Characterization of the F-76 diesel and Jet-A aviation fuel hydrocarbon degradation profiles of Pseudomonas aeruginosa and Marinobacter hydrocarbonoclasticus

Striebich, Richard C.; Smart, Caitlin E.; Gunasekera, Thusitha S.; Mueller, Susan S.; Strobel, Ellen M.; McNichols, Brett W.; Ruiz, Oscar N.

doi:10.1016/j.ibiod.2014.04.024

Cited by 43 publications

(32 citation statements)

References 23 publications

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“…These large data sets both confirm and extend previous findings from microarray analyses of these bacteria during growth on petroleum hydrocarbons [8, 14]. P. aeruginosa strain ATCC 33988, isolated from a fuel storage tank, has been shown to grow significantly faster on jet fuel than the laboratory strain PAO1 [14], and we found that this increased growth rate is also observed during growth in C 8 –C 16 n -alkanes (Fig. 1).…”

Section: Discussionsupporting

confidence: 90%

A comprehensive multi-omics approach uncovers adaptations for growth and survival of Pseudomonas aeruginosa on n-alkanes

et al. 2017

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BackgroundExamination of complex biological systems has long been achieved through methodical investigation of the system’s individual components. While informative, this strategy often leads to inappropriate conclusions about the system as a whole. With the advent of high-throughput “omic” technologies, however, researchers can now simultaneously analyze an entire system at the level of molecule (DNA, RNA, protein, metabolite) and process (transcription, translation, enzyme catalysis). This strategy reduces the likelihood of improper conclusions, provides a framework for elucidation of genotype-phenotype relationships, and brings finer resolution to comparative genomic experiments. Here, we apply a multi-omic approach to analyze the gene expression profiles of two closely related Pseudomonas aeruginosa strains grown in n-alkanes or glycerol.ResultsThe environmental P. aeruginosa isolate ATCC 33988 consumed medium-length (C10–C16) n-alkanes more rapidly than the laboratory strain PAO1, despite high genome sequence identity (average nucleotide identity >99%). Our data shows that ATCC 33988 induces a characteristic set of genes at the transcriptional, translational and post-translational levels during growth on alkanes, many of which differ from those expressed by PAO1. Of particular interest was the lack of expression from the rhl operon of the quorum sensing (QS) system, resulting in no measurable rhamnolipid production by ATCC 33988. Further examination showed that ATCC 33988 lacked the entire lasI/lasR arm of the QS response. Instead of promoting expression of QS genes, ATCC 33988 up-regulates a small subset of its genome, including operons responsible for specific alkaline proteases and sphingosine metabolism.ConclusionThis work represents the first time results from RNA-seq, microarray, ribosome footprinting, proteomics, and small molecule LC-MS experiments have been integrated to compare gene expression in bacteria. Together, these data provide insights as to why strain ATCC 33988 is better adapted for growth and survival on n-alkanes.Electronic supplementary materialThe online version of this article (doi:10.1186/s12864-017-3708-4) contains supplementary material, which is available to authorized users.

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Section: Discussionsupporting

confidence: 90%

A comprehensive multi-omics approach uncovers adaptations for growth and survival of Pseudomonas aeruginosa on n-alkanes

et al. 2017

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“…aeruginosa ATCC 33988, isolated from a fuel tank in Oklahoma, is highly adapted to hydrocarbon-containing environments and is considered to be an efficient alkane degrader (5,6). The 6.4-Mb genome of strain ATCC 33988 has 5,975 predicted coding sequences (7).…”

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confidence: 99%

Transcriptomic Analyses Elucidate Adaptive Differences of Closely Related Strains of Pseudomonas aeruginosa in Fuel

