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Sahabudin E, Kubo S, Yuzir MAM, Othman N, Nadia Md Akhir F, Suzuki K, Yoneda K, Maeda Y, Suzuki I, Hara H, Iwamoto K. The cadmium tolerance and bioaccumulation mechanism of Tetratostichococcus sp. P1: insight from transcriptomics analysis. Bioengineered 2024; 15:2314888. [PMID: 38375815 DOI: 10.1080/21655979.2024.2314888] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2023] [Accepted: 02/01/2024] [Indexed: 02/21/2024] Open
Abstract
Cadmium (Cd) has become a severe issue in relatively low concentration and attracts expert attention due to its toxicity, accumulation, and biomagnification in living organisms. Cd does not have a biological role and causes serious health issues. Therefore, Cd pollutants should be reduced and removed from the environment. Microalgae have great potential for Cd absorption for waste treatment since they are more environmentally friendly than existing treatment methods and have strong metal sorption selectivity. This study evaluated the tolerance and ability of the microalga Tetratostichococcus sp. P1 to remove Cd ions under acidic conditions and reveal mechanisms based on transcriptomics analysis. The results showed that Tetratostichococcus sp. P1 had a high Cd tolerance that survived under the presence of Cd up to 100 µM, and IC50, the half-maximal inhibitory concentration value, was 57.0 μM, calculated from the change in growth rate based on the chlorophyll content. Long-term Cd exposure affected the algal morphology and photosynthetic pigments of the alga. Tetratostichococcus sp. P1 removed Cd with a maximum uptake of 1.55 mg g-1 dry weight. Transcriptomic analysis revealed the upregulation of the expression of genes related to metal binding, such as metallothionein. Group A, Group B transporters and glutathione, were also found upregulated. While the downregulation of the genes were related to photosynthesis, mitochondria electron transport, ABC-2 transporter, polysaccharide metabolic process, and cell division. This research is the first study on heavy metal bioremediation using Tetratostichococcus sp. P1 and provides a new potential microalga strain for heavy metal removal in wastewater.[Figure: see text]Abbreviations:BP: Biological process; bZIP: Basic Leucine Zipper; CC: Cellular component; ccc1: Ca (II)-sensitive cross complementary 1; Cd: Cadmium; CDF: Cation diffusion facilitator; Chl: Chlorophyll; CTR: Cu TRansporter families; DAGs: Directed acyclic graphs; DEGs: Differentially expressed genes; DVR: Divinyl chlorophyllide, an 8-vinyl-reductase; FPN: FerroportinN; FTIR: Fourier transform infrared; FTR: Fe TRansporter; GO: Gene Ontology; IC50: Growth half maximal inhibitory concentration; ICP: Inductively coupled plasma; MF: molecular function; NRAMPs: Natural resistance-associated aacrophage proteins; OD: Optical density; RPKM: Reads Per Kilobase of Exon Per Million Reads Mapped; VIT1: Vacuolar iron transporter 1 families; ZIPs: Zrt-, Irt-like proteins.
