization of Desulfotignum balticum

scientific article published on 7 July 2009

Identification of three novel salicylate 1-hydroxylases involved in the phenanthrene degradation of Sphingobium sp. strain P2.

scientific article

Inhibition of Pseudomonas aeruginosa swarming motility by 1-naphthol and other bicyclic compounds bearing hydroxyl groups.

scientific article published on 13 February 2015

Involvement of Jasmonic Acid in Elicitor-Induced Phytoalexin Production in Suspension-Cultured Rice Cells

scientific article published on 01 February 1996

Involvement of the basic helix-loop-helix transcription factor RERJ1 in wounding and drought stress responses in rice plants

scientific article published on May 2005

Involvement of the elicitor-induced gene OsWRKY53 in the expression of defense-related genes in rice

scientific article published on 22 April 2007

Isolation and characterization of an alkaliphilic bacterium utilizing pyrene as a carbon source

scientific article published in January 2004

Isolation and characterization of genes encoding polycyclic aromatic hydrocarbon dioxygenase from acenaphthene and acenaphthylene degrading Sphingomonas sp. strain A4.

scientific article published in September 2004

Isolation and characterization of low-indole-3-acetic acid-producing mutants from Bradyrhizobium elkanii

scientific article published on 01 July 2000

Isolation and characterization of monochloroacetic acid-degrading bacteria

scientific article published in January 2011

Isolation and characterization of the genes encoding a novel oxygenase component of angular dioxygenase from the gram-positive dibenzofuran-degrader Terrabacter sp. strain DBF63.

scientific article

Large plasmid pCAR2 and class II transposon Tn4676 are functional mobile genetic elements to distribute the carbazole/dioxin-degradative car gene cluster in different bacteria

scientific article published on 17 November 2004

Light Response of Pseudomonas putida KT2440 Mediated by Class II LitR, a Photosensor Homolog

scientific article published on 23 September 2020

Marinobacterium sp. strain DMS-S1 uses dimethyl sulphide as a sulphur source after light-dependent transformation by excreted flavins

scientific article published in June 2003

Membrane topology and functional analysis of Methylobacillus sp. 12S genes epsF and epsG, encoding polysaccharide chain-length determining proteins

scientific article published on 01 January 2012

Modulation of primary cell function of host Pseudomonas bacteria by the conjugative plasmid pCAR1.

scientific article published on 24 June 2014

Molecular bases of aerobic bacterial degradation of dioxins: involvement of angular dioxygenation.

scientific article

Molecular cloning and characterization of a cDNA encoding ent-cassa-12,15-diene synthase, a putative diterpenoid phytoalexin biosynthetic enzyme, from suspension-cultured rice cells treated with a chitin elicitor

scientific article

Molecular detection and diversity of polycyclic aromatic hydrocarbon-degrading bacteria isolated from geographically diverse sites

scientific article

New classification system for oxygenase components involved in ring-hydroxylating oxygenations

scientific article

Nucleoid-associated proteins encoded on plasmids: Occurrence and mode of function

scientific article published on 04 May 2015

Oligomerization mechanisms of an H-NS family protein, Pmr, encoded on the plasmid pCAR1 provide a molecular basis for functions of H-NS family members

scientific article

Organization and transcriptional characterization of catechol degradation genes involved in carbazole degradation by Pseudomonas resinovorans strain CA10.

scientific article

Overexpression of the bZIP transcription factor OsbZIP79 suppresses the production of diterpenoid phytoalexin in rice cells.

scientific article

Oxidation of chlorinated olefins by Escherichia coli transformed with dimethyl sulfide monooxygenase genes or cumene dioxygenase genes.

scientific article published in April 1999

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

scientific article published on 28 August 2012

Phthalate catabolic gene cluster is linked to the angular dioxygenase gene in Terrabacter sp. strain DBF63.

scientific article published on 19 December 2002

Plasmid pCAR3 contains multiple gene sets involved in the conversion of carbazole to anthranilate

scientific article published on May 2006

Pmr, a histone-like protein H1 (H-NS) family protein encoded by the IncP-7 plasmid pCAR1, is a key global regulator that alters host function

scientific article

Polypeptide Requirement of Multicomponent Monooxygenase DsoABCDEF for Dimethyl Sulfide Oxidizing Activity

scientific article

Preliminary examinations for applying a carbazole-degrader, Pseudomonas sp. strain CA10, to dioxin-contaminated soil remediation.

scientific article

Preparation and biological activity of molecular probes to identify and analyze jasmonic acid-binding proteins.

scientific article

Promoter analysis of the elicitor-induced WRKY gene OsWRKY53, which is involved in defense responses in rice

scientific article published on 07 August 2009

Promoter analysis of the rice stemar-13-ene synthase gene OsDTC2, which is involved in the biosynthesis of the phytoalexin oryzalexin S.

scientific article published on 19 September 2007

Proteome and acylome analyses of the functional interaction network between the carbazole-degradative plasmid pCAR1 and host Pseudomonas putida KT2440.

scientific article published on 24 March 2018

Purification and characterization of carbazole 1,9a-dioxygenase, a three-component dioxygenase system of Pseudomonas resinovorans strain CA10

scientific article

Purification and characterization of meta-cleavage compound hydrolase from a carbazole degrader Pseudomonas resinovorans strain CA10.

scientific article

Purification and identification of naringenin 7-O-methyltransferase, a key enzyme in biosynthesis of flavonoid phytoalexin sakuranetin in rice.

scientific article

Purification and partial characterization of the extradiol dioxygenase, 2'-carboxy-2,3-dihydroxybiphenyl 1,2-dioxygenase, in the fluorene degradation pathway from Rhodococcus sp. strain DFA3.

