Enhancing Chlorobenzene Biodegradation by Delftia tsuruhatensis Using a Water-Silicone Oil Biphasic System

A comprehensive review and perspective research in technology integration for the treatment of gaseous volatile organic compounds

Volatile organic compounds (VOCs) are harmful pollutants emitted from industrial processes. They pose a risk to human health and ecosystems, even at low concentrations. Controlling VOCs is crucial for good air quality. This review aims to provide a comprehensive understanding of the various methods used for controlling VOC abatement. The advancement of mono-functional treatment techniques, including recovery such as absorption, adsorption, condensation, and membrane separation, and destruction-based methods such as natural degradation methods, advanced oxidation processes, and reduction methods were discussed. Among these methods, advanced oxidation processes are considered the most effective for removing toxic VOCs, despite some drawbacks such as costly chemicals, rigorous reaction conditions, and the formation of secondary chemicals. Standalone technologies are generally not sufficient and do not perform satisfactorily for the removal of hazardous air pollutants due to the generation of innocuous end products. However, every integration technique complements superiority and overcomes the challenges of standalone technologies. For instance, by using catalytic oxidation, catalytic ozonation, non-thermal plasma, and photocatalysis pretreatments, the amount of bioaerosols released from the bioreactor can be significantly reduced, leading to effective conversion rates for non-polar compounds, and opening new perspectives towards promising techniques with countless benefits. Interestingly, the three-stage processes have shown efficient decomposition performance for polar VOCs, excellent recoverability for nonpolar VOCs, and promising potential applications in atmospheric purification. Furthermore, the review also reports on the evolution of mathematical and artificial neural network modeling for VOC removal performance. The article critically analyzes the synergistic effects and advantages of integration. The authors hope that this article will be helpful in deciding on the appropriate strategy for controlling interested VOCs.

Biofiltration of toluene in the presence of ethyl acetate or n-hexane: Performance and microbial community

This study describes the operation of two independent parallel laboratory-scale biotrickling filters (BTFs) to degrade different types of binary volatile organic compound (VOC) mixtures. Comparison experiments were conducted to evaluate the effects of two typical VOCs, i.e., ethyl acetate (a hydrophilic VOC) and n-hexane (a hydrophobic VOC) on the removal performance of toluene (a moderately hydrophobic VOC) in BTFs ''A" and ''B", respectively. Experiments were carried out by stabilizing the toluene concentration at 1.64 g m-3 and varying the concentrations of gas-phase ethyl acetate (0.85-2.8 g m-3) and n-hexane (0.85-2.8 g m-3) at an empty bed residence time (EBRT) of 30 s. In the presence of ethyl acetate (850 ± 55 mg m-3), toluene exhibited the highest removal efficiency (95.4 ± 2.2%) in BTF "A". However, the removal rate of toluene varied from 48.1 ± 6.9% to 70.1 ± 6.8% when 850 ± 123 mg m-3 to 2800 ± 136 mg m-3 of n-hexane was introduced into BTF "B". The high-throughput sequencing data revealed that the genera Pseudomonas and Comamonadaceae_unclassified are the core microorganisms responsible for the degradation of toluene. The intensity of the inhibitory or synergistic effects on toluene removal was influenced by the type and concentration of the introduced VOC, as well as the number and activity of the genera Pseudomonas and Comamonadaceae_unclassified. It provides insights into the interaction between binary VOCs during biofiltration from a microscopic perspective.

Reduction characteristic of chlorobenzene by a newly isolated Paenarthrobacter ureafaciens LY from a pharmaceutical wastewater treatment plant

