High-efficient and sustainable biodegradation of microcystin-LR using Sphingopyxis sp. YF1 immobilized Fe3O4@chitosan

Mitigation of uranium toxicity in rice by Sphingopyxis sp. YF1: Evidence from growth, ultrastructure, subcellular distribution, and physiological characteristics

Uranium (U) contamination of rice is an urgent ecological and agricultural problem whose effective alleviation is in great demand. Sphingopyxis genus has been shown to remediate heavy metal-contaminated soils. Rare research delves into the mitigation of uranium (U) toxicity to rice by Sphingopyxis genus. In this study, we exposed rice seedlings for 7 days at U concentrations of 0, 10, 20, 40, and 80 mg L-1 with or without the Sphingopyxis sp. YF1 in the rice nutrient solution. Here, we firstly found YF1 colonized on the root of rice seedlings, significantly mitigated the growth inhibition, and counteracted the chlorophyll content reduction in leaves induced by U. When treated with 1.1 × 107 CFU mL-1 YF1 with the amendment of 10 mg L-1 U, the decrease of U accumulation in rice seedling roots and shoots was the largest among all treatments; reduced by 39.3% and 32.1%, respectively. This was associated with the redistribution of the U proportions in different organelle parts, leading to the alleviation of the U damage to the morphology and structure of rice root. Interestingly, we found YF1 significantly weakens the expression of antioxidant enzymes genes (CuZnSOD,CATA,POD), promotes the up-regulation of metal-transporters genes (OsHMA3 and OsHMA2), and reduces the lipid peroxidation damage induced by U in rice seedlings. In summary, YF1 is a plant-probiotic with potential applications for U-contaminated rice, benefiting producers and consumers.

Biodegradation of the cyanobacterial toxin anatoxin-a by a Bacillus subtilis strain isolated from a eutrophic lake in Saudi Arabia

Anatoxin-a (ATX-a) is a neurotoxin produced by some species of cyanobacteria. Due to its water solubility and stability in natural water, it could pose health risks to human, animals, and plants. Conventional water treatment techniques are not only insufficient for the removal of ATX-a, but they also result in cell lysis and toxin release. The elimination of this toxin through biodegradation may be a promising strategy. This study examines for the first time the biodegradation of ATX-a to a non-toxic metabolite (Epoxy-ATX-a) by a strain of Bacillus that has a history of dealing with toxic cyanobacteria in a eutrophic lake. The Bacillus strain AMRI-03 thrived without lag phase in a lake water containing ATX-a. The strain displayed fast degradation of ATX-a, depending on initial toxin concentration. At the highest initial concentrations (50 & 100 µg L- 1), total ATX-a degradation took place in 4 days, but it took 6 & 7 days at lower concentrations (20, 10, and 1 µg L- 1, respectively). The ATX-a biodegradation rate was also influenced by the initial toxin concentration, reaching its maximum value (12.5 µg L- 1 day- 1) at the highest initial toxin concentrations (50 & 100 µg L- 1). Temperature and pH also had an impact on the rate of ATX-a biodegradation, with the highest rates occurring at 25 and 30 ºC and pH 7 and 8. This nontoxic bacterial strain could be immobilized within a biofilm on sand filters and/or sludge for the degradation and removal of ATX-a and other cyanotoxins during water treatment processes, following the establishment of mesocosm experiments to assess the potential effects of this bacterium on water quality.

Comparative genomic analysis and functional investigations for MCs catabolism mechanisms and evolutionary dynamics of MCs-degrading bacteria in ecology

