Optimization of conditions for polycyclic aromatic hydrocarbons (PAHs) degradation by Pseudomonas stutzeri P2 isolated from Chirimiri coal mines

Singh, Pallavi; Tiwary, Bhupendra N.

doi:10.1016/j.bcab.2017.02.001

Cited by 49 publications

(13 citation statements)

References 65 publications

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“…Previously, P. stutzeri strains were reported as capable of degrading aromatic hydrocarbons, such as phenol, naphthalene, toluene, and xylenes (Rosselló-Mora et al 1994; Nie et al 2016; Brown et al 2017; Singh and Tiwary 2017). Here, the SCT genome appeared to contain genes involved in hydrocarbon degradation, including benA and benB for large and small subunits of benzoate 1,2-dioxygenase (KEGG: K05549 and K05550); catA , which encodes “catechol 1,2-dioxygenase [EC:1.13.11.1]” (KEGG: K03381); and a CDS annotated as “glyoxalase-like domain protein” or “catechol 2,3-dioxygenase” (locus_tag: PSCT_01283).…”

Section: Resultsmentioning

confidence: 99%

Genomic Analysis of Pseudomonas sp. Strain SCT, an Iodate-Reducing Bacterium Isolated from Marine Sediment, Reveals a Possible Use for Bioremediation

Harada

Ito

Nakajima

et al. 2019

G3 Genes|Genomes|Genetics

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Strain SCT is an iodate-reducing bacterium isolated from marine sediment in Kanagawa Prefecture, Japan. In this study, we determined the draft genome sequence of strain SCT and compared it to complete genome sequences of other closely related bacteria, including Pseudomonas stutzeri . A phylogeny inferred from concatenation of core genes revealed that strain SCT was closely related to marine isolates of P. stutzeri . Genes present in the SCT genome but absent from the other analyzed P. stutzeri genomes comprised clusters corresponding to putative prophage regions and possible operons. They included pil genes, which encode type IV pili for natural transformation; the mer operon, which encodes resistance systems for mercury; and the pst operon, which encodes a Pi-specific transport system for phosphate uptake. We found that strain SCT had more prophage-like genes than the other P. stutzeri strains and that the majority (70%) of them were SCT strain-specific. These genes, encoded on distinct prophage regions, may have been acquired after branching from a common ancestor following independent phage transfer events. Thus, the genome sequence of Pseudomonas sp. strain SCT can provide detailed insights into its metabolic potential and the evolution of genetic elements associated with its unique phenotype.

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Section: Resultsmentioning

confidence: 99%

Genomic Analysis of Pseudomonas sp. Strain SCT, an Iodate-Reducing Bacterium Isolated from Marine Sediment, Reveals a Possible Use for Bioremediation

Harada

Ito

Nakajima

et al. 2019

G3 Genes|Genomes|Genetics

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“…Numerous bacteria, such as Pseudomonas sp. (Singh and Tiwary 2017), Microbacterium sp. (Muthukamalam et al 2017), Burkholderia sp.…”

Section: Introductionmentioning

confidence: 99%

CHARACTERIZATION OF A Microbacterium sp. STRAIN ISOLATED FROM SOILS CONTAMINATED WITH HYDROCARBONS IN THE BURGOS BASIN, MEXICO

Cruz-Hernández

Reyes-Peralta

Mendoza-Herrera

et al. 2021

RICA

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The development of novel bioremediation strategies has focused on the isolation and identification of microorganisms that can thrive in polluted environments to evaluate their potential as biotechnological tools in bioremediation techniques. In this work, a bacterium isolated from hydrocarbon-contaminated soils from the Burgos basin was identified and its hydrocarbon degradation potential was evaluated. Identification based on sequencing the 16S rRNA gene identified one of the isolates (R3) as Microbacterium petrolearium. This strain was mainly antibiotic-sensitive with elevated carbohydrate assimilation differing from previously reported strains. Moderate surfactant production (I24 = 22.97 %) was observed, which was absent in a cell-free extract. M. petrolearium R3 showed increased growth that correlated with pollutant concentration. For light crude oil, at a higher contaminant percentage, the R3 strain showed increased growth; however, in the case of diesel, no growth was detected. The aforementioned data indicate that M. petrolearium strain R3, isolated from local sources, has potential use as a tool for hydrocarbon-contaminated soil bioremediation.

