Alkane Degradation by Pseudomonads

Pseudomonas ◽  
2004 ◽  
pp. 397-423 ◽  
Author(s):  
Jan B. van Beilen ◽  
Bernard Witholt
Keyword(s):  
Alkane Degradation

scholarly journals Ecological Response in the Integrated Process of Biostimulation and Bioaugmentation of Diesel-Contaminated Soil

2021 ◽  
Vol 11 (14) ◽  
pp. 6305
Author(s):  
Xiaosen Li ◽  
Yakui Chen ◽  
Xianyuan Du ◽  
Jin Zheng ◽  
Diannan Lu ◽  
...  
Keyword(s):  
Nitrogen Cycle ◽  
Contaminated Soil ◽  
Quantitative Polymerase Chain Reaction ◽  
Chemical Properties ◽  
Gas Chromatography Mass Spectrometry ◽  
Functional Genes ◽  
Alkane Degradation ◽  
Degrading Bacteria ◽  
Polycyclic Aromatic ◽  
Amine Compounds

The study applied microbial molecular biological techniques to show that 2.5% to 3.0% (w/w) of diesel in the soil reduced the types and number of bacteria in the soil and destroyed the microbial communities responsible for the nitrogen cycle. In the meantime, the alkane degradation gene alkB and polycyclic aromatic hydrocarbons (PAHs) degradation gene nah evolved in the contaminated soil. We evaluated four different remediation procedures, in which the biostimulation-bioaugmentation joint process reached the highest degradation rate of diesel, 59.6 ± 0.25% in 27 days. Miseq sequencing and quantitative polymerase chain reaction (qPCR) showed that compared with uncontaminated soil, repaired soil provides abundant functional genes related to soil nitrogen cycle, and the most significant lifting effect on diesel degrading bacteria γ-proteobacteria. Quantitative analysis of degrading functional genes shows that degrading bacteria can be colonized in the soil. Gas chromatography-mass spectrometry (GC-MS) results show that the components remaining in the soil after diesel degradation are alcohol, lipids and a small amount of fatty amine compounds, which have very low toxicity to plants. In an on-site remediation experiment, the diesel content decreased from 2.7% ± 0.3 to 1.12% ± 0.1 after one month of treatment. The soil physical and chemical properties returned to normal levels, confirming the practicability of the biosimulation-bioaugmentation jointed remediation process.

scholarly journals CRUDE OIL BIOREMEDIATION BY INDIGENOUS BACTERIA ISOLATED FROM OILY SLUDGE

2016 ◽  
Vol 78 (11-2) ◽  
Author(s):  
Nur Hafizah Azizan ◽  
Kasing Ak Apun ◽  
Lesley Maurice Bilung ◽  
Micky Vincent ◽  
Hairul Azman Roslan ◽  
...  
Keyword(s):  
Crude Oil ◽  
Enrichment Culture ◽  
Molecular Techniques ◽  
Oily Sludge ◽  
Minimal Salt Medium ◽  
Alkane Degradation ◽  
Growth Study ◽  
The Third ◽  
Cell Counts ◽  
Degrading Bacteria

Enrichment culture technique leads to the discovery of six presumptive TPH-degrading bacteria. Identification and characterization tests using morphological, biochemical and molecular techniques have successfully isolated Pseudomonas aeruginosa (UMAS1PF), Serratia marcescens (UMAS2SF) and Klebsiella spp. (UMAS3KF). All strains were able to use crude oil as sole carbon and energy source for their growth since they were able to survive in Minimal Salt medium supplemented with 1% (v/v) crude oil. Growth study showed that they produced the highest cell counts on the third or fourth day by 108 – 1011 CFU/ml. Six artificial consortium inoculums have been produced from the growth study. Gas chromatography analysis showed that all isolates had the ability to degrade aliphatic hydrocarbon with 100% degradation of nC19 – C24. Among the isolates, UMAS2SF was the best and fastest n-alkane degrader with degradation percentage between 55 – 90% of n-C14 – C18 in 14 days. This was followed by UMAS1PF and UMAS3KF with 11 – 82% and 1.3% degradation, respectively. Enhancement study showed that plot with inoculum and NPK addition successfully enhanced n-alkane degradation. Plot A2:B3+NPK degraded n-alkane the fastest followed by plot treated by C+NPK, A1:B2, B+NPK and A2:B3. Result showed that UMAS1PF was the best PAHs degrader as most of the high molecular weight PAHs was degraded. In the enhancement study, the plot amended with A2:B3 showed the highest PAHs degradation, followed by plots A1:B2, A3:B1:C2 and A1:C3 that was assigned as the third, fourth and fifth best in mineralizing PAHs, respectively.

scholarly journals Microbial consortiums of putative degraders of low-density polyethylene-associated compounds in the ocean

