Eiji Masai

Summary

Affiliation: Nagaoka University of Technology
Country: Japan

Publications

  1. ncbi request reprint Genetic and biochemical investigations on bacterial catabolic pathways for lignin-derived aromatic compounds
    Eiji Masai
    Department of Bioengineering, Nagaoka University of Technology, Japan
    Biosci Biotechnol Biochem 71:1-15. 2007
  2. pmc Cloning and characterization of the ferulic acid catabolic genes of Sphingomonas paucimobilis SYK-6
    Eiji Masai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    Appl Environ Microbiol 68:4416-24. 2002
  3. pmc Complete genome sequence of Sphingobium sp. strain SYK-6, a degrader of lignin-derived biaryls and monoaryls
    Eiji Masai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata, Japan
    J Bacteriol 194:534-5. 2012
  4. pmc Roles of the enantioselective glutathione S-transferases in cleavage of beta-aryl ether
    Eiji Masai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    J Bacteriol 185:1768-75. 2003
  5. pmc A novel tetrahydrofolate-dependent O-demethylase gene is essential for growth of Sphingomonas paucimobilis SYK-6 with syringate
    Eiji Masai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    J Bacteriol 186:2757-65. 2004
  6. pmc Genetic and biochemical characterization of 4-carboxy-2-hydroxymuconate-6-semialdehyde dehydrogenase and its role in the protocatechuate 4,5-cleavage pathway in Sphingomonas paucimobilis SYK-6
    E Masai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    J Bacteriol 182:6651-8. 2000
  7. ncbi request reprint Characterization of ligV essential for catabolism of vanillin by Sphingomonas paucimobilis SYK-6
    Eiji Masai
    Department of Bioengineering, Nagaoka University of Technology, Japan
    Biosci Biotechnol Biochem 71:2487-92. 2007
  8. pmc Regulatory system of the protocatechuate 4,5-cleavage pathway genes essential for lignin downstream catabolism
    Naofumi Kamimura
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    J Bacteriol 192:3394-405. 2010
  9. pmc A second 5-carboxyvanillate decarboxylase gene, ligW2, is important for lignin-related biphenyl catabolism in Sphingomonas paucimobilis SYK-6
    Xue Peng
    Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    Appl Environ Microbiol 71:5014-21. 2005
  10. ncbi request reprint Enzymatic properties of terephthalate 1,2-dioxygenase of Comamonas sp. strain E6
    Yuki Fukuhara
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Ngata, Japan
    Biosci Biotechnol Biochem 72:2335-41. 2008

Collaborators

Detail Information

Publications62

  1. ncbi request reprint Genetic and biochemical investigations on bacterial catabolic pathways for lignin-derived aromatic compounds
    Eiji Masai
    Department of Bioengineering, Nagaoka University of Technology, Japan
    Biosci Biotechnol Biochem 71:1-15. 2007
    ..In this review, the enzyme systems for beta-aryl ether and biphenyl degradation, O demethylation linked with one carbon metabolism, the PCA 4,5-cleavage pathway, and the multiple 3MGA catabolic pathways in SYK-6 are outlined...
  2. pmc Cloning and characterization of the ferulic acid catabolic genes of Sphingomonas paucimobilis SYK-6
    Eiji Masai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    Appl Environ Microbiol 68:4416-24. 2002
    ..Insertional inactivation of each fer gene in S. paucimobilis SYK-6 suggested that the ferA gene is essential and that ferB and ferB2 genes are involved in ferulic acid degradation...
  3. pmc Complete genome sequence of Sphingobium sp. strain SYK-6, a degrader of lignin-derived biaryls and monoaryls
    Eiji Masai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata, Japan
    J Bacteriol 194:534-5. 2012
    ..Here we report the complete nucleotide sequence of the SYK-6 genome which consists of the 4,199,332-bp-long chromosome and the 148,801-bp-long plasmid...
  4. pmc Roles of the enantioselective glutathione S-transferases in cleavage of beta-aryl ether
    Eiji Masai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    J Bacteriol 185:1768-75. 2003
    ....
  5. pmc A novel tetrahydrofolate-dependent O-demethylase gene is essential for growth of Sphingomonas paucimobilis SYK-6 with syringate
    Eiji Masai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    J Bacteriol 186:2757-65. 2004
    ..64:836-842, 1998). Disruption of ligH resulted in the same phenotype as DC-49; its cell extract, however, was found to be able to convert vanillate and syringate in the presence of H(4)folate. The possible role of ligH is discussed...