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Affiliation(s)
- Eri Sahabudin
- Department of Chemical and Environmental Engineering, Malaysia-Japan International Institute of Technology, Universiti Teknologi Malaysia, Kuala Lumpur, Malaysia
| | - Shohei Kubo
- Graduate School of Science and Technology, University of Tsukuba, Tsukuba, Ibaraki, Japan
| | - Muhamad Ali Muhammad Yuzir
- Department of Chemical and Environmental Engineering, Malaysia-Japan International Institute of Technology, Universiti Teknologi Malaysia, Kuala Lumpur, Malaysia
| | - Nor'azizi Othman
- Department of Chemical and Environmental Engineering, Malaysia-Japan International Institute of Technology, Universiti Teknologi Malaysia, Kuala Lumpur, Malaysia
| | - Fazrena Nadia Md Akhir
- Department of Chemical and Environmental Engineering, Malaysia-Japan International Institute of Technology, Universiti Teknologi Malaysia, Kuala Lumpur, Malaysia
| | - Kengo Suzuki
- Department of Chemical and Environmental Engineering, Malaysia-Japan International Institute of Technology, Universiti Teknologi Malaysia, Kuala Lumpur, Malaysia
- Euglena Co. Ltd, Minato‑ku, Japan
- Microalgae Production Control Technology Laboratory, Yokohama, Kanagawa, Japan
| | - Kohei Yoneda
- Institute of Life and Environmental Sciences, University of Tsukuba, Tsukuba, Ibaraki, Japan
| | - Yoshiaki Maeda
- Institute of Life and Environmental Sciences, University of Tsukuba, Tsukuba, Ibaraki, Japan
| | - Iwane Suzuki
- Institute of Life and Environmental Sciences, University of Tsukuba, Tsukuba, Ibaraki, Japan
| | - Hirofumi Hara
- Department of Biotechnology, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo-ku, Japan
| | - Koji Iwamoto
- Department of Chemical and Environmental Engineering, Malaysia-Japan International Institute of Technology, Universiti Teknologi Malaysia, Kuala Lumpur, Malaysia
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Wang X, Zhang Y, Sun X, Jia X, Liu Y, Xiao X, Gao H, Li L. Efficient removal of hexavalent chromium from water by Bacillus sp. Y2-7 with production of extracellular polymeric substances. Environ Technol 2024; 45:2698-2708. [PMID: 36847602 DOI: 10.1080/09593330.2023.2185817] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/22/2022] [Accepted: 02/18/2023] [Indexed: 06/18/2023]
Abstract
Bioremediation is an environmentally friendly technology for the treatment of chromium-contaminated sites. Here, a hexavalent chromium [Cr(VI)]-resistant strain was isolated from oil-contaminated soil and designated as Bacillus sp. Y2-7 based on 16S rDNA sequence characterization. The effects of various factors including inoculation dose, pH value, glucose concentration, and temperature on Cr(VI) removal rates were then evaluated. Based on the response surface methodology, optimal Cr(VI) removal efficiency (above 90%) could be achieved at an initial Cr(VI) concentration of 155.0 mg·L-1, glucose concentration of 11.479 g·L-1, and pH of 7.1. The potential removal mechanisms of Cr(VI) by strain Y2-7 were also supposed. The contents of polysaccharide and protein in extracellular polymer (EPS) of strain Y2-7 decreased slowly after cultured with Cr(VI) of 15 mg·L-1 from 1 to 7 days. We thus inferred that EPS bonded with Cr(VI) and underwent morphological changes in water. Molecular operating environment (MOE) analysis suggested that macromolecular protein complexes in Bacillus sp. Y2-7 and hexavalent chromium could establish hydrogen bonds. Collectively, our findings indicate that Bacillus sp. Y2-7 is an excellent bacterial candidate for chromium bioremediation.
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Affiliation(s)
- Xuehan Wang
- College of Safety and Environmental Engineering, Shandong University of Science and Technology, Qingdao, People's Republic of China
| | - Ying Zhang
- College of Safety and Environmental Engineering, Shandong University of Science and Technology, Qingdao, People's Republic of China
| | - Xiaojie Sun
- College of Safety and Environmental Engineering, Shandong University of Science and Technology, Qingdao, People's Republic of China
| | - Xianchao Jia
- College of Safety and Environmental Engineering, Shandong University of Science and Technology, Qingdao, People's Republic of China
| | - Yin Liu
- College of Safety and Environmental Engineering, Shandong University of Science and Technology, Qingdao, People's Republic of China
- Institute of Yellow River Delta Earth Surface Processes and Ecological Integrity, Shandong University of Science and Technology, Qingdao, People's Republic of China
| | - Xinfeng Xiao
- College of Safety and Environmental Engineering, Shandong University of Science and Technology, Qingdao, People's Republic of China
- Institute of Yellow River Delta Earth Surface Processes and Ecological Integrity, Shandong University of Science and Technology, Qingdao, People's Republic of China