A highly efficient chlorobenzene-degrading strain was isolated from the sludge of a sewage treatment plant associated with a pharmaceutical company. The strain exhibited a similarity of over 99.9% with multiple strains of Paenarthrobacter ureafaciens. Therefore, the strain was suggested to be P. ureafaciens LY. This novel strain exhibited a broad spectrum of pollutant degradation capabilities, effectively degrading chlorobenzene and other organic pollutants, such as 1, 2, 4-trichlorobenzene, phenol, and xylene. Moreover, P. ureafaciens LY co-metabolized mixtures of chlorobenzene with 1, 2, 4-trichlorobenzene or phenol. Evaluation of its degradation efficiency showed that it achieved an impressive degradation rate of 94.78% for chlorobenzene within 8 h. The Haldane-Andrews model was used to describe the growth of P. ureafaciens LY under specific pollutants and its concentrations, revealing a maximum specific growth rate (μmax ) of 0.33 h-1 . The isolation and characterization of P. ureafaciens LY, along with its ability to degrade chlorobenzene, provides valuable insights for the development of efficient and eco-friendly approaches to mitigate chlorobenzene contamination. Additionally, investigation of the degradation performance of the strain in the presence of other pollutants offers important information for understanding the complexities of co-metabolism in mixed-pollutant environments.

Genomic analysis of multidrug-resistant Delftia tsuruhatensis isolated from raw bovine milk

Delftia tsuruhatensis is a gram-negative, aerobic bacterium mostly known as an organic pollutant degrading and growth-promoting microorganism. However, it recently emerged as an opportunistic human pathogen. To date, the source of D. tsuruhatensis infection is not clear. The majority of studies of D. tsuruhatensis have focused on environmental or clinical strains, while investigations of D. tsuruhatensis strains isolated from food sources are limited. In the present study, we report the case of D. tsuruhatensis isolation from raw bovine milk. Classical bacteriology approaches, as well as next-generation sequencing and comparative genomics, were used to characterize the features of the D. tsuruhatensis MR-6/3H strain. The MR-6/3H strain was resistant to 19 antimicrobials among 23 tested, including all aminoglycosides, phenicol, trimethoprim-sulfamethoxazole, and almost all β-lactams. Phylogenetically, the MR-6/3H was close to clinical origin strains, including those previously isolated in Russia. Comparative genomics revealed the presence of putative antimicrobial resistance genes in the MR-6/3H isolate, mostly associated with efflux systems. Notably, genus-specific OXA-926-like β-lactamase was also detected. In all, 27 putative virulence factors were predicted, the majority of which were associated with motility, adherence, stress survival, siderophore synthesis, and immunomodulation. In the MR-6/3H genome, the five prophage regions were identified, including two with intact levels. Integrons and CRISPR-Cas systems were not detected in the MR-6/3H isolate. Thus, our findings suggest that raw milk can be the potential source of and transmission route for the dissemination of multidrug-resistant D. tsuruhatensis.

Potential for the anaerobic oxidation of benzene and naphthalene in thermophilic microorganisms from the Guaymas Basin

Unsubstituted aromatic hydrocarbons (UAHs) are recalcitrant molecules abundant in crude oil, which is accumulated in subsurface reservoirs and occasionally enters the marine environment through natural seepage or human-caused spillage. The challenging anaerobic degradation of UAHs by microorganisms, in particular under thermophilic conditions, is poorly understood. Here, we established benzene- and naphthalene-degrading cultures under sulfate-reducing conditions at 50°C and 70°C from Guaymas Basin sediments. We investigated the microorganisms in the enrichment cultures and their potential for UAH oxidation through short-read metagenome sequencing and analysis. Dependent on the combination of UAH and temperature, different microorganisms became enriched. A Thermoplasmatota archaeon was abundant in the benzene-degrading culture at 50°C, but catabolic pathways remained elusive, because the archaeon lacked most known genes for benzene degradation. Two novel species of Desulfatiglandales bacteria were strongly enriched in the benzene-degrading culture at 70°C and in the naphthalene-degrading culture at 50°C. Both bacteria encode almost complete pathways for UAH degradation and for downstream degradation. They likely activate benzene via methylation, and naphthalene via direct carboxylation, respectively. The two species constitute the first thermophilic UAH degraders of the Desulfatiglandales. In the naphthalene-degrading culture incubated at 70°C, a Dehalococcoidia bacterium became enriched, which encoded a partial pathway for UAH degradation. Comparison of enriched bacteria with related genomes from environmental samples indicated that pathways for benzene degradation are widely distributed, while thermophily and capacity for naphthalene activation are rare. Our study highlights the capacities of uncultured thermophilic microbes for UAH degradation in petroleum reservoirs and in contaminated environments.