Microcystins (MCs) significantly threaten the ecosystem and public health. Biodegradation has emerged as a promising technology for removing MCs. Many MCs-degrading bacteria have been identified, including an indigenous bacterium Sphingopyxis sp. YF1 that could degrade MC-LR and Adda completely. Herein, we gained insight into the MCs biodegradation mechanisms and evolutionary dynamics of MCs-degrading bacteria, and revealed the toxic risks of the MCs degradation products. The biochemical characteristics and genetic repertoires of strain YF1 were explored. A comparative genomic analysis was performed on strain YF1 and six other MCs-degrading bacteria to investigate their functions. The degradation products were investigated, and the toxicity of the intermediates was analyzed through rigorous theoretical calculation. Strain YF1 might be a novel species that exhibited versatile substrate utilization capabilities. Many common genes and metabolic pathways were identified, shedding light on shared functions and catabolism in the MCs-degrading bacteria. The crucial genes involved in MCs catabolism mechanisms, including mlr and paa gene clusters, were identified successfully. These functional genes might experience horizontal gene transfer events, suggesting the evolutionary dynamics of these MCs-degrading bacteria in ecology. Moreover, the degradation products for MCs and Adda were summarized, and we found most of the intermediates exhibited lower toxicity to different organisms than the parent compound. These findings systematically revealed the MCs catabolism mechanisms and evolutionary dynamics of MCs-degrading bacteria. Consequently, this research contributed to the advancement of green biodegradation technology in aquatic ecology, which might protect human health from MCs.

Evaluating microcystinase A-based approach on microcystins degradation during harvested cyanobacterial blooms

Addressing notorious and worldwide Microcystis blooms, mechanical algae harvesting is an effective emergency technology for bloom mitigation and removal of nutrient loads in waterbodies. However, the absence of effective methods for removal of cyanobacterial toxins, e.g., microcystins (MCs), poses a challenge to recycle the harvested Microcystis biomass. In this study, we therefore introduced a novel approach, the "captured biomass-MlrA enzymatic MC degradation", by enriching microcystinase A (MlrA) via fermentation and spraying it onto salvaged Microcystis slurry to degrade all MCs. After storing the harvested Microcystis slurry, a rapid release of extracellular MCs occurred within the initial 8 h, reaching a peak concentration of 5.33 μg/mL at 48 h during the composting process. Upon spraying the recombinant MlrA crude extract (about 3.36 U) onto the Microcystis slurry in a ratio of 0.1% (v/v), over 95% of total MCs were degraded within a 24-h period. Importantly, we evaluated the reliability and safety of using MlrA extracts to degrade MCs. Results showed that organic matter/nutrient contents, e.g. soluble proteins, polysaccharides, phycocyanin and carotenoids, were not significantly altered. Furthermore, the addition of MlrA extracts did not significantly change the bacterial community composition and diversity in the Microcystis slurry, indicating that the MlrA extracts did not increase the risk of pathogenic bacteria. Our study provides an effective and promising method for the pre-treatment of harvested Microcystis biomass, highlighting an ecologically sustainable framework for addressing Microcystis blooms.

Reusable and Practical Biocomposite Based on Sphingopyxis sp. YF1 and Polyacrylonitrile-Based Carbon Fiber for the Efficient Bioremediation of Microcystin-LR-Contaminated Water

Microbial degradation is a cost-effective and environmentally friendly method for removing microcystin-LR (MC-LR). However, the application of free bacteria has limitations due to low operational stability and difficulties in recovery. In a previous study, our group successfully isolated a highly efficient MC-LR-degrading bacterium, Sphingopyxis sp. YF1, from Taihu. To enhance its practical potential in addressing MC-LR-contaminated water pollution, a novel biological material named polyacrylonitrile-based carbon fiber @Sphingopyxis sp. YF1 (PAN-CF@YF1) was synthesized. The immobilization conditions of strain Sphingopyxis sp. YF1 on PAN-CF surfaces were optimized using Box-Behnken design and response surface methodology (RSM), which turned out to be an optimal pH of 7.6 for the culture medium, a ratio of 0.038 g of supporting materials per 100 mL of culture media, and an incubation time of 53.4 h. The resultant PAN-CF@YF1 showed a great degradation effect both for low and high concentrations of MC-LR and exhibited satisfactory cyclic stability (85.75% after six cycles). Moreover, the application of PAN-CF@YF1 in the bioreactors demonstrated effective and sustainable MC-LR removal, with a removal efficiency of 78.83% after three consecutive treatments. Therefore, PAN-CF@YF1 with high degradation activity, environmental compatibility, straightforward preparation, and recyclability shows significant application potential for the bioremediation of MC-LR-contaminated water bodies.