| | - Hongge Gao
- College of Safety and Environmental Engineering, Shandong University of Science and Technology, Qingdao, People's Republic of China
- Institute of Yellow River Delta Earth Surface Processes and Ecological Integrity, Shandong University of Science and Technology, Qingdao, People's Republic of China
| | - Lin Li
- College of Safety and Environmental Engineering, Shandong University of Science and Technology, Qingdao, People's Republic of China
- Institute of Yellow River Delta Earth Surface Processes and Ecological Integrity, Shandong University of Science and Technology, Qingdao, People's Republic of China
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Williamson AJ, Binet M, Sergeant C. Radionuclide biogeochemistry: from bioremediation toward the treatment of aqueous radioactive effluents. Crit Rev Biotechnol 2024; 44:698-716. [PMID: 37258417 DOI: 10.1080/07388551.2023.2194505] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2021] [Revised: 10/07/2022] [Accepted: 01/29/2023] [Indexed: 06/02/2023]
Abstract
Civilian and military nuclear programs of several nations over more than 70 years have led to significant quantities of heterogenous solid, organic, and aqueous radioactive wastes bearing actinides, fission products, and activation products. While many physicochemical treatments have been developed to remediate, decontaminate and reduce waste volumes, they can involve high costs (energy input, expensive sorbants, ion exchange resins, chemical reducing/precipitation agents) or can lead to further secondary waste forms. Microorganisms can directly influence radionuclide solubility, via sorption, accumulation, precipitation, redox, and volatilization pathways, thus offering a more sustainable approach to remediation or effluent treatments. Much work to date has focused on fundamentals or laboratory-scale remediation trials, but there is a paucity of information toward field-scale bioremediation and, to a lesser extent, toward biological liquid effluent treatments. From the few biostimulation studies that have been conducted at legacy weapon production/test sites and uranium mining and milling sites, some marked success via bioreduction and biomineralisation has been observed. However, rebounding of radionuclide mobility from (a)biotic scale-up factors are often encountered. Radionuclide, heavy metal, co-contaminant, and/or matrix effects provide more challenging conditions than traditional industrial wastewater systems, thus innovative solutions via indirect interactions with stable element biogeochemical cycles, natural or engineered cultures or communities of metal and irradiation tolerant strains and reactor design inspirations from existing metal wastewater technologies, are required. This review encompasses the current state of the art in radionuclide biogeochemistry fundamentals and bioremediation and establishes links toward transitioning these concepts toward future radioactive effluent treatments.
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Affiliation(s)
| | - Marie Binet
- EDF R&D, LNHE (Laboratoire National d'Hydraulique et Environnement), Chatou, France
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Korkmaz Zirpel N, Usman M, Kim M. REPROGRAMMING FILAMENTOUS FD VIRUSES TO CAPTURE COPPER IONS. Chembiochem 2024:e202400237. [PMID: 38712989 DOI: 10.1002/cbic.202400237] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2024] [Revised: 04/25/2024] [Accepted: 05/07/2024] [Indexed: 05/08/2024]
Abstract
C-terminal truncated variants (A, VA, NVA, ANVA, FANVA and GFANVA) of our recently identified Cu(II) specific peptide "HGFANVA" were displayed on filamentous fd phages. Wild type fd-tet and engineered virus variants were treated with 100 mM Cu(II) solution at a final phage concentration of 1011 vir/ml and 1012 vir/ml. Scanning electron microscopy (SEM) and atomic force microscopy (AFM) imaging before Cu(II) exposure showed » 6-8 nm thick filamentous virus layer formation. Cu(II) treatment resulted in aggregated bundle-like assemblies with mineral deposition. HGFANVA phage formed aggregates with an excessive mineral coverage. As the virus concentration was 10-fold decreased, nanowire-like assemblies were observed for shorter peptide variants A, NVA and ANVA. Wild type fd phages did not show any mineral formation. Energy dispersive X-ray spectroscopy (EDX) analyses revealed the presence of C and N peaks on phage organic material. Cu peak was only detected for engineered viruses. Metal ion binding of viruses was next investigated by enzyme-linked immunosorbent assay (ELISA) analyses. Engineered viruses were able to bind Cu(II) forming mineralized intertwined structures although no His (H) unit was displayed. Such genetically reprogrammed virus based biological materials can be further applied for bioremediation studies to achieve a circular economy.