Gunasekera

Bowen

Zhou

et al. 2017

Appl Environ Microbiol

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Pseudomonas aeruginosa can utilize hydrocarbons, but different strains have various degrees of adaptation despite their highly conserved genome. P. aeruginosa ATCC 33988 is highly adapted to hydrocarbons, while P. aeruginosa strain PAO1, a human pathogen, is less adapted and degrades jet fuel at a lower rate than does ATCC 33988. We investigated fuel-specific transcriptomic differences between these strains in order to ascertain the underlying mechanisms utilized by the adapted strain to proliferate in fuel. During growth in fuel, the genes related to alkane degradation, heat shock response, membrane proteins, efflux pumps, and several novel genes were upregulated in ATCC 33988. Overexpression of alk genes in PAO1 provided some improvement in growth, but it was not as robust as that of ATCC 33988, suggesting the role of other genes in adaptation. Expression of the function unknown gene PA5359 from ATCC 33988 in PAO1 increased the growth in fuel. Bioinformatic analysis revealed that PA5359 is a predicted lipoprotein with a conserved Yx(FWY)xxD motif, which is shared among bacterial adhesins. Overexpression of the putative resistance-nodulation-division (RND) efflux pump PA3521 to PA3523 increased the growth of the ATCC 33988 strain, suggesting a possible role in fuel tolerance. Interestingly, the PAO1 strain cannot utilize n-C 8 and n-C 10 . The expression of green fluorescent protein (GFP) under the control of alkB promoters confirmed that alk gene promoter polymorphism affects the expression of alk genes. Promoter fusion assays further confirmed that the regulation of alk genes was different in the two strains. Protein sequence analysis showed low amino acid differences for many of the upregulated genes, further supporting transcriptional control as the main mechanism for enhanced adaptation.IMPORTANCE These results support that specific signal transduction, gene regulation, and coordination of multiple biological responses are required to improve the survival, growth, and metabolism of fuel in adapted strains. This study provides new insight into the mechanistic differences between strains and helpful information that may be applied in the improvement of bacterial strains for resistance to biotic and abiotic factors encountered during bioremediation and industrial biotechnological processes.

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“…Experiments were conducted at 26°C to minimize oxidative fuel degradation; maintaining the integrity of the fuel was essential so small changes in properties due to microbial exposure could be measured. Previous work has shown that all three microorganisms, Marinobacter hydrocarbonoclasticus, Rhodovulum sp., and Halobacillus sp., grow well at 26°C [22].…”

Section: Microbial Exposurementioning

confidence: 98%

“…For all subsequent experiments, the vials were shaken (e.g., surfactant molecules). The co-mingling of seawater and fuel also introduces the additional issue of microbial activity at the fuel-water interface [19][20][21] (Figure 1) and its potential to result in degradation of fuel properties [22] and bio-fouling [20]. It has been shown, that bacteria such as Pseudomonas aeruginosa and the marine bacteria Marinobacter hydrocarbonoclasticus can actively degrade multiple hydrocarbon compounds in F76 and jet fuel and produce dense biofilms [22,23].…”

Section: Water Equilibrationmentioning

confidence: 99%

Interaction of Selected Fuels with Water: Impact on Physical Properties and Microbial Growth

Ruiz¹

2015

J Pet Environ Biotechnol

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The incorporation of renewable fuels into the current fuel infrastructure requires a greater understanding of the impact of long term storage conditions of these fuels and their blends. In certain applications, especially those pertaining to the military, there is a high likelihood of exposure to marine environments, allowing for intimate mixing of fuels with water. Incorporation of water into fuels can lead to fuel degradation and enhance microbial contamination and growth, all of which impact storage and the ultimate usability of the fuels. Through the context of equilibrium water and dissolved salt concentration, properties of an algal hydrotreated renewable diesel (HRD), petroleum diesel (F76), soy-based fatty acid methyl esters (FAMEs) biodiesel and blends of 50/50 HRD/F76 and 5/95 FAME/F76 were investigated. Samples with the greatest equilibrium water content, the biodiesel and biodiesel blend, showed the highest incorporation of salts in samples unexposed to microbial growth. HRD, F76, and HRD/F76 blend samples were exposed to microbial growth and examined for selected physical properties and metals concentration. The blended HRD/F76 showed the highest microbial growth as well as the most metals carryover (K + and Mg 2+ ) of the samples investigated.

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Characterization of the F-76 diesel and Jet-A aviation fuel hydrocarbon degradation profiles of Pseudomonas aeruginosa and Marinobacter hydrocarbonoclasticus

Cited by 43 publications

References 23 publications

A comprehensive multi-omics approach uncovers adaptations for growth and survival of Pseudomonas aeruginosa on n-alkanes

A comprehensive multi-omics approach uncovers adaptations for growth and survival of Pseudomonas aeruginosa on n-alkanes

Transcriptomic Analyses Elucidate Adaptive Differences of Closely Related Strains of Pseudomonas aeruginosa in Fuel

Interaction of Selected Fuels with Water: Impact on Physical Properties and Microbial Growth

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