scientific article published on 21 January 2016

Purification, characterization, and steady-state kinetics of a meta-cleavage compound hydrolase from Pseudomonas fluorescens IPO1.

scientific article published in January 2002

Quantification of the carbazole 1,9a-dioxygenase gene by real-time competitive PCR combined with co-extraction of internal standards.

scientific article published on August 2001

RERJ1, a jasmonic acid-responsive gene from rice, encodes a basic helix-loop-helix protein

scientific article

Recent developments in molecular techniques for identification and monitoring of xenobiotic-degrading bacteria and their catabolic genes in bioremediation.

scientific article

Recipient range of IncP-7 conjugative plasmid pCAR2 from Pseudomonas putida HS01 is broader than from other Pseudomonas strains.

scientific article published in December 2005

Response of the Pseudomonas host chromosomal transcriptome to carriage of the IncP-7 plasmid pCAR1.

scientific article published on 23 November 2009

Rhizoremediation of dioxin-like compounds by a recombinant Rhizobium tropici strain expressing carbazole 1,9a-dioxygenase constitutively

scientific article published in May 2003

Saccharide production from methanol by transposon 5 mutants derived from the extracellular polysaccharide-producing bacterium Methylobacillus sp. strain 12S

scientific article published on 01 September 2000

Secretion of bacterial xenobiotic-degrading enzymes from transgenic plants by an apoplastic expressional system: an applicability for phytoremediation

scientific article

Single-cell analyses revealed transfer ranges of IncP-1, IncP-7, and IncP-9 plasmids in a soil bacterial community.

scientific article published on 18 October 2013

Specific Interactions between the ferredoxin and terminal oxygenase components of a class IIB Rieske nonheme iron oxygenase, carbazole 1,9a-dioxygenase

scientific article

Sphingomonas sp. strain KA1, carrying a carbazole dioxygenase gene homologue, degrades chlorinated dibenzo-p-dioxins in soil

scientific article published in May 2002

Stemar-13-ene synthase, a diterpene cyclase involved in the biosynthesis of the phytoalexin oryzalexin S in rice

scientific article

Structural Basis of the Divergent Oxygenation Reactions Catalyzed by the Rieske Nonheme Iron Oxygenase Carbazole 1,9a-Dioxygenase

scientific article

Structural and molecular genetic analyses of the bacterial carbazole degradation system.

scientific article published on 07 January 2012

Structural insight into the substrate- and dioxygen-binding manner in the catalytic cycle of rieske nonheme iron oxygenase system, carbazole 1,9a-dioxygenase

scientific article

Structural similarities and differences in H-NS family proteins revealed by the N-terminal structure of TurB in Pseudomonas putida KT2440

scientific article

Structure of the terminal oxygenase component of angular dioxygenase, carbazole 1,9a-dioxygenase

scientific article published in August 2005

Subtractive hybridization and random arbitrarily primed PCR analyses of a benzoate-assimilating bacterium, Desulfotignum balticum

scientific article

The AtPPT1 gene encoding 4-hydroxybenzoate polyprenyl diphosphate transferase in ubiquinone biosynthesis is required for embryo development in Arabidopsis thaliana

scientific article published in July 2004

The Sphingomonas plasmid pCAR3 is involved in complete mineralization of carbazole

scientific article published on 15 December 2006

The behavior and significance of degradative plasmids belonging to Inc groups in Pseudomonas within natural environments and microcosms.

scientific article published on January 2010

The complete nucleotide sequence of pCAR2: pCAR2 and pCAR1 were structurally identical IncP-7 carbazole degradative plasmids

scientific article published on 7 March 2009

The fluorene catabolic linear plasmid in Terrabacter sp. strain DBF63 carries the beta-ketoadipate pathway genes, pcaRHGBDCFIJ, also found in proteobacteria

scientific article published in November 2005

The potential bioproduction of the pharmaceutical agent sakuranetin, a flavonoid phytoalexin in rice.

scientific article

The ptsP gene encoding the PTS family protein EI(Ntr) is essential for dimethyl sulfone utilization by Pseudomonas putida

scientific article published on 15 August 2007

The sigma54-dependent transcriptional activator SfnR regulates the expression of the Pseudomonas putida sfnFG operon responsible for dimethyl sulphone utilization

scientific article published in February 2005

Thermophilic bacteria are potential sources of novel Rieske non-heme iron oxygenases

scientific article published on 04 January 2017

Transcription factors CysB and SfnR constitute the hierarchical regulatory system for the sulfate starvation response in Pseudomonas putida.

scientific article published on 2 May 2008

Transcriptional mechanisms for differential expression of outer membrane cytochrome genes omcA and mtrC in Shewanella oneidensis MR-1.

scientific article published on 21 March 2015

Transcriptional regulation of the ant operon, encoding two-component anthranilate 1,2-dioxygenase, on the carbazole-degradative plasmid pCAR1 of Pseudomonas resinovorans strain CA10.

scientific article published on October 2004

Transcriptional regulation of the sulfate-starvation-induced gene sfnA by a sigma54-dependent activator of Pseudomonas putida.

scientific article published in September 2007

Transcriptome analysis of Pseudomonas putida KT2440 harboring the completely sequenced IncP-7 plasmid pCAR1

scientific article published on 03 August 2007

[Diversity of component interactions in the bacterial Rieske non-haem iron oxygenase systems]

scientific article published on 01 October 2005

[Functional evolution of bacteria in degradation of environmental pollutants]

scientific article published on 01 October 2005

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