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Affiliation(s)
- Nuriye Korkmaz Zirpel
- Korea Institute of Science and Technology Europe Forschungsgesellschaft mbH, Campus E 71, Saarbrücken, GERMANY
| | - Muhammad Usman
- Korea Institute of Science and Technology Europe Forschungsgesellschaft mbH, Biosensor, Campus E 7.1, Saarbrücken, GERMANY
| | - Minyoung Kim
- EMBL Heidelberg Genome Biology, Genome Biology Unit, Meyerhofstraße 1, Heidelberg, GERMANY
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Ezenweani RS, Kadiri MO. Evaluating the productivity and bioremediation potential of two tropical marine algae in petroleum hydrocarbon polluted tropical marine water. Int J Phytoremediation 2024; 26:1099-1116. [PMID: 38093707 DOI: 10.1080/15226514.2023.2291115] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/26/2024]
Abstract
Bioremediation using tropical marine algae provides cost effective and eco-friendly alternative mean of removing toxic and harmful substances from the environment. Bioremediation is an important tool in sustainable environmental management and protection. This study examined the productivity and bioremediation potential of Nannochloropsis oculata and Porphyridium cruentum in Water Soluble Fraction (WSF) of petroleum fuels by investigating the growth of Nannochloropsis oculata and Porphyridium cruentum at 0%, 10% 20% 30% 40% 50% 75% 100% of WSF of kerosene, diesel, and gasoline. Growth was monitored optically every two days for fourteen days using 721 Visible Spectrophotometer. Productivity was measured using prescribed procedure. Bioremediation potential of test algae were examined using standard method for the GC analysis of diesel range organics in 100% WSFs. The minimum growth for both species was recorded at 100% in all the fuels. The maximum growth of Porphyridium cruentum was obtained at 10% in all fuels, while the maximum growth of Nannochloropsis oculata was obtained at 30% in both kerosene and gasoline and at 50% in diesel. Whereas Porphyridium cruentum was greatly inhibited by all fuels, Nannochloropsis oculata was stimulated at lower concentration of the fuels. Nannochloropsis oculata proved more efficient for bioremediation of the petroleum fuels with 84.58%, 65.51% and 70.77% removal efficiency for kerosene, diesel and gasoline respectively, while Porphyridium cruentum was 58.94%, 46.64% and 56.67% respectively. Nannochloropsis oculata is a very strong and reliable candidate for bioremediation of petroleum hydrocarbons and should be subjected to further examination for sustainable and eco-friendly remediation of petroleum pollution.
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Affiliation(s)
- Raymond Sunday Ezenweani
- Department of Marine Environment and Pollution Control, Nigeria Maritime University, Okerenkoko, Nigeria
| | - Medina Omo Kadiri
- Department of Plant Biology and Biotechnology, University of Benin, Benin, Nigeria
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Torbati S, Atashbar Kangarloei B, Asalpisheh Z. Fluoranthene biotreatment using prominent freshwater microalgae: physiological responses of microalgae and artificial neural network modeling of the bioremoval process. Int J Phytoremediation 2024; 26:1038-1048. [PMID: 38084668 DOI: 10.1080/15226514.2023.2288900] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/26/2024]
Abstract
Due to the intensified industrial activities and other anthropogenic actions, contamination of polycyclic aromatic hydrocarbons (PAHs) has been growing at an alarming rate, turning in to a serious environmental concern. Bioremediation, as an eco-friendly and sustainable removal technology, can be used by organisms to reduce the resulting contaminations. In the present study, the ability of Tetradesmus obliquus to remove of fluoranthene (FLA) was evaluated. It was confirmed that FLA removal efficiency was managed by various environmental parameters and pH was found to be one of the most important influencial factors. The reusability of the algae in long-term repetitive operations confirmed the occurrence of biodegradation along with other natural attenuation and 10 intermediate compounds were identified in the FLA biodegradation pathway by GC-MS. As a result of physiological assays, induced antioxidant enzymes activities and augmentation of phenol and flavonoids contents, after the treatment of the microalgae by a high concentration of FLA, confirmed the ability of the microalgae to upregulate its antioxidant defense system in response to the toxic effects of FLA. An artificial neural network (ANN) model was then developed to predict FLA biodegradation efficiency and the appropriate predictive performance of ANN was confirmed by comparing the experimental FLA removal efficiency with its predicted amounts (R2 = 0.99).