  6. pmc Genetic and biochemical characterization of 4-carboxy-2-hydroxymuconate-6-semialdehyde dehydrogenase and its role in the protocatechuate 4,5-cleavage pathway in Sphingomonas paucimobilis SYK-6
    E Masai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    J Bacteriol 182:6651-8. 2000
    ..However, the introduction of ligC into DLC restored its ability to grow on vanillate. PDC was suggested to be an inducer for ligAB gene expression...
  7. ncbi request reprint Characterization of ligV essential for catabolism of vanillin by Sphingomonas paucimobilis SYK-6
    Eiji Masai
    Department of Bioengineering, Nagaoka University of Technology, Japan
    Biosci Biotechnol Biochem 71:2487-92. 2007
    ..On the other hand, growth on syringaldehyde was only slightly affected by ligV disruption, indicating the presence of a syringaldehyde dehydrogenase gene or genes in SYK-6...
  8. pmc Regulatory system of the protocatechuate 4,5-cleavage pathway genes essential for lignin downstream catabolism
    Naofumi Kamimura
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    J Bacteriol 192:3394-405. 2010
    ..This study shows the binding features of LigR on the ligK and ligJ promoters and explains how the PCA45 pathway genes are expressed during degradation of lignin-derived biaryls by this bacterium...
  9. pmc A second 5-carboxyvanillate decarboxylase gene, ligW2, is important for lignin-related biphenyl catabolism in Sphingomonas paucimobilis SYK-6
    Xue Peng
    Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    Appl Environ Microbiol 71:5014-21. 2005
    ..These results indicate that both ligW and ligW2 contribute to 5CVA degradation, although ligW2 plays the more important role in the growth of SYK-6 cells on DDVA...
  10. ncbi request reprint Enzymatic properties of terephthalate 1,2-dioxygenase of Comamonas sp. strain E6
    Yuki Fukuhara
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Ngata, Japan
    Biosci Biotechnol Biochem 72:2335-41. 2008
    ..TPADO showed activity only toward TPA, and Fe2+ was required for it. The Km values for TPA and the Vmax were determined to be 72+/-6 microM and 9.87+/-0.06 U/mg respectively...
  11. pmc Characterization of the isophthalate degradation genes of Comamonas sp. strain E6
    Yuki Fukuhara
    Department of Bioengineering, Nagaoka University of Technology, Kamitomioka, Nagaoka, Niigata 940 2188, Japan
    Appl Environ Microbiol 76:519-27. 2010
    ..Disruption of iphR resulted in faster growth of E6 on IPA, suggesting that iphR encodes a repressor for the iph catabolic operon. Promoter analysis of the operon supported this notion...
  12. pmc Characterization of the 5-carboxyvanillate decarboxylase gene and its role in lignin-related biphenyl catabolism in Sphingomonas paucimobilis SYK-6
    Xue Peng
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    Appl Environ Microbiol 68:4407-15. 2002
    ..Gene walking analysis indicated that the ligW gene was located on the 18-kb DNA region with other DDVA catabolic genes, including ligZ, ligY, and ligX...
  13. doi request reprint Development of a strain for efficient degradation of polychlorinated biphenyls by patchwork assembly of degradation pathways
    Tsuneo Ohmori
    Department of Bioengineering, Nagaoka University of Technology, Kamitomioka 1603 1, Niigata 940 2188, Japan
    J Biosci Bioeng 111:437-42. 2011
    ....
  14. doi request reprint Gene cluster and regulation system for 1,1-dichloro-2,2-bis(4-chlorophenyl)ethylene (DDE) degradation in Janibacter sp. TYM3221
    Phuong Anh Thi Nguyen
    Department of Bioengineering, Nagaoka University of Technology, Kamitomioka, Nagaoka, Niigata 940 2188, Japan
    J Biosci Bioeng 116:91-100. 2013
    ..Expression of bphAaAbAcAdBC in IAM1399 resulted in the transformation of DDE to the meta-ring cleavage product via 2,3-hydroxylation, suggesting that these genes are involved in DDE degradation...
