Aromatic hydrocarbon degradation by Sphingomonas yanoikuyae B1

Zylstra, Gerben J.; Kim, E

doi:10.1038/sj.jim.2900475

Cited by 115 publications

(79 citation statements)

References 2 publications

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“…For example, strains of Sphingomonas are known to degrade a variety of slowly degradable compounds, such as phthalate esters (Chang et al, 2004), aromatic hydrocarbons (Zylstra and Kim, 1997) and dibenzofurans (Wilkes et al, 1996). The rich secondary metabolite arsenal produced by cyanobacteria (Harada, 2004) may favour such bacteria.…”

Section: Discussionmentioning

confidence: 99%

High diversity of cultivable heterotrophic bacteria in association with cyanobacterial water blooms

et al. 2008

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Cyanobacterial mass occurrences (water blooms) cause ecological, economic and health problems worldwide. Still, little is known about heterotrophic bacteria associated with cyanobacteria and the interactions between those organisms. We isolated 460 bacterial strains from more than 40 lakes and rivers (151 samples), Baltic Sea (32 samples) and treated drinking water of seven treatment plants (29 samples). The water bodies and the raw water of the treatment plants were frequently dominated by high numbers of cyanobacteria. Various growth media were used to isolate the strains. Analysis of partial 16S rRNA gene fragments (701-905 bp for 358 strains and 413-497 bp for 102 strains) classified the isolated bacteria as Proteobacteria, Bacteroidetes, Actinobacteria, Firmicutes and Deinococcus-Thermus. Some of these isolates represented possible new bacterial orders, families, genera or species. We isolated various potentially pathogenic bacteria, such as Aeromonas, Vibrio, Acinetobacter and Pseudomonas, that may cause adverse health effects in humans and animals and should be taken into consideration when assessing the risks caused by cyanobacterial blooms. Several strains also inhibited or enhanced the growth of cyanobacteria. Most of such strains had an enhancing effect on the cyanobacterial growth. Other isolates were affiliated with genera such as Sphingomonas or Flavobacterium, which include strains that are capable of degrading cyanobacterial toxins or other recalcitrant and problematic organic compounds. The isolated strains provide a large group of bacteria that could be used in assessing and controlling the harmful effects of cyanobacteria.

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Section: Discussionmentioning

confidence: 99%

High diversity of cultivable heterotrophic bacteria in association with cyanobacterial water blooms

et al. 2008

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“…In this case, nah, bph, and xyl genes are present but are not arranged in three distinct operons (215,330,692). Indeed, this gene clustering may be typical of Sphingomonas spp.…”

Section: Aerobic Pah Metabolismmentioning

confidence: 99%

Recent Advances in Petroleum Microbiology

Hamme¹,

Singh

Ward

2003

Microbiol Mol Biol Rev

1,193

640

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Recent advances in molecular biology have extended our understanding of the metabolic processes related to microbial transformation of petroleum hydrocarbons. The physiological responses of microorganisms to the presence of hydrocarbons, including cell surface alterations and adaptive mechanisms for uptake and efflux of these substrates, have been characterized. New molecular techniques have enhanced our ability to investigate the dynamics of microbial communities in petroleum-impacted ecosystems. By establishing conditions which maximize rates and extents of microbial growth, hydrocarbon access, and transformation, highly accelerated and bioreactor-based petroleum waste degradation processes have been implemented. Biofilters capable of removing and biodegrading volatile petroleum contaminants in air streams with short substrate-microbe contact times (<60 s) are being used effectively. Microbes are being injected into partially spent petroleum reservoirs to enhance oil recovery. However, these microbial processes have not exhibited consistent and effective performance, primarily because of our inability to control conditions in the subsurface environment. Microbes may be exploited to break stable oilfield emulsions to produce pipeline quality oil. There is interest in replacing physical oil desulfurization processes with biodesulfurization methods through promotion of selective sulfur removal without degradation of associated carbon moieties. However, since microbes require an environment containing some water, a two-phase oil-water system must be established to optimize contact between the microbes and the hydrocarbon, and such an emulsion is not easily created with viscous crude oil. This challenge may be circumvented by application of the technology to more refined gasoline and diesel substrates, where aqueous-hydrocarbon emulsions are more easily generated. Molecular approaches are being used to broaden the substrate specificity and increase the rates and extents of desulfurization. Bacterial processes are being commercialized for removal of H2S and sulfoxides from petrochemical waste streams. Microbes also have potential for use in removal of nitrogen from crude oil leading to reduced nitric oxide emissions provided that technical problems similar to those experienced in biodesulfurization can be solved. Enzymes are being exploited to produce added-value products from petroleum substrates, and bacterial biosensors are being used to analyze petroleum-contaminated environments

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“…This enzyme is also predicted to catalyze the conversion of indole to indigo. This hypothesis is further supported by the fact that S. yanoikuyae B1 mutants in the five gene sets encoding oxygenase binding components, homologous to pNL1 genes bphA1 (a-b) and bphA2 (a-b), were not defective in their ability to oxidize naphthalene or biphenyl or to convert indole to indigo (Zylstra, this issue) [57]. The high level of indigo extracted from naphthaleneinduced cells suggests that clusters C (bphA4), K (bphA3), and V (bphA1f and bphA2f) are induced in these cells.…”

Section: Discussionmentioning

confidence: 56%

Induction of aromatic catabolic activity in Sphingomonas aromaticivorans strain F199

Romine

Fredrickson

1999

Journal of Industrial Microbiology and Biotechnology

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Enzyme induction studies with Sphingomonas aromaticivorans F199 demonstrated that both toluene and naphthalene induced expression of both naphthalene and toluene catabolic enzymes. However, neither aromatic compound induced expression of all the enzymes required for complete mineralization of either naphthalene or toluene. Activity measurements in combination with gene sequence analyses indicate that growth on either aromatic substrate in the absence of the other is, therefore, sub-optimal and is predicted to lead to the build-up of metabolites due to imbalance in toluene or naphthalene catabolic enzyme activities. Growth on toluene may be further inhibited by the co-expression of two toluene catabolic pathways, as predicted from gene sequence analyses. One of these pathways may potentially result in the formation of a dead-end intermediate, possibly benzaldehyde. In contrast, either pcresol or benzoate can support high levels of growth. Analyses of promoter region sequences on the F199 aromatic catabolic plasmid, pNL1, suggest that additional regulatory events are modulated through the interaction of BphR with Sigma54 type promoters and through the binding of a regulator upstream of p-cresol catabolic genes and xylM. We hypothesize that the unusual gene clustering in strain F199 is optimized for simultaneous degradation of multiple aromatic compound classes, possibly in response to the heterogeneous composition of aromatic structures in the fossil organic matter present in the deep Atlantic Coastal Plain sediments from which this bacterium was isolated.

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Aromatic hydrocarbon degradation by Sphingomonas yanoikuyae B1

Cited by 115 publications

References 2 publications

High diversity of cultivable heterotrophic bacteria in association with cyanobacterial water blooms

High diversity of cultivable heterotrophic bacteria in association with cyanobacterial water blooms

Recent Advances in Petroleum Microbiology

Induction of aromatic catabolic activity in Sphingomonas aromaticivorans strain F199

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