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Affiliation(s)
- Samaneh Torbati
- Department of Ecology and Aquatic Stocks Management, Artemia and Aquaculture Research Institute, Urmia University, Urmia, Iran
| | - Behrouz Atashbar Kangarloei
- Department of Ecology and Aquatic Stocks Management, Artemia and Aquaculture Research Institute, Urmia University, Urmia, Iran
| | - Zahra Asalpisheh
- Department of Ecology and Aquatic Stocks Management, Artemia and Aquaculture Research Institute, Urmia University, Urmia, Iran
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Hammami H, Mozafarjalali M, Hajiani M. Plant extracts as an eco-friendly approach to remove paraquat from aqueous solution. Int J Phytoremediation 2024; 26:1049-1063. [PMID: 38062787 DOI: 10.1080/15226514.2023.2288903] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/26/2024]
Abstract
Nowadays, water pollution by herbicides is known as a global concern. Paraquat (PQ) (1-1-methyl-4,4-bi-pyridinium-dichloride) is a chip with high performance, which is being widely used herbicide to remove weeds from agricultural and natural ecosystems. PQ can contaminate water sources due to its high solubility in water. Human death by poisoning effects of PQ has been reported in several countries. Therefore, the side effects of PQ are a global challenge. This study aimed to investigate the bioremediation of PQ by plant extracts, as a low-cost, nontoxic, and natural absorbent to remove PQ from aqueous solutions in different conditions. In this regard, the extracts of common purslane (portulaca oleracea), florist kalanchoe (kalanchoe blossfeldiana), and jade plant (crassula portulaca) were used as adsorbents. For this purpose, the effect of various parameters such as contact time, initial concentration of PQ solution, temperature, pH, and amount of extract was investigated. The results of present study showed that P. oleracea extract and C. portulaca extracts have higher adsorption efficiency than k. blossfeldiana extract. The highest PQ removal was obtained by P. oleracea extract (79.04%) and C. portulaca extract (78.72%) at pH = 11, the adsorbent content of 0.2 mg L-1, and the lowest absorption of PQ (50.6%) was obtained by K. blossfeldiana extract. The highest PQ removal by plant extract was observed at 30 min for P. oleracea and C. portulaca, and at 15 min for k. blossfeldiana extract. Moreover, surface absorption capacity increased with increasing plant extract concentration, decreasing PQ concentration and decreased with increasing temperature. Finally, it can be concluded that plant extract can help to remove PQ from the aqueous solution.
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Affiliation(s)
- Hossein Hammami
- Department of Plant Production and Genetic Engineering, Faculty of Agriculture, University of Birjand, Birjand, Iran
- Member of the Plant and Environmental Stresses Research Group, University of Birjand, Birjand, Iran
- Member of the Unconventional Water Research Group, University of Birjand, Birjand, Iran
| | - Maryam Mozafarjalali
- Department of Environmental Engineering, Faculty of Natural Resources and Environment, University of Birjand, Birjand, Iran
| | - Mahmood Hajiani
- Department of Environmental Engineering, Faculty of Natural Resources and Environment, University of Birjand, Birjand, Iran
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Yamaguchi H, Miyazaki M. Bioremediation of Hazardous Pollutants Using Enzyme-Immobilized Reactors. Molecules 2024; 29:2021. [PMID: 38731512 PMCID: PMC11085290 DOI: 10.3390/molecules29092021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2024] [Revised: 04/19/2024] [Accepted: 04/25/2024] [Indexed: 05/13/2024] Open
Abstract
Bioremediation uses the degradation abilities of microorganisms and other organisms to remove harmful pollutants that pollute the natural environment, helping return it to a natural state that is free of harmful substances. Organism-derived enzymes can degrade and eliminate a variety of pollutants and transform them into non-toxic forms; as such, they are expected to be used in bioremediation. However, since enzymes are proteins, the low operational stability and catalytic efficiency of free enzyme-based degradation systems need improvement. Enzyme immobilization methods are often used to overcome these challenges. Several enzyme immobilization methods have been applied to improve operational stability and reduce remediation costs. Herein, we review recent advancements in immobilized enzymes for bioremediation and summarize the methods for preparing immobilized enzymes for use as catalysts and in pollutant degradation systems. Additionally, the advantages, limitations, and future perspectives of immobilized enzymes in bioremediation are discussed.