  15. ncbi request reprint Characterization of the third glutathione S-transferase gene involved in enantioselective cleavage of the β-aryl ether by Sphingobium sp. strain SYK-6
    Kazuyuki Tanamura
    Department of Bioengineering, Nagaoka University of Technology, Niigata, Japan
    Biosci Biotechnol Biochem 75:2404-7. 2011
    ..LigP produced in Escherichia coli revealed enantioselectivity for (-)-(βR)-MPHPV, and ligE and ligP alone contributed to the degradation of (-)-(βR)-MPHPV in SYK-6...
  16. pmc Identification of three alcohol dehydrogenase genes involved in the stereospecific catabolism of arylglycerol-beta-aryl ether by Sphingobium sp. strain SYK-6
    Yusuke Sato
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    Appl Environ Microbiol 75:5195-201. 2009
    ..Disruption of the genes indicated that ligD is essential for the degradation of (alphaR,betaS)-GGE and (alphaR,betaR)-GGE and that both ligL and ligN contribute to the degradation of the two other GGE stereoisomers...
  17. pmc Characterization of the protocatechuate 4,5-cleavage pathway operon in Comamonas sp. strain E6 and discovery of a novel pathway gene
    Naofumi Kamimura
    Department of Bioengineering, Nagaoka University of Technology, Kamitomioka, Nagaoka, Niigata 940 2188, Japan
    Appl Environ Microbiol 76:8093-101. 2010
    ..The pmd promoter activity was enhanced 20-fold when the cells were grown in the presence of PCA. Inducers of the pmd operon were found to be PCA and PDC, but PDC was the more effective inducer...
  18. pmc Uncovering the protocatechuate 2,3-cleavage pathway genes
    Daisuke Kasai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata, Japan
    J Bacteriol 191:6758-68. 2009
    ..coli, suggesting that praEGF were functional for the conversion of HPD to pyruvate and acetyl coenzyme A. A promoter analysis suggested that praR encodes a repressor of the pra operon...
  19. doi request reprint Glucose-mediated transcriptional repression of PCB/biphenyl catabolic genes in Rhodococcus jostii RHA1
    Naoto Araki
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Japan
    J Mol Microbiol Biotechnol 20:53-62. 2011
    ..These results indicate that BPH utilization in RHA1 is under the control of carbon catabolite repression at the transcriptional level in addition to BphST-dependent transcriptional regulation...
  20. pmc Characterization of transcriptional regulatory genes for biphenyl degradation in Rhodococcus sp. strain RHA1
    Hisashi Takeda
    Department of Bioengineering, Nagaoka University of Technology, Kamitomioka, Nagaoka, Niigata, 940 2188, Japan
    J Bacteriol 186:2134-46. 2004
    ..Growth was restored by introduction of an intact bphS gene into SDR1. These results indicate that at least bphS is indispensably responsible for the growth of RHA1 on biphenyl...
  21. doi request reprint Characterization of the 1,1-dichloro-2,2-bis(4-chlorophenyl)ethylene (DDE) degradation system in Janibacter sp. TYM3221
    Anh Thi Phuong Nguyen
    Department of Bioengineering, Nagaoka University of Technology, Kamitomioka, Nagaoka, Niigata 940 2188, Japan
    Enzyme Microb Technol 49:532-9. 2011
    ..These results indicate that in strain TYM3221, the bphAa-coded biphenyl dioxygenase is involved not only in the metabolism of biphenyl but also in the degradation of DDE...
  22. pmc Characterization of the gallate dioxygenase gene: three distinct ring cleavage dioxygenases are involved in syringate degradation by Sphingomonas paucimobilis SYK-6
    Daisuke Kasai
    Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    J Bacteriol 187:5067-74. 2005
    ....
  23. pmc A tetrahydrofolate-dependent O-demethylase, LigM, is crucial for catabolism of vanillate and syringate in Sphingomonas paucimobilis SYK-6
    Tomokuni Abe
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    J Bacteriol 187:2030-7. 2005
    ..All of these results indicate that ligM encodes vanillate/3MGA O-demethylase and plays an important role in the O demethylation of vanillate and 3MGA, respectively...
  24. pmc Novel 2,4-dichlorophenoxyacetic acid degradation genes from oligotrophic Bradyrhizobium sp. strain HW13 isolated from a pristine environment
    Wataru Kitagawa
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    J Bacteriol 184:509-18. 2002
    ..Five 2,4-D degraders, including Bradyrhizobium and Sphingomonas strains, were found to have cadA gene homologs, suggesting that these 2,4-D degraders share 2,4-D degradation genes similar to those of strain HW13 cadABC...