A synergistic platform enables co-oxidation of halogenated organic pollutants without input of organic primary substrate

While co-oxidation is widely used to biodegrade halogenated organic pollutants (HOPs), a considerable amount of organic primary substrate is required. Adding organic primary substrates increases the operating cost and also leads to extra carbon dioxide release. In this study, we evaluated a two-stage Reduction and Oxidation Synergistic Platform (ROSP), which integrated catalytic reductive dehalogenation with biological co-oxidation for HOPs removal. The ROSP was a combination of an H₂-based membrane catalytic-film reactor (H_2-MCfR) and an O₂-based membrane biofilm reactor (O_2-MBfR). 4-chlorophenol (4-CP) was used as a model HOP to evaluate the performance of ROSP. In the MCfR stage, zero-valent palladium nanoparticles (Pd⁰NPs) catalyzed reductive hydrodechlorination that converted 4-CP to phenol, with a conversion yield over 92%. In the MBfR stage, the phenol was oxidized and used as a primary substrate that supported the co-oxidation of residual 4-CP. Genomic DNA sequencing revealed that phenol produced from 4-CP reduction enriched bacteria having genes for functional enzymes for phenol biodegradation in the biofilm community. In the ROSP, over 99% of 60 mg/L 4-CP was removed and mineralized during continuous operation: Effluent 4-CP and chemical oxygen demand concentrations were below 0.1 and 3 mg/L, respectively. H₂ was the only added electron donor to the ROSP, which means no extra carbon dioxide was produced by primary-substrate oxidation.

Are Si-C bonds cleaved by microorganisms? A critical review on biodegradation of methylsiloxanes

Methylsiloxanes, compounds that contain H₃C-Si-O subunits in their molecular structure, are emerging ubiquitous pollutants now detected in many environmental compartments. These compounds and generally Si-C bonds do not occur in living nature, but are industrially produced worldwide in millions of tons per annum and are widely used, resulting in their release to the environment. It is an open question whether or to what extent microorganisms are able to decompose these compounds. The presence of methylsiloxanes in many biogases adds to the economic relevance of this question. We here review and critically discuss, for the first time, the evidence obtained for and against degradation of methylsiloxanes by microorganisms, and in particular for microbial cleavage of Si-CH₃ bonds. As a result, no convincing demonstration of Si-C cleavage by native environmental microorganisms has been found.

Super enhancement of methanethiol biodegradation by new isolated Pseudomonas sp. coupling silicone particles

A new strain, Pseudomonas sp. SJ-1, which was able to remove model odorous organics methanethiol (MT) has been isolated from the wastewater treatment plant and identified via 16S rRNA analysis. Initial MT concentration, temperature and pH played an important role in MT removal, and up to 100% of 260 mg L^-1 of MT could be removed within 11 h under the optimum conditions (30 °C, pH 7.0) with an average degradation rate of 23.6 mg L^-1 h^-1, which was the highest one in literature so far. The silicone particles were added as the non-aqueous phases (NAP) to enhance the performance of MT degradation. The results indicated that the maximum degradation rate and specific cell growth of strain SJ-1 were 2.36 times and 1.31 times by Haldane kinetic model analysis in the NAP added test. The SO₄^2- was identified as the major intermediate and CO₂ as a final product in MT biodegradation. Overall, this is the first report that a newly isolated Pseudomonas sp. could use high concentration MT as sole energy source and carbon source and its activity could be enhanced by adding NAP. The results provide a suggestion for the development of more effective and reliable biological treatment processes.