Recent Advances in Optical Sensing for the Detection of Microbial Contaminants

Microbial contaminants are responsible for several infectious diseases, and they have been introduced as important potential food- and water-borne risk factors. They become a global burden due to their health and safety threats. In addition, their tendency to undergo mutations that result in antimicrobial resistance makes them difficult to treat. In this respect, rapid and reliable detection of microbial contaminants carries great significance, and this research area is explored as a rich subject within a dynamic state. Optical sensing serving as analytical devices enables simple usage, low-cost, rapid, and sensitive detection with the advantage of their miniaturization. From the point of view of microbial contaminants, on-site detection plays a crucial role, and portable, easy-applicable, and effective point-of-care (POC) devices offer high specificity and sensitivity. They serve as advanced on-site detection tools and are pioneers in next-generation sensing platforms. In this review, recent trends and advances in optical sensing to detect microbial contaminants were mainly discussed. The most innovative and popular optical sensing approaches were highlighted, and different optical sensing methodologies were explained by emphasizing their advantages and limitations. Consequently, the challenges and future perspectives were considered.

Biodegradation of MC-LR and its key bioactive moiety Adda by Sphingopyxis sp. YF1: Comprehensive elucidation of the mechanisms and pathways

Microcystins (MCs) are harmful to the ecology and public health. Some bacteria can degrade MCs into Adda, but few can destroy Adda. Adda is the key bioactive moiety of MCs and mainly contributes to hepatotoxicity. We had previously isolated an indigenous novel bacterial strain named Sphingopyxis sp. YF1 that can efficiently degrade MCs and its key bioactive moiety Adda, but the mechanisms remained unknown. Here, the biodegradation mechanisms and pathways of Adda were systematically investigated using multi-omics analysis, mass spectrometry and heterologous expression. The transcriptomic and metabolomic profiles of strain YF1 during Adda degradation were revealed for the first time. Multi-omics analyses suggested that the fatty acid degradation pathway was enriched. Specifically, the expression of genes encoding aminotransferase, beta oxidation (β-oxidation) enzymes and phenylacetic acid (PAA) degradation enzymes were significantly up-regulated during Adda degradation. These enzymes were further proven to play important roles in the biodegradation of Adda. Simultaneously, some novel potential degradation products of Adda were identified successfully, including 7‑methoxy-4,6-dimethyl-8-phenyloca-2,4-dienoic acid (C₁₇H₂₂O₃), 2-methyl-3‑methoxy-4-phenylbutyric acid (C₁₂H₁₆O₃) and phenylacetic acid (PAA, C₈H₈O₂). In summary, the Adda was converted into PAA through aminotransferase and β-oxidation enzymes, then the PAA was further degraded by PAA degradation enzymes, and finally to CO₂ via the tricarboxylic acid cycle. This study comprehensively elucidated the novel MC-LR biodegradation mechanisms, especially the new enzymatic pathway of Adda degradation. These findings provide a new perspective on the applications of microbes in the MCs polluted environment.

Immobilization of Microbes for Biodegradation of Microcystins: A Mini Review

Harmful cyanobacterial blooms (HCBs) frequently occur in eutrophic freshwater ecosystems worldwide. Microcystins (MCs) are considered to be the most prominent and toxic metabolites during HCBs. MCs may be harmful to human and animal health through drinking water and recreational water. Biodegradation is eco-friendly, cost-effective and one of the most effective methods to remove MCs. Many novel MC-degrading bacteria and their potential for MCs degradation have been documented. However, it is a challenge to apply the free MC-degrading bacterial cells in natural environments due to the long-term operational instability and difficult recycling. Immobilization is the process of restricting the mobility of bacteria using carriers, which has several advantages as biocatalysts compared to free bacterial cells. Biological water treatment systems with microbial immobilization technology can potentially be utilized to treat MC-polluted wastewater. In this review article, various types of supporting materials and methods for microbial immobilization and the application of bacterial immobilization technology for the treatment of MCs-contaminated water are discussed. This article may further broaden the application of microbial immobilization technology to the bioremediation of MC-polluted environments.