  25. pmc Characterization of the 3-O-methylgallate dioxygenase gene and evidence of multiple 3-O-methylgallate catabolic pathways in Sphingomonas paucimobilis SYK-6
    Daisuke Kasai
    Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    J Bacteriol 186:4951-9. 2004
    ..All these results suggest that syringate is degraded through multiple 3MGA degradation pathways in which ligAB, desZ, 3MGA O-demethylase, and gallate dioxygenase are participants...
  26. ncbi request reprint Biphenyl-inducible promoters in a polychlorinated biphenyl-degrading bacterium, Rhodococcus sp. RHA1
    Hisashi Takeda
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Japan
    Biosci Biotechnol Biochem 68:1249-58. 2004
    ..These results suggest that this consensus plays a role in transcription induction and/or the promotion of biphenyl degradation genes in RHA1...
  27. pmc Characterization of the terephthalate degradation genes of Comamonas sp. strain E6
    Mikio Sasoh
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    Appl Environ Microbiol 72:1825-32. 2006
    ..On the basis of these results, TPADO was strongly suggested to be a two-component dioxygenase which consists of the terminal oxygenase component (TphA2 and TphA3) and the reductase (TphA1), and tphB codes for the DCD dehydrogenase...
  28. pmc Transcriptional regulation of the terephthalate catabolism operon in Comamonas sp. strain E6
    Daisuke Kasai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    Appl Environ Microbiol 76:6047-55. 2010
    ..These results clearly indicate that the conserved nucleotides are required for the inducible expression of the tph(II) catabolism operon regulated by TphR(II)...
  29. doi request reprint The 24-bp consensus sequence responsible for regulation of the BphS1T1 two-component system in a hybrid promoter
    Jun Shimodaira
    Department of Bioengineering, Nagaoka University of Technology, 1603 1 Kamitomioka, Nagaoka, Niigata 940 2188, Japan
    J Biosci Bioeng 113:279-85. 2012
    ..The outstanding conservation of the 24-bp consensus sequence was confirmed by multiple sequence alignment. These results indicate that the 24-bp consensus sequence is really responsible for the regulation of BphS1T1...
  30. ncbi request reprint Crystallization of the terminal oxygenase component of biphenyl dioxygenase derived from Rhodococcus sp. strain RHA1
    Venugopalan Nagarajan
    Division of Protein Engineering, Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    Protein Pept Lett 10:412-7. 2003
    ..The crystals belong to the tetragonal system in the space group P4(1)2(1)2 or P4(3)2(1)2 and diffract to better than 2.2A resolution...
  31. pmc Dual two-component regulatory systems are involved in aromatic compound degradation in a polychlorinated-biphenyl degrader, Rhodococcus jostii RHA1
    Hisashi Takeda
    Department of Bioengineering, Nagaoka University of Technology, 1603 1 Kamitomioka, Nagaoka, Niigata 940 2188, Japan
    J Bacteriol 192:4741-51. 2010
    ..Comparison of the sequences, including bphS2T2, with the bphS1T1-containing sequences and the corresponding sequences in other rhodococcal degraders suggests that bphS2T2 might have originated from bphS1T1...
  32. ncbi request reprint Characterization of two biphenyl dioxygenases for biphenyl/PCB degradation in A PCB degrader, Rhodococcus sp. strain RHA1
    Takumi Iwasaki
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata, Japan
    Biosci Biotechnol Biochem 71:993-1002. 2007
    ..The wide substrate preference of EtbA/EbdA dioxygenase suggested that it plays a more important role in polychlorinated biphenyl (PCB) degradation than does BphA dioxygenase...
  33. pmc Multiple-subunit genes of the aromatic-ring-hydroxylating dioxygenase play an active role in biphenyl and polychlorinated biphenyl degradation in Rhodococcus sp. strain RHA1
    Takumi Iwasaki
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    Appl Environ Microbiol 72:5396-402. 2006
    ..The results indicated that these dioxygenase isozymes have different substrate preferences and that the etbA1A2/ebdA1A2-encoded isozyme is more active on highly chlorinated congeners than the bphA1A2-encoded one...
  34. pmc Novel tripartite aromatic acid transporter essential for terephthalate uptake in Comamonas sp. strain E6
    Masaru Hosaka
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata, Japan
    Appl Environ Microbiol 79:6148-55. 2013
    ..TPA uptake by E6 cells was completely inhibited by a protonophore, carbonyl cyanide m-chlorophenyl hydrazone, indicating that the TPA uptake system requires a proton motive force. ..