Pan-Genome Analysis of Delftia tsuruhatensis Reveals Important Traits Concerning the Genetic Diversity, Pathogenicity, and Biotechnological Properties of the Species

Delftia tsuruhatensis strains have long been known to promote plant growth and biological control. Recently, it has become an emerging opportunistic pathogen in humans. However, the genomic characteristics of the genetic diversity, pathogenicity, and biotechnological properties have not yet been comprehensively investigated. Here, a comparative pan-genome analysis was constructed. The open pan-genome with a large and flexible gene repertoire exhibited a high degree of genetic diversity. The purifying selection was the main force to drive pan-genome evolution. Significant differences were observed in the evolutionary relationship, functional enrichment, and degree of selective pressure between the different components of the pan-genome. A high degree of genetic plasticity was characterized by the determinations of diverse mobile genetic elements (MGEs), massive genomic rearrangement, and horizontal genes. Horizontal gene transfer (HGT) plays an important role in the genetic diversity of this bacterium and the formation of genomic traits. Our results revealed the occurrence of diverse virulence-related elements associated with macromolecular secretion systems, virulence factors associated with multiple nosocomial infections, and antimicrobial resistance, indicating the pathogenic potential. Lateral flagellum, T1SS, T2SS, T6SS, Tad pilus, type IV pilus, and a part of virulence-related genes exhibited general properties, whereas polar flagellum, T4SS, a part of virulence-related genes, and resistance genes presented heterogeneous properties. The pan-genome also harbors abundant genetic traits related to secondary metabolism, carbohydrate active enzymes (CAZymes), and phosphate transporter, indicating rhizosphere adaptation, plant growth promotion, and great potential uses in agriculture and biological control. This study provides comprehensive insights into this uncommon species from the genomic perspective.

IMPORTANCED. tsuruhatensis is considered a plant growth-promoting rhizobacterium (PGPR), an organic pollutant degradation strain, and an emerging opportunistic pathogen to the human. However, the genetic diversity, the evolutionary dynamics, and the genetic basis of these remarkable traits are still little known. We constructed a pan-genome analysis for D. tsuruhatensis and revealed extensive genetic diversity and genetic plasticity exhibited by open pan-genome, diverse mobile genetic elements (MGEs), genomic rearrangement, and horizontal genes. Our results highlight that horizontal gene transfer (HGT) and purifying selection are important forces in D. tsuruhatensis genetic evolution. The abundant virulence-related elements associated with macromolecular secretion systems, virulence factors, and antimicrobial resistance could contribute to the pathogenicity of this bacterium. Therefore, clinical microbiologists need to be aware of D. tsuruhatensis as an opportunistic pathogen. The genetic profiles of secondary metabolism, carbohydrate active enzymes (CAZymes), and phosphate transporter could provide insight into the genetic armory of potential applications for agriculture and biological control of D. tsuruhatensis in general.

Genomic Analysis of Delftia tsuruhatensis Strain TR1180 Isolated From A Patient From China With In4-Like Integron-Associated Antimicrobial Resistance

Delftia tsuruhatensis has become an emerging pathogen in humans. There is scant information on the genomic characteristics of this microorganism. In this study, we determined the complete genome sequence of a clinical D. tsuruhatensis strain, TR1180, isolated from a sputum specimen of a female patient in China in 2019. Phylogenetic and average nucleotide identity analysis demonstrated that TR1180 is a member of D. tsuruhatensis. TR1180 exhibited resistance to β-lactam, aminoglycoside, tetracycline and sulphonamide antibiotics, but was susceptible to phenicols, fluoroquinolones and macrolides. Its genome is a single, circular chromosome measuring 6,711,018 bp in size. Whole-genome analysis identified 17 antibiotic resistance-related genes, which match the antimicrobial susceptibility profile of this strain, as well as 24 potential virulence factors and a number of metal resistance genes. Our data showed that Delftia possessed an open pan-genome and the genes in the core genome contributed to the pathogenicity and resistance of Delftia strains. Comparative genomics analysis of TR1180 with other publicly available genomes of Delftia showed diverse genomic features among these strains. D. tsuruhatensis TR1180 harbored a unique 38-kb genomic island flanked by a pair of 29-bp direct repeats with the insertion of a novel In4-like integron containing most of the specific antibiotic resistance genes within the genome. This study reports the findings of a fully sequenced genome from clinical D. tsuruhatensis, which provide researchers and clinicians with valuable insights into this uncommon species.