2021 ◽  
Author(s):  
Maria Pinto ◽  
Zihao Zhao ◽  
Katja Klun ◽  
Eugen Libowitzky ◽  
Gerhard J Herndl
Keyword(s):  
Relative Abundance ◽  
Low Density Polyethylene ◽  
Low Density ◽  
Alkane Hydroxylase ◽  
Alkane Degradation ◽  
Electron Microscopic ◽  
Genes Encoding ◽  
Diverse Community ◽  
Metagenomics Analysis ◽  
Over Time

Polyethylene (PE) is one of the most abundant plastics in the ocean. The development of a biofilm on PE in the ocean has been reported, yet whether some of the biofilm-forming organisms can biodegrade this plastic in the environment remains unknown. Via metagenomics analysis, we taxonomically and functionally analysed three biofilm communities using low-density polyethylene (LDPE) as their sole carbon source for two years. Several of the taxa that increased in relative abundance over time were closely related to known degraders of alkane and other hydrocarbons. Alkane degradation has been proposed to be involved in PE degradation, and most of the organisms increasing in relative abundance over time harboured genes encoding proteins essential in alkane degradation, such as the genes alkB and CYP153, encoding an alkane monooxygenase and a cytochrome P450 alkane hydroxylase. Weight loss of PE sheets when incubated with these communities and chemical and electron microscopic analyses provided evidence for alteration of the PE surface over time. Taken together, these results provide evidence for the utilization of LDPE-associated compounds by the prokaryotic communities. This study identifies a group of genes potentially involved in the degradation of the LDPE polymeric structure and/or associated plastic additives in the ocean and describes a phylogenetically diverse community of plastic biofilm-dwelling microbes with the potential of utilizing LDPE-associated compounds as carbon and energy source.

scholarly journals Draft Genome Sequence of a Medium- and Long-Chain n-Alkane-Degrading Bacterium, Tsukamurella tyrosinosolvens Strain PS2, with Two Genetic Systems for Alkane Degradation

2019 ◽  
Vol 8 (17) ◽  
Author(s):  
Valeriya A. Romanova ◽  
Eugenia A. Boulygina ◽  
Maria N. Siniagina ◽  
Maria I. Markelova ◽  
Tatiana V. Grigoryeva ◽  
...  
Keyword(s):  
Organic Synthesis ◽  
Genome Sequence ◽  
Draft Genome ◽  
Carbon Sources ◽  
Draft Genome Sequence ◽  
Alkane Degradation ◽  
Content Type ◽  
Degrading Bacterium ◽  
Wide Range ◽  
Long Chain

Here, we report the genome sequence of Tsukamurella tyrosinosolvens strain PS2, which was isolated from hydrocarbon sludge of an organic synthesis factory. This strain was able to utilize a wide range of n-alkanes, from C16 to C35, as sole carbon sources.

n-Alkane degradation by Marinobacter hydrocarbonoclasticus strain SP 17: long chain β-hydroxy acids as indicators of bacterial activity

2002 ◽  
Vol 33 (1) ◽  
pp. 37-45 ◽  
Author(s):  
Agnès Lattuati ◽  
Pierre Metzger ◽  
Monique Acquaviva ◽  
Jean-Claude Bertrand ◽  
Claude Largeau
Keyword(s):  
Bacterial Activity ◽  
Hydroxy Acids ◽  
Alkane Degradation ◽  
Marinobacter Hydrocarbonoclasticus ◽  
Long Chain

scholarly journals Levels and Activity of the Pseudomonas putida Global Regulatory Protein Crc Vary According to Growth Conditions

2005 ◽  
Vol 187 (11) ◽  
pp. 3678-3686 ◽  
Author(s):  
Ana Ruiz-Manzano ◽  
Luis Yuste ◽  
Fernando Rojo
Keyword(s):  
Pseudomonas Putida ◽  
Regulatory Protein ◽  
Carbon Sources ◽  
Signal Transduction Pathway ◽  
Growth Conditions ◽  
Degradation Pathway ◽  
Complete Medium ◽  
Alkane Degradation ◽  
Mutant Proteins ◽  
Catalytic Sites

ABSTRACT The global regulatory protein Crc is involved in the repression of several catabolic pathways for sugars, hydrocarbons, and nitrogenated and aromatic compounds in Pseudomonas putida and Pseudomonas aeruginosa when other preferred carbon sources are present in the culture medium (catabolite repression), therefore modulating carbon metabolism. We have analyzed whether the levels or the activity of Crc is regulated. Crc activity was followed by its ability to inhibit the induction by alkanes of the P. putida OCT plasmid alkane degradation pathway when cells grow in a complete medium, where the effect of Crc is very strong. The abundance of crc transcripts and the amounts of Crc protein were higher under repressing conditions than under nonrepressing conditions. The presence of crc on a high-copy-number plasmid considerably increased Crc levels, but this impaired its ability to inhibit the alkane degradation pathway. Crc shows similarity to a family of nucleases that have highly conserved residues at their catalytic sites. Mutation of the corresponding residues in Crc (Asp220 and His246) led to proteins that can inhibit induction of the alkane degradation pathway when present at normal or elevated levels in the cell. Repression by these mutant proteins occurred only under repressing conditions. These results suggest that both the amounts and the activity of Crc are modulated and support previous proposals that Crc may form part of a signal transduction pathway. Furthermore, the activity of the mutant proteins suggests that Crc is not a nuclease.