  35. doi request reprint Characterization of FerC, a MarR-type transcriptional regulator, involved in transcriptional regulation of the ferulate catabolic operon in Sphingobium sp. strain SYK-6
    Daisuke Kasai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata, Japan
    FEMS Microbiol Lett 332:68-75. 2012
    ..Furthermore, hydroxycinnamoyl-CoAs, including p-coumaroyl-CoA, caffeoyl-CoA, and sinapoyl-CoA also acted as effector...
  36. doi request reprint Regulation of the isophthalate catabolic operon controlled by IphR in Comamonas sp. strain E6
    Naofumi Kamimura
    Department of Bioengineering, Nagaoka University of Technology, Kamitomioka, Nagaoka, Niigata, Japan
    FEMS Microbiol Lett 329:186-92. 2012
    ..In conclusion, the iph operon is negatively autoregulated by the binding of IphR to the operator region, and this repression is released by the presence of IPA...
  37. ncbi request reprint Expression in Escherichia coli of biphenyl 2,3-dioxygenase genes from a Gram-positive polychlorinated biphenyl degrader, Rhodococcus jostii RHA1
    Tsuneo Ohmori
    Department of Bioengineering, Nagaoka University of Technology, 1603 1 Kamitomioka cho, Nagaoka, Niigata 940 2188, Japan
    Biosci Biotechnol Biochem 75:26-33. 2011
    ..coli. The resulting strain abundantly produced the bphAc product, and showed activity. These results suggest that codon usage bias is involved in inability of RHA1 bphAc to express its catalytic activity in E. coli...
  38. pmc Characterization of the 4-carboxy-4-hydroxy-2-oxoadipate aldolase gene and operon structure of the protocatechuate 4,5-cleavage pathway genes in Sphingomonas paucimobilis SYK-6
    Hirofumi Hara
    Department of Bioengineering, Nagaoka University of Technology, Kamitomioka, Nagaoka, Niigata 940 2188, Japan
    J Bacteriol 185:41-50. 2003
    ..paucimobilis SYK-6 consisted of four transcriptional units, including the ligK-orf1-ligI-lsdA cluster, the ligJAB cluster, and the monocistronic ligR and ligC genes...
  39. ncbi request reprint Degradation of 3-O-methylgallate in Sphingomonas paucimobilis SYK-6 by pathways involving protocatechuate 4,5-dioxygenase
    Daisuke Kasai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata, Japan
    FEMS Microbiol Lett 274:323-8. 2007
    ..Mutant analysis revealed that the 3MGA catabolic pathways involving LigAB are functional in SYK-6...
  40. ncbi request reprint The bphDEF meta-cleavage pathway genes involved in biphenyl/polychlorinated biphenyl degradation are located on a linear plasmid and separated from the initial bphACB genes in Rhodococcus sp. strain RHA1
    E Masai
    Department of Bioengineering, Nagaoka University of Technology, Kamitomioka, Niigata, Japan
    Gene 187:141-9. 1997
    ..Southern blot analysis indicated that the meta-cleavage pathway for biphenyl/PCB catabolism in RHA1 is directed by the 390 kb plasmid borne bphDEF genes located separately from bphACB gene cluster on the 1100 kb plasmid...
  41. ncbi request reprint Rhizobacter gummiphilus sp. nov., a rubber-degrading bacterium isolated from the soil of a botanical garden in Japan
    Shunsuke Imai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    J Gen Appl Microbiol 59:199-205. 2013
    ..nov., with the strain NS21(T) (NBRC 109400(T), BCC 58006(T)) as the type strain. The emended description of the genus Rhizobacter was also presented...
  42. ncbi request reprint Characterization of a transcriptional regulatory gene involved in dibenzofuran degradation by Nocardioides sp. strain DF412
    Parichat Sukda
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata, Japan
    Biosci Biotechnol Biochem 73:508-16. 2009
    ..These results suggest derepression of DfdS in the presence of 2,2',3-THBP and 2,3-DHBP and the involvement of the IR in the repression by DfdS...
  43. pmc 2-Hydroxypenta-2,4-dienoate metabolic pathway genes in a strong polychlorinated biphenyl degrader, Rhodococcus sp. strain RHA1
    Masayuki Sakai
    Department of Bioengineering, Nagaoka University of Technology, Kamitomioka, Nagaoka, Niigata 940 2188, Japan
    Appl Environ Microbiol 69:427-33. 2003
    ....