Enrichment and characterization of an effective hexavalent chromium-reducing microbial community YEM001

Chromium (Cr) is one of the most widely used heavy metals in industrial processes, resulting in water and soil pollution that seriously threaten environmental safety. In this paper, we have directionally enriched a Cr(VI)-reducing bacterial community YEM001 from no-Cr(VI) polluted pond sedimental sludge by selectively growing it in Cr(VI)-containing media. This community could effectively reduce Cr(VI) in laboratory rich media containing different concentrations of Cr(VI), such as 61% reduction at 435 mg/L Cr(VI), 85% reduction at 355 mg/L Cr(VI), and complete reduction at 269 mg/L Cr(VI) in 93.5 h. It was also able to completely reduce 100 mg/L and 300 mg/L Cr(VI) in landfill leachate and natural sludge in 48 h, respectively. Optimal pH for Cr(VI) reduction of the YEM001 is between 7 and 8 and the best efficiency for Cr(VI) reduction occurs at 30 °C. Metagenomic data demonstrated that the YEM001 community was composed of multiple bacteria, including well-known Cr(VI)-reducing bacteria and non-Cr(VI)-reducing bacteria. Delftia, Comamonas, Alicycliphilus, Acidovorax, Bacillus, and Clostridioides account for 83% of total community abundance. The stability of the composition of the YEM001 community and its Cr(VI)-reducing activity allows for its application in bioremediation of environmental Cr(VI) pollution.

Comparative assessment of two biotrickling filters for siloxanes removal: Effect of the addition of an organic phase

Biogas produced at wastewater treatment plants and landfills contains trace levels of volatile methyl siloxanes (VMS) that are responsible for abrasion, corrosion and erosion of equipment during biogas storage and combustion. This research comparatively evaluated the removal of the most common VMS (L2, L3, D4, and D5) under aerobic conditions in a conventional biotrickling filter (BTF) and a two-phase partitioning BTF (TP-BTF) with silicone oil (at 30%) as organic phase. The TP-BTF showed a superior performance compared to the conventional BTF, increasing the total VMS removal from <30% in the BTF up to ∼70% in the TP-BTF. The highest REs in the TP-BTF were recorded for D4 and D5, reaching values of 80-90%, corresponding to ECs between 0.12 and 0.17 g m^-3.h^-1. Slightly lower values were obtained for L3 (70-80%), and the lowest performance was recorded for L2 (20-60%) due to the high vapor pressure of this siloxane and therefore its lower affinity by the organic phase. Surprisingly, despite the different inocula used, a similar microbial community was found by the end of operation of both BTFs, with KMBC-112, Reynarella and Chitinophaga as the dominant genera.

A review and perspective of recent research in biological treatment applied in removal of chlorinated volatile organic compounds from waste air

Chlorinated volatile organic compounds (Cl-VOCs) waste air is a kind of typical recalcitrant organic compounds, which poses a great threat to the ecological environment and human health. At present, the biotechnology is considered as a potential strategy for the Cl-VOCs removal due to the advantages of low energy consumption and less possibility of secondary pollution. This work summarizes the recent researches on strains, bioreactors and technology integration. The dominant pure strains for biodegradation of Cl-VOCs are first outlined with a special focus on the co-metabolism of multi-components. It then summarizes two bioreactors (optimized airlift reactor (ALR) and two-phase partitioning bioreactor (TPPB)) and strategy (addition of surfactant) for improvement of biotrickling filter (BTF), which are benefit to achieve the mass transfer enhancement in the removal of hydrophobic Cl-VOCs from waste air. After that, the integration technologies, such as magnetic field (MF)-BTF, non-thermal plasma (NTP)/ultraviolet light (UV)-BTF, and microbial electrolytic cells (MEC), are elucidated, which provide opportunities for complete mineralization of Cl-VOCs in a more efficient, energy-saving and economical way. Finally, current challenges and a perspective of future research on biotechnology for Cl-VOCs removal are thoroughly discussed.