Sequence and transcriptional analysis of a gene cluster of Pseudomonas putida 86 involved in quinoline degradation

Gene. 2004 Apr 28:331:177-88. doi: 10.1016/j.gene.2004.02.020.


Although quinoline 2-oxidoreductase (Qor) and 1H-2-oxoquinoline 8-monooxygenase (OxoOR), which catalyse the first two steps of quinoline degradation by Pseudomonas putida 86, and their genes have been investigated in some detail, the genetic organization and regulation of the catabolic pathway are not known yet. A gene cluster involved in quinoline degradation was characterized. Upstream of oxoO encoding the oxygenase component of OxoOR, the gene oxoS coding for a XylS-type protein is located. The DNA region downstream of oxoO comprises potential open reading frames (ORFs) that may code for further catabolic enzymes (an alpha/beta-hydrolase fold protein, and an amidase), and for accessory proteins presumably required for the assembly of metal cofactor containing holoenzymes (XdhC-like protein, MoeC- and MobA-like protein(s), IscS and IscU). The potential iscU gene is followed by the genes qorMSL that encode the structural subunits of Qor. Three potential ORFs (ORFs7-9) are located between qorMSL and oxoR, which codes for the reductase component of OxoOR. ORFs7-9 have counterparts in the cox (CO oxidizing system) and nic (nicotine degradation) gene clusters. Transcription of all these genes and ORFs located downstream of oxoS is induced by quinoline or 1H-2-oxoquinoline. Insertional inactivation of oxoS abolished quinoline-induced transcription. However, weak transcription of ORFs7-9 also occurred independent of quinoline and OxoS. The typical tandem recognition site for a XylS-type transcriptional activator was identified in the putative promoter region of qorM, and archetypal XylS indeed was found to activate synthesis of Qor. Motifs corresponding to single half-sites of a XylS-type binding site are located upstream of oxoO, the xdhC-like gene, and oxoR. Putative quinoline-specific transcriptional start sites were identified for these genes, and for qorM. The gene cluster probably is transcribed from several promoters, resulting in multiple overlapping polycistronic mRNAs.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Base Sequence
  • Binding Sites / genetics
  • DNA, Bacterial / chemistry
  • DNA, Bacterial / genetics*
  • Gene Expression Regulation, Bacterial
  • Genes, Bacterial / genetics
  • Genes, Regulator / genetics
  • Molecular Sequence Data
  • Multigene Family / genetics*
  • Pseudomonas putida / genetics*
  • Pseudomonas putida / metabolism
  • Quinolines / metabolism*
  • RNA, Bacterial / genetics
  • RNA, Bacterial / metabolism
  • Sequence Analysis, DNA
  • Sequence Homology, Nucleic Acid
  • Transcription Initiation Site
  • Transcription, Genetic / genetics


  • DNA, Bacterial
  • Quinolines
  • RNA, Bacterial
  • quinoline

Associated data

  • GENBANK/AJ583091
  • GENBANK/AJ617683