scholarly journals Hydrocarbon degradation, plant colonization and gene expression of alkane degradation genes by endophytic Enterobacter ludwigii strains

2011 ◽  
Vol 159 (10) ◽  
pp. 2675-2683 ◽  
Author(s):  
Sohail Yousaf ◽  
Muhammad Afzal ◽  
Thomas G. Reichenauer ◽  
Carrie L. Brady ◽  
Angela Sessitsch
Keyword(s):  
Gene Expression ◽  
Hydrocarbon Degradation ◽  
Plant Colonization ◽  
Alkane Degradation ◽  
Enterobacter Ludwigii

scholarly journals Oceanobacter-related bacteria are important for the degradation of petroleum aliphatic hydrocarbons in the tropical marine environment

Microbiology ◽  
2009 ◽  
Vol 155 (10) ◽  
pp. 3362-3370 ◽  
Author(s):  
Maki Teramoto ◽  
Masahito Suzuki ◽  
Fumiyoshi Okazaki ◽  
Ariani Hatmanti ◽  
Shigeaki Harayama
Keyword(s):  
Crude Oil ◽  
Oil Spill ◽  
Marine Environment ◽  
Petroleum Hydrocarbon ◽  
Rrna Gene ◽  
Alkane Degradation ◽  
Degrading Bacteria ◽  
Tropical Sea ◽  
Nitrogen Phosphorus ◽  
Crude Oil Spill

Petroleum-hydrocarbon-degrading bacteria were obtained after enrichment on crude oil (as a ‘chocolate mousse’) in a continuous supply of Indonesian seawater amended with nitrogen, phosphorus and iron nutrients. They were related to Alcanivorax and Marinobacter strains, which are ubiquitous petroleum-hydrocarbon-degrading bacteria in marine environments, and to Oceanobacter kriegii (96.4–96.5 % similarities in almost full-length 16S rRNA gene sequences). The Oceanobacter-related bacteria showed high n-alkane-degrading activity, comparable to that of Alcanivorax borkumensis strain SK2. On the other hand, Alcanivorax strains exhibited high activity for branched-alkane degradation and thus could be key bacteria for branched-alkane biodegradation in tropical seas. Oceanobacter-related bacteria became most dominant in microcosms that simulated a crude oil spill event with Indonesian seawater. The dominance was observed in microcosms that were unamended or amended with fertilizer, suggesting that the Oceanobacter-related strains could become dominant in the natural tropical marine environment after an accidental oil spill, and would continue to dominate in the environment after biostimulation. These results suggest that Oceanobacter-related bacteria could be major degraders of petroleum n-alkanes spilt in the tropical sea.

Metagenomic analysis of an anaerobic alkane-degrading microbial culture: potential hydrocarbon-activating pathways and inferred roles of community members

Genome ◽  
2013 ◽  
Vol 56 (10) ◽  
pp. 599-611 ◽  
Author(s):  
Boonfei Tan ◽  
Xiaoli Dong ◽  
Christoph W. Sensen ◽  
Julia Foght
Keyword(s):  
Microbial Community ◽  
Oil Sands ◽  
Hydrogenase Activity ◽  
Microbial Culture ◽  
Alkane Degradation ◽  
Metabolic Functions ◽  
Anaerobic Hydrocarbon Degradation ◽  
Suitable Reference ◽  
Protein Recruitment ◽  
Paired End Sequencing

A microbial community (short-chain alkane-degrading culture, SCADC) enriched from an oil sands tailings pond was shown to degrade C6–C10 alkanes under methanogenic conditions. Total genomic DNA from SCADC was subjected to 454 pyrosequencing, Illumina paired-end sequencing, and 16S rRNA amplicon pyrotag sequencing; the latter revealed 320 operational taxonomic units at 5% distance. Metagenomic sequences were subjected to in-house quality control and co-assembly, yielding 984 086 contigs, and annotation using MG-Rast and IMG. Substantial nucleotide and protein recruitment to Methanosaeta concilii, Syntrophus aciditrophicus, and Desulfobulbus propionicus reference genomes suggested the presence of closely related strains in SCADC; other genomes were not well mapped, reflecting the paucity of suitable reference sequences for such communities. Nonetheless, we detected numerous homologues of putative hydrocarbon succinate synthase genes (e.g., assA, bssA, and nmsA) implicated in anaerobic hydrocarbon degradation, suggesting the ability of the SCADC microbial community to initiate methanogenic alkane degradation by addition to fumarate. Annotation of a large contig revealed analogues of the ass operon 1 in the alkane-degrading sulphate-reducing bacterium Desulfatibacillum alkenivorans AK-01. Despite being enriched under methanogenic–fermentative conditions, additional metabolic functions inferred by COG profiling indicated multiple CO2 fixation pathways, organic acid utilization, hydrogenase activity, and sulphate reduction.

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