Methane production from peroxymonosulfate pretreated algae biomass: Insights into microbial mechanisms, microcystin detoxification and heavy metal partitioning behavior

This study investigated the methane production potential of algal biomass by anerobic digestion with the addition of peroxymonosulfate (PMS), the removal of microcystin were analyzed and discussed. The microcystin concentration in the collected algal sludge was 1.20 μg/L in the liquid phase and 1393 μg/g in the algal sludge before anaerobic fermentation. The microcystin concentration decreased to 0.20-0.35 μg/L in the liquid phase and 4.16-11.51 μg/g in the sludge phase after 60 days of digestion. The initial PMS dose and residue microcystin concentration could be simulated with a logarithmic decay model (R² > 0.87). Anaerobic digestion could recover energy from algal source in the form of methane gas, which was not affected in the presence of microcystin, and the microcystin removal rate was >99%. Digestion decreased the total contents of Cd and Zn in the liquid phase and increased the total contents of Cr and Pb in the liquid phase. The microbial community and function prediction results indicated that the PMS0.1 system had the highest methane production, which was attributed to the high abundance of Mechanosaeta (40.52%). This study provides insights into microbial mechanisms, microcystin detoxification and the heavy metal partitioning behavior of the algal biomass during methane production.

A regenerable ion-imprinted magnetic biocomposite for selective adsorption and detection of Pb2+ in aqueous solution

A regenerable ion-imprinted magnetic biocomposite (IIMB) was successfully synthesized for simultaneous removal of Pb²⁺ using Serratia marcescens and carboxymethyl chitosan (CMC) as functional carriers, Pb²⁺ was utilized as the imprinted ion, while Fe₃O₄ served as the magnetic component. The structure and properties of IIMB were characterized by various techniques. The adsorption kinetics, isotherms and thermodynamics were applied to interpret the Pb²⁺ adsorption process on IIMB. The results showed the IIMB possessed prominent uptake ability toward Pb²⁺. The pseudo-second-order kinetic (R² = 0.9989) and Langmuir models (R² = 0.9555) fitted the data well. Adsorption thermodynamics revealed that the adsorption was a spontaneous endothermic reaction. The possible adsorption mechanisms involved physical adsorption, electrostatic attraction and complexing. Moreover, because Pb²⁺ can be specifically and strongly adsorbed on IIMB, a simple method for detection of Pb²⁺ was established by coupling IIMB with flame atomic absorption spectrometry (IIMB-FAAS). The developed IIMB-FAAS assay can sensitively detect Pb²⁺ with a linear range from 5.0 to 500.0 μg/L. The detection limit (LOD) of 0.95 μg/L as well as a quantification limit (LOQ) of 3.20 μg/L were obtained. This work proved that the IIMB could selective and efficient adsorb Pb²⁺, which provided some insights into wastewater treatment, water quality inspection and environmental remediation.

The genus Sphingopyxis: Systematics, ecology, and bioremediation potential - A review

The genus Sphingopyxis was first reported in the year 2001. Phylogenetically, Sphingopyxis is well delineated from other genera Sphingobium, Sphingomonas and Novosphingobium of sphingomonads group, family Sphingomonadaceae of Proteobacteria. To date (at the time of writing), the genus Sphingopyxis comprises of twenty validly published species available in List of Prokaryotic Names with Standing in Nomenclature. Sphingopyxis spp. have been isolated from diverse niches including, agricultural soil, marine and fresh water, caves, activated sludge, thermal spring, oil and pesticide contaminated soil, and heavy metal contaminated sites. Sphingopyxis species have drawn considerable attention not only for their ability to survive under extreme environments, but also for their potential to degrade number of xenobiotics and other environmental contaminants that impose serious threat to human health. At present, genome sequence of both cultivable and non-cultivable strains (metagenome assembled genome) are available in the public databases (NCBI) and genome wide studies confirms the presence of mobile genetic elements and plethora of degradation genes and pathways making them a potential candidate for bioremediation. Beside genome wide predictions there are number of experimental evidences confirm the degradation potential of bacteria belonging to genus Sphingopyxis and also the production of different secondary metabolites that help them interact and survive in their ecological niches. This review provides detailed information on ecology, general characteristic and the significant implications of Sphingopyxis species in environmental management along with the bio-synthetic potential.

