title: Proteomic characterization of plasmid pLA1 for biodegradation of polycyclic aromatic hydrocarbons in the marine bacterium, Novosphingobium pentaromativorans US6-1.
abstract: Novosphingobium pentaromativorans US6-1 is a halophilic marine bacterium able to degrade polycyclic aromatic hydrocarbons (PAHs). Genome sequence analysis revealed that the large plasmid pLA1 present in N. pentaromativorans US6-1 consists of 199 ORFs and possess putative biodegradation genes that may be involved in PAH degradation. 1-DE/LC-MS/MS analysis of N. pentaromativorans US6-1 cultured in the presence of different PAHs and monocyclic aromatic hydrocarbons (MAHs) identified approximately 1,000 and 1,400 proteins, respectively. Up-regulated biodegradation enzymes, including those belonging to pLA1, were quantitatively compared. Among the PAHs, phenanthrene induced the strongest up-regulation of extradiol cleavage pathway enzymes such as ring-hydroxylating dioxygenase, putative biphenyl-2,3-diol 1,2-dioxygenase, and catechol 2,3-dioxygenase in pLA1. These enzymes lead the initial step of the lower catabolic pathway of aromatic hydrocarbons through the extradiol cleavage pathway and participate in the attack of PAH ring cleavage, respectively. However, N. pentaromativorans US6-1 cultured with p-hydroxybenzoate induced activation of another extradiol cleavage pathway, the protocatechuate 4,5-dioxygenase pathway, that originated from chromosomal genes. These results suggest that N. pentaromativorans US6-1 utilizes two different extradiol pathways and plasmid pLA1 might play a key role in the biodegradation of PAH in N. pentaromativorans US6-1.
authors.affiliation: Division of Life Science, Korea Basic Science Institute, Daejeon, Republic of Korea.
authors.forename: Sung Ho
authors.initials: SH
authors.lastname: Yun
authors.affiliation: Division of Life Science, Korea Basic Science Institute, Daejeon, Republic of Korea.
authors.forename: Chi-Won
authors.initials: CW
authors.lastname: Choi
authors.affiliation: Division of Life Science, Korea Basic Science Institute, Daejeon, Republic of Korea.
authors.forename: Sang-Yeop
authors.initials: SY
authors.lastname: Lee
authors.affiliation: Division of Life Science, Korea Basic Science Institute, Daejeon, Republic of Korea.
authors.forename: Yeol Gyun
authors.initials: YG
authors.lastname: Lee
authors.affiliation: Division of Life Science, Korea Basic Science Institute, Daejeon, Republic of Korea.
authors.forename: Joseph
authors.initials: J
authors.lastname: Kwon
authors.affiliation: Department of Biology, Dong-A University, Busan, Republic of Korea.
authors.forename: Sun Hee
authors.initials: SH
authors.lastname: Leem
authors.affiliation: Division of Life Science, Korea Basic Science Institute, Daejeon, Republic of Korea.
authors.forename: Young Ho
authors.initials: YH
authors.lastname: Chung
authors.affiliation: Department of Environmental Education, Sunchon National University, Sunchon, Republic of Korea.
authors.forename: Hyung-Yeel
authors.initials: HY
authors.lastname: Kahng
authors.affiliation: Korea Institute of Ocean Science & Technology, Ansan, Republic of Korea.
authors.forename: Sang Jin
authors.initials: SJ
authors.lastname: Kim
authors.affiliation: Korea Institute of Ocean Science & Technology, Ansan, Republic of Korea.
authors.forename: Kae Kyoung
authors.initials: KK
authors.lastname: Kwon
authors.affiliation: Division of Life Science, Korea Basic Science Institute, Daejeon, Republic of Korea; Department of Bio-Analytical Science, University of Science and Technology (UST), Daejeon, Republic of Korea.
authors.forename: Seung Il
authors.initials: SI
authors.lastname: Kim
mesh_terms: D001426:Bacterial Proteins / Q000235:genetics / Q000378:metabolism*; D001673:Biodegradation, Environmental; D016000:Cluster Analysis; D015964:Gene Expression Regulation, Bacterial; D010957:Plasmids / Q000235:genetics*; D011084:Polycyclic Aromatic Hydrocarbons / Q000378:metabolism*; D020543:Proteome / Q000235:genetics / Q000378:metabolism*; D042301:Sphingomonadaceae / Q000235:genetics / Q000378:metabolism*; D015533:Transcriptional Activation
chemical_list: D001426:Bacterial Proteins; D011084:Polycyclic Aromatic Hydrocarbons; D020543:Proteome