  44. doi request reprint Characterization of nitrate and nitrite utilization system in Rhodococcus jostii RHA1
    Toju Iino
    Department of Bioengineering, Nagaoka University of Technology, Kamitomioka, Nagaoka, Niigata 940 2188, Japan
    J Biosci Bioeng 115:600-6. 2013
    ..The unique nitrogen metabolism system of RHA1 and its importance for the growth in soil are discussed...
  45. pmc Specific gene responses of Rhodococcus jostii RHA1 during growth in soil
    Toju Iino
    Department of Bioengineering, Nagaoka University of Technology, Kamitomioka, Nagaoka, Niigata, Japan
    Appl Environ Microbiol 78:6954-62. 2012
    ..These results suggest that the ro06365-ro06369 gene cluster has a significant role in nitrogen utilization in sterilized soil...
  46. ncbi request reprint Crystal structures of the reaction intermediate and its homologue of an extradiol-cleaving catecholic dioxygenase
    Nobuyuki Sato
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata, Japan
    J Mol Biol 321:621-36. 2002
    ..Finally, protonated His194 seems to function as a proton donor, whose existence has been proposed...
  47. ncbi request reprint [PCB degradation systems in Rhodococcus bacteria: multiplex enzyme system determined by multiple isozyme genes]
    Masao Fukuda
    Tanpakushitsu Kakusan Koso 50:1541-7. 2005
  48. pmc Characterization of the 450-kb linear plasmid in a polychlorinated biphenyl degrader, Rhodococcus sp. strain RHA1
    S Shimizu
    Department of Bioengineering, Nagaoka University of Technology, Kamitomioka, Nagaoka, Niigata 940-2188, Japan
    Appl Environ Microbiol 67:2021-8. 2001
    ..Retardation of both terminal fragments in the gel shift assay indicated that each terminus of pRHL2 is linked to a protein. We suggest that pRHL2 has invertron termini, as has been reported previously for Streptomyces linear replicons...
  49. ncbi request reprint Structural alteration of linear plasmids encoding the genes for polychlorinated biphenyl degradation in Rhodococcus strain RHA1
    M Fukuda
    Department of Bioengineering, Nagaoka University of Technology, Niigata, Japan
    Antonie Van Leeuwenhoek 74:169-73. 1998
    ..The bph gene deletion seems to play a key role in these tolerant derivatives thereby suggesting that the toxic metabolic intermediate would be a main cause of the growth inhibition of RHA1 in the presence of high concentration PCBs...
  50. pmc Cloning and characterization of benzoate catabolic genes in the gram-positive polychlorinated biphenyl degrader Rhodococcus sp. strain RHA1
    W Kitagawa
    Department of Bioengineering, Nagaoka University of Technology, Japan
    J Bacteriol 183:6598-606. 2001
    ..In contrast, two rhodococcal strains that cannot transform benzoate were found not to have RHA1 benABC homologs, suggesting that many Rhodococcus strains contain benzoate catabolic genes similar to RHA1 benABC...
  51. pmc Two nearly identical aromatic compound hydrolase genes in a strong polychlorinated biphenyl degrader, Rhodococcus sp. strain RHA1
    A Yamada
    Department of Bioengineering, Nagaoka University of Technology, Kamitomioka, Nagaoka, Niigata 940 2188, Japan
    Appl Environ Microbiol 64:2006-12. 1998
    ..Strain RCD1, an RHA1 mutant strain lacking both the bphD gene and the etbD2 gene, grew well on ethylbenzene. This result suggested that the etbD1 gene product is involved in the meta-cleavage metabolic pathway of ethylbenzene...
  52. doi request reprint Isolation and characterization of Streptomyces, Actinoplanes, and Methylibium strains that are involved in degradation of natural rubber and synthetic poly(cis-1,4-isoprene)
    Shunsuke Imai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    Enzyme Microb Technol 49:526-31. 2011
    ..Southern hybridization analysis using LCIC4 lcp probe revealed the presence of a lcp-homolog in OR16. These results suggest that the lcp-homologs are involved in rubber degradation in LCIC4 and OR16...
  53. doi request reprint Isolation of dibenzofuran-degrading bacterium, Nocardioides sp. DF412, and characterization of its dibenzofuran degradation genes
    Keisuke Miyauchi
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata, Japan
    J Biosci Bioeng 105:628-35. 2008
    ..These two gene clusters also conferred the activity of each enzyme to a host strain. These results strongly suggest that the clusters are responsible for the degradation of DF in strain DF412...