Microcystinase - a review of the natural occurrence, heterologous expression, and biotechnological application of MlrA

Microcystinase (MlrA) was first described in 1996. Since then MlrA peptidase activity has proven to be both the most efficient enzymatic process and the most specific catalyst of all known microcystins detoxification pathways. Furthermore, MlrA and the MlrABC degradation pathway are presently the only enzymatic processes with clear genetic and biochemical descriptions available for microcystins degradation, greatly facilitating modern applied genetics for any relevant technological development. Recently, there has been increasing interest in the potential of sustainable, biologically inspired alternatives to current industrial practice, with note that biological microcystins degradation is the primary detoxification process found in nature. While previous reviews have broadly discussed microbial biodegradation processes, here we present a review focused specifically on MlrA. Following a general overview, we briefly highlight the initial discovery and present understanding of the MlrABC degradation pathway, before discussing the genetic and biochemical aspects of MlrA. We then review the potential biotechnology applications of MlrA in the context of available literature with emphasis on the optimization of MlrA for in situ applications including (i) direct modulation of Mlr activity within naturally existing populations, (ii) bioaugmentation of systems with introduced biodegradative capacity via whole cell biocatalysts, and (iii) bioremediation via direct MlrA application.

Cu/Au/Pt trimetallic nanoparticles coated with DNA hydrogel as target-responsive and signal-amplification material for sensitive detection of microcystin-LR

Sensitive and reliable analytical methods for monitoring of microcystin-LR (MC-LR) are urgently necessary due to its great harm to human health and aquatic organisms. In this work, a novel Cu/Au/Pt trimetallic nanoparticles (Cu/Au/Pt TNs)-encapsulated DNA hydrogel was prepared for colorimetric detection of MC-LR. The Cu/Au/Pt TNs were captured and released with precise control by the target-responsive 3D DNA hydrogels, which combined dual advantages of the target responsive DNA hydrogel and Cu/Au/Pt TNs of enhanced peroxidase-like activity. The DNA hydrogel network was constructed by hybridizing MC-LR aptamer with two complementary DNA strands on linear polyacrylamide chains. As long as MC-LR presented, the aptamer competitively binds with the MC-LR, causing the hydrogel to dissolve and release the preloaded Cu/Au/Pt TNs which could catalyze the reaction between H₂O₂ and TMB to produce color changes. In view of this sensitive strategy, this Cu/Au/Pt TNs-encapsulated DNA hydrogel-based colorimetric biosensor can achieve quantitative determination of MC-LR. The results showed that as-proposed colorimetric biosensor could sensitively detect MC-LR with a linear range of 4.0-10000 ng L^-1 and a detection limit of 3.0 ng L^-1. This work proved that the sensor had great potential to be applied in MC-LR detection and also provided the opportunity to develop colorimetric biosensor for other targets using this target-responsive and signal-amplification strategy.

Biodegradation of microcystin-RR and nutrient pollutants using Sphingopyxis sp. YF1 immobilized activated carbon fibers-sodium alginate

A novel biological material named activated carbon fibers-sodium alginate@Sphingopyxis sp. YF1 (ACF-SA@YF1) was synthesized for microcystin-RR (MC-RR) and nutrient pollutant degradation in eutrophic water. The synthesized biomaterial was characterized by scanning electron microscopy (SEM). Box-Behnken design and response surface methodology (RSM) were utilized for the optimization of conditions during the MC-RR degradation. The degradation of MC-RR and nutrient pollutants was dynamically detected. The results revealed that the optimal conditions were temperature 32.51 °C, pH 6.860, and inoculum 14.97%. The removal efficiency of MC-RR, nitrogen, phosphorus, and chemical oxygen demand were 0.76 μg/mL/h, 32.45%, 94.57%, and 64.07%, respectively. In addition, ACF-SA@YF1 also performed satisfactory cyclic stability, while the MC-RR removal efficiency was 70.38% after seven cycles and 78.54% of initial activity after 20 days of storage. Therefore, it is reasonable to believe that ACF-SA@YF1 is an effective material which has a great prospect in removing MC-RR and nutrients from freshwater ecosystems.

