Genomic Diversity of Two Hydrocarbon-Degrading and Plant Growth-Promoting Pseudomonas Species Isolated from the Oil Field of Bóbrka (Poland)

Abstract

Hydrocarbon-degrading bacteria are important resources for use in phytoremediation applications. Yet, for many hydrocarbonoclastic strains the genetic information regarding pollutant degradation and detoxification has not been thoroughly revealed. In this study, hydrocarbon-degrading bacteria were isolated from a long-term oil-polluted soil in Bóbrka, Poland. Pseudomonas spp. was the most dominant species. Of all 69 isolated strains tested in the laboratory using qualitative biochemical assays, 61% showed the capability to use diesel as sole carbon source, 33% could produce indole, 19% produced siderophores, 36% produced organic acids, and 54% were capable of producing 1-aminocyclopropane-1-carboxylate (ACC)-deaminase. From all morphologically and genetically different strains, two representative Pseudomonas spp., strain VI4.1 and VI4T1, were selected for genome sequencing. Genomic analyses indicated the presence of the full naphthalene dioxygenase operon (plasmid and chromosomal), of genes involved in the degradation of BTEX compounds (Benzene, Toluene, Ethylbenzene, Xylene) and alkanes (alkB gene) as well as the anthranilate degradation pathway (strain VI4T1) and terephthalate dioxygenase protein (strain VI4.1). Proton transfer reaction time-of-flight mass spectrometry (PTR-TOF-MS) analyses confirmed naphthalene and BTEX degradation within seven days. Motility, resistance to abiotic stresses, high and low temperatures, low pH, and salinity were confirmed at the genetic level and experimentally verified. The presence of multiple degradative and plant growth promotion genes, together with the in vitro experimental evidence, indicates the high value of these two strains and their potential use for sustainable site clean-up.

Trifolium repens-Associated Bacteria as a Potential Tool to Facilitate Phytostabilization of Zinc and Lead Polluted Waste Heaps

“…In order to enlarge the access to the diverse soil microorganisms, a sandwich diffusion system was applied [28]. In brief, roots with tightly-adhering soil attached (rhizosphere) were suspended in 5 mL of 0.1 M phosphate-buffered saline (PBS, pH = 7.0) and incubated on an orbital shaker (160 rpm).…”

VOC Emission Analysis of Bitumen Using Proton-Transfer Reaction Time-Of-Flight Mass Spectrometry

“…Proton-transfer reaction time-of-flight mass spectrometry (PTR-TOF-MS) represents a useful and innovative solution in the monitoring of VOC emissions. The technique has been successfully applied to environmental research such as measurement of ecosystem VOC fluxes by coupling the instrument to a flux tower [ 27 ], to plant VOC emissions by coupling it to a leaf chamber [ 28 ], and to air pollution cleaning potential of bacteria by measuring the headspace of the cultures [ 29 ]. Other applications include the measurement of VOCs that characterize food flavor [ 30 ], indoor air quality studies [ 31 ], and breath analysis in medical research [ 32 ].…”

Aerobic and oxygen-limited naphthalene-amended enrichments induced the dominance of Pseudomonas spp. from a groundwater bacterial biofilm

“…In contrast, a series of studies discuss the hydrocarbon degradation ability (including both aliphatic-and aromatic) of P. extremaustralis/P. veronii lineage affiliating bacteria (Tribelli et al 2012(Tribelli et al , 2018Imperato et al 2019;Morales et al 2016;Wald et al 2015). P. extremaustralis 14-3 T was isolated, for the first time, from an Antarctic environment and was able to tolerate and degrade hydrocarbons.…”