title: Genomic insights into the metabolic potential of the polycyclic aromatic hydrocarbon degrading sulfate-reducing Deltaproteobacterium N47.
abstract: Anaerobic degradation of polycyclic aromatic hydrocarbons (PAHs) is an important process during natural attenuation of aromatic hydrocarbon spills. However, knowledge about metabolic potential and physiology of organisms involved in anaerobic degradation of PAHs is scarce. Therefore, we introduce the first genome of the sulfate-reducing Deltaproteobacterium N47 able to catabolize naphthalene, 2-methylnaphthalene, or 2-naphthoic acid as sole carbon source. Based on proteomics, we analysed metabolic pathways during growth on PAHs to gain physiological insights on anaerobic PAH degradation. The genomic assembly and taxonomic binning resulted in 17 contigs covering most of the sulfate reducer N47 genome according to general cluster of orthologous groups (COGs) analyses. According to the genes present, the Deltaproteobacterium N47 can potentially grow with the following sugars including d-mannose, d-fructose, d-galactose, α-d-glucose-1P, starch, glycogen, peptidoglycan and possesses the prerequisites for butanoic acid fermentation. Despite the inability for culture N47 to utilize NO(3) (-) as terminal electron acceptor, genes for nitrate ammonification are present. Furthermore, it is the first sequenced genome containing a complete TCA cycle along with the carbon monoxide dehydrogenase pathway. The genome contained a significant percentage of repetitive sequences and transposase-related protein domains enhancing the ability of genome evolution. Likewise, the sulfate reducer N47 genome contained many unique putative genes with unknown function, which are candidates for yet-unknown metabolic pathways.
authors.affiliation: Institute of Groundwater Ecology, Helmholtz Zentrum München-German Research Center for Environmental Health, Ingolstädter Landstrasse 1, Neuherberg, Germany.
authors.forename: Franz
authors.initials: F
authors.lastname: Bergmann
authors.forename: Draženka
authors.initials: D
authors.lastname: Selesi
authors.forename: Thomas
authors.initials: T
authors.lastname: Weinmaier
authors.forename: Patrick
authors.initials: P
authors.lastname: Tischler
authors.forename: Thomas
authors.initials: T
authors.lastname: Rattei
authors.forename: Rainer U
authors.initials: RU
authors.lastname: Meckenstock
mesh_terms: D020451:Contig Mapping; D004269:DNA, Bacterial / Q000235:genetics; D020564:Deltaproteobacteria / Q000235:genetics* / Q000378:metabolism*; D020869:Gene Expression Profiling; D016680:Genome, Bacterial; D006601:Hexoses / Q000378:metabolism; D005810:Multigene Family; D009281:Naphthalenes / Q000378:metabolism*; D020543:Proteome / Q000378:metabolism; D012091:Repetitive Sequences, Nucleic Acid; D013431:Sulfates / Q000378:metabolism; D016999:Sulfur-Reducing Bacteria / Q000235:genetics / Q000378:metabolism
chemical_list: D004269:DNA, Bacterial; D006601:Hexoses; D009281:Naphthalenes; D020543:Proteome; D013431:Sulfates; C031721:naphthalene; C030037:2-naphthoic acid; C027384:2-methylnaphthalene