Aromatic hydrocarbon compound degradation of phenylacetic acid by indigenous bacterial Sphingopyxis isolated from Lake Taihu

The aromatic compound phenylacetic acid (PAA) is present in the environment, and released in the catabolism of phenylalanine, 2-phenylethylamine, or environmental contaminants such as ethylbenzene and styrene. PAA was also proposed to be involved in human chronic kidney disease development. Several bacteria and fungi utilize these aromatic acids as sole carbon source either during aerobic or anaerobic conditions. The aromatic structure of PAA makes this compound resistant toward oxidation or reduction, because the stabilizing resonance energy of the aromatic ring system is difficult to overcome. In the case of bacteria that utilize aromatic compounds as growth substrates, the aromatic ring system limits survival due to a lack of carbon source. Sphingopyxis sp. YF1 isolated from Lake Taihu was found to be beneficial in bioremediation of aromatic compounds. This study thus aimed to examine the influence of environmental factors such as temperature, PAA concentration, and pH on the effectiveness of Sphingopyxis sp. YF1 to degrade aromatic compounds using PAA as model compound. Data showed the highest PAA-degrading rate of strain Sphingopyxis sp. YF1 was 7.6 mg/L·h under the condition of 20°C, pH 9 with a 1000 μg/ml concentration of PAA. Evidence indicates that PAA-degrading ability of strain Sphingopyxis sp. YF1 appears to be primarily influenced by the concentration of PAA, followed by temperature and pH. PAA-degrading gene PAAase was identified in this strain using polymerase chain reaction (PCR) method. These results illustrate that the bacteria Sphingopyxis sp. YF1 removes PAA effectively at certain environmental conditions and this proves beneficial in bioremediation of aromatic compounds.

Circular RNA expression profiles following MC-LR treatment in human normal liver cell line (HL7702) cells using high-throughput sequencing analysis

Microcystin-LR (MC-LR), a frequently occurring hepatotoxic cyanotoxin produced by cyanobacterial blooms, poses a great threat to human health. However, the precise molecular mechanisms underlying MC-LR-induced hepatotoxicity remain to be determined. Recent investigators found that in many human diseases circular RNAs (circRNAs) a class of endogenous non-coding RNAs played critical roles in disease outcomes. The aim of this study was to investigate whether circRNAs were involved in MC-LR-mediated hepatotoxicity using human normal liver cell line (HL7702). Using high-throughput sequencing analysis data demonstrated that expression levels of 3250, 3111, 3097, 3253 circRNAs were significantly altered at concentrations ranging from 1 to 10 µM MC-LR. Expression levels of hsa_circRNA_0000657 and hsa_circRNA_0000659 were down-regulated while hsa_circRNA_0003247 and hsa_circRNA_0001535 were up-regulated in all MC-LR-exposed groups. The high-throughput sequencing results of selected circRNAs differential expression genes (DEGs) levels were verified by real-time fluorescent quantitative PCR (qRT-PCR). Gene Ontology (GO) enrichment analysis showed that the functions of circRNAs significantly altered in HL7702 cells were predominantly associated with metabolism, systems development, and protein binding. The Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis data revealed that the target genes of differentially expressed circRNAs in HL7702 cells were involved in FoxO signaling pathway, protein processing in endoplasmic reticulum, Ras signaling pathway, cell cycle, PI3K-Akt signaling pathway, MAPK signaling pathway and pathways in cancer. In summary, evidence indicates that a correlation may exist between circRNAs and MC-LR-induced hepatotoxicity.