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“…Functional traits with relevance for the soil environment include decomposition of organic matter, nutrient cycling, and maintenance of soil fertility. In particular, the community members play an important role in nitrogen fixation (Paenibacillus sabinae, Pseudomonas stutzeri, Rhizobium etli, Xanthobacter autotrophicus), are involved in bioremediation of different components like phenols (Arthrobacter chlorophenolicus (Westerberg et al 2000)), polychlorinated biphenyl (PCB) (Burkholderia xenovorans (Liang et al 2014)), polycyclic aromatic hydrocarbons (PAHs) (Pseudomonas stutzeri (Singh et al 2017)) and halogenated hydrocarbons (Xanthobacter autotrophicus). We added Escherichia coli as non-soilborne species to the community as E. coli often ends up in the environment as faecal contaminant (Brennan et al 2010).…”

Section: Introductionmentioning

confidence: 99%

Bacterial community response to species overrepresentation or omission is strongly influenced by life in spatially structured habitats

Tecon

2021

Preprint

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Variations in type and strength of interspecific interactions in natural bacterial communities (e.g., synergistic to inhibitory) affect species composition and community functioning. The extent of interspecific interactions is often modulated by environmental factors that constrain diffusion pathways and cell mobility and limit community spatial arrangement. We studied how spatially structured habitats affect interspecific interactions and influence the resulting bacterial community composition. We used a bacterial community made of 11 well-characterized species that grew in porous habitats (comprised of glass beads) under controlled hydration conditions or in liquid habitats. We manipulated the initial community composition by overrepresenting or removing selected members, and observed community composition over time. Life in porous media reduced the number and strength of interspecific interactions compared to mixed liquid culture, likely due to spatial niche partitioning in porous habitats. The community converged to similar species composition irrespective of the initial species mix, however, the dominant bacterial species was markedly different between liquid culture and structured porous habitats. Moreover, differences in water saturation levels of the porous medium affected community assembly highlighting the need to account for habitat structure and physical conditions to better understand and interpret assembly of bacterial communities. We point at the modulation of bacterial interactions due to spatial structuring as a potential mechanism for promoting community stability and species coexistence, as observed in various natural environments such as soil or human gut.ImportanceBacteria live as complex multispecies communities essential for healthy and functioning ecosystems ranging from soil to the human gut. The bacterial species that form these communities can have positive or negative impact on each other, promoting or inhibiting each other’s growth. Yet, the factors controlling the balance of such interactions in nature, and how these influence the community, are not fully understood. Here, we show that bacterial interactions are modified by life in spatially structured bacterial habitats. These conditions exert important control over the resulting bacterial community regardless of initial species composition. The study demonstrates limitations of inferences from bacterial communities grown in liquid culture relative to behaviour in structured natural habitats such as soil.

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Optimization of conditions for polycyclic aromatic hydrocarbons (PAHs) degradation by Pseudomonas stutzeri P2 isolated from Chirimiri coal mines

Cited by 49 publications

References 65 publications

Genomic Analysis of Pseudomonas sp. Strain SCT, an Iodate-Reducing Bacterium Isolated from Marine Sediment, Reveals a Possible Use for Bioremediation

Genomic Analysis of Pseudomonas sp. Strain SCT, an Iodate-Reducing Bacterium Isolated from Marine Sediment, Reveals a Possible Use for Bioremediation

CHARACTERIZATION OF A Microbacterium sp. STRAIN ISOLATED FROM SOILS CONTAMINATED WITH HYDROCARBONS IN THE BURGOS BASIN, MEXICO

Bacterial community response to species overrepresentation or omission is strongly influenced by life in spatially structured habitats

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