  54. ncbi request reprint Multiplicity of aromatic ring hydroxylation dioxygenase genes in a strong PCB degrader, Rhodococcus sp. strain RHA1 demonstrated by denaturing gradient gel electrophoresis
    W Kitagawa
    Department of Bioengineering, Nagaoka University of Technology, Niigata, Japan
    Biosci Biotechnol Biochem 65:1907-11. 2001
    ..The gene of band E was not induced by any of these substrates. Thus the combination of DGGE and Southern hybridization enable us to address the multiplicity of the ring hydroxylation dioxygenase genes and to isolate some of them...
  55. pmc Genetic and biochemical characterization of a 2-pyrone-4, 6-dicarboxylic acid hydrolase involved in the protocatechuate 4, 5-cleavage pathway of Sphingomonas paucimobilis SYK-6
    E Masai
    Department of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata 940 2188, Japan
    J Bacteriol 181:55-62. 1999
    ..These results indicate that the ligI gene is essential for the growth of SYK-6 on vanillic acid but is not responsible for the growth of SYK-6 on syringic acid...
  56. ncbi request reprint Crystal structure of 2-hydroxyl-6-oxo-6-phenylhexa-2,4-dienoic acid (HPDA) hydrolase (BphD enzyme) from the Rhodococcus sp. strain RHA1 of the PCB degradation pathway
    N Nandhagopal
    Division of Protein Engineering, Nagaoka University of Technology, Japan
    J Mol Biol 309:1139-51. 2001
    ..The proposed orientation of the substrate seems to be consistent with the general catalytic mechanism of alpha/beta-hydrolases...
  57. ncbi request reprint Crystal structures of substrate free and complex forms of reactivated BphC, an extradiol type ring-cleavage dioxygenase
    Y Uragami
    Department of Bioengineering, Nagaoka University of Technology, Niigata, Japan
    J Inorg Biochem 83:269-79. 2001
    ..As a result of the conformational shifts, His194, which has been suggested as the catalytic base, takes part in a weak hydrogen bond with hydroxyl group of the substrate...
  58. pmc Cloning of a Sphingomonas paucimobilis SYK-6 gene encoding a novel oxygenase that cleaves lignin-related biphenyl and characterization of the enzyme
    X Peng
    Department of Bioengineering, Nagaoka University of Technology, Niigata, Japan
    Appl Environ Microbiol 64:2520-7. 1998
    ..Thus, LigZ was concluded to be a ring cleavage extradiol dioxygenase. LigZ activity was detected only for OH-DDVA and 2,2',3,3'-tetrahydroxy-5,5'-dicarboxybiphenyl and was dependent on the ferrous ion...
  59. ncbi request reprint Crystal structure of NADH-dependent ferredoxin reductase component in biphenyl dioxygenase
    T Senda
    Division of Protein Engineering, University of Technology, Nagaoka, Niigata, Japan
    J Mol Biol 304:397-410. 2000
    ....
  60. ncbi request reprint Efficient production of 2-pyrone 4,6-dicarboxylic acid as a novel polymer-based material from protocatechuate by microbial function
    Yuichiro Otsuka
    Forestry and Forest Products Research Institute, Tsukuba, Ibaraki, Japan
    Appl Microbiol Biotechnol 71:608-14. 2006
    ....
  61. pmc Functional characterization of a catabolic plasmid from polychlorinated- biphenyl-degrading Rhodococcus sp. strain RHA1
    Rene Warren
    Genome Sciences Centre, Vancouver, Canada
    J Bacteriol 186:7783-95. 2004
    ..The plasmid does not appear to contain any housekeeping genes. However, each of the three catabolic clusters contains related genes that appear to be involved in glucose metabolism...
  62. ncbi request reprint Crystal structure of the terminal oxygenase component of biphenyl dioxygenase derived from Rhodococcus sp. strain RHA1
    Yutaka Furusawa
    Biological Information Research Center BIRC, National Institute of Advanced Industrial Science and Technology AIST, 2 41 6 Aomi, Koto ku, Tokyo 135 0064, Japan
    J Mol Biol 342:1041-52. 2004
    ..The cooperative actions of residues in the three groups seem to determine the substrate specificity of the enzyme...