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Affiliation(s)
- Hiroshi Yamaguchi
- Department of Food and Life Science, School of Agriculture, Tokai University, 871-12 Sugido, Mashiki, Kamimashiki, Kumamoto 861-2205, Japan
- Graduate School of Agriculture, Tokai University, 871-12 Sugido, Mashiki, Kamimashiki, Kumamoto 861-2205, Japan
- Graduate School of Bioscience, Tokai University, 871-12 Sugido, Mashiki, Kamimashiki, Kumamoto 861-2205, Japan
| | - Masaya Miyazaki
- HaKaL Inc., Kurume Research Park, 1488-4 Aikawa, Kurume, Fukuoka 839-0864, Japan;
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Agnez-Lima LF, Vainstein MH, Zhang X. Editorial: Microbial hydrocarbon degradation and bioremediation: from genes to pathways. Front Microbiol 2024; 15:1416516. [PMID: 38737414 PMCID: PMC11082390 DOI: 10.3389/fmicb.2024.1416516] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2024] [Accepted: 04/16/2024] [Indexed: 05/14/2024] Open
Affiliation(s)
- Lucymara Fassarella Agnez-Lima
- Departament of Cellular Biology and Genetics, Center of Biosciences, Federal University of Rio Grande do Norte, Natal, RN, Brazil
| | | | - Xuwang Zhang
- School of Chemical Engineering, Ocean and Life Sciences, Dalian University of Technology, Panjin, China
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Satyapal GK, Haque R, Kumar N. Gamma irradiation in modulating arsenic bioremediation potential of Pseudomonas sp. AK1 and AK9. Int J Radiat Biol 2024:1-6. [PMID: 38657135 DOI: 10.1080/09553002.2024.2345137] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2023] [Accepted: 04/11/2024] [Indexed: 04/26/2024]
Abstract
PURPOSE Present study deals with the role of gamma irradiation in modulating arsenic bioremediation of Pseudomonas sp. AK1 and AK9 strains. MATERIALS AND METHODS The bacterial strains AK1 and AK9 of Pseudomonas sp. were irradiated at different doses (5 Gy, 10 Gy, 15 Gy and 20 Gy) of gamma irradiation. The effect of γ-irradiation on the growth and arsenic modulating ability of AK1 and AK9 strains was determined in the presence and absence of arsenic along with non-irradiated strains. Further, a comparative study of non-irradiated and irradiated strains by protein profiling in absence and presence of arsenic was carried out to confirm of the increased expression ofarsenite oxidase. RESULTS Both strains were able to transform AsIII to AsV. Both strains AK1 and AK9 decrease the arsenic concentration by 626.68 ppb (13.36%) and 686.40 ppb (14.71%) after an incubation period of 96 h in presence of arsenic. Gamma irradiated AK9 strains showed doubled growth in presence of arsenic as compared to non-irradiated strains at 10 Gy treatment whereas no changes in growth was observed in irradiated AK1 strains. Gamma irradiated AK9 strain decrease 378.65 ppb (7.27%) more arsenic concentration from natural water sample supplemented with AsIII than non-irradiated AK9 strain. Further, in the protein profile, increased expression of arsenite oxidase (∼85 kDa) was observed in irradiated AK9 strains in presence of arsenic. CONCLUSIONS Overall, the results suggested that the gamma irradiated AK9 strain having potential for arsenic accumulation and increased arsenite tolerance may play a great role in the bioremediation of the arsenite at arsenic contaminated sites.
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Affiliation(s)
| | - Rizwanul Haque
- Department of Biotechnology, Central University of South Bihar, Gaya, India
| | - Nitish Kumar
- Department of Biotechnology, Central University of South Bihar, Gaya, India
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Zhao S, Liu X, Banerjee S, Hartmann M, Peng B, Elvers R, Zhao ZY, Zhou N, Liu JJ, Wang B, Tian CY, Jiang J, Lian TX. Continuous planting of euhalophyte Suaeda salsa enhances microbial diversity and multifunctionality of saline soil. Appl Environ Microbiol 2024; 90:e0235523. [PMID: 38535171 PMCID: PMC11022556 DOI: 10.1128/aem.02355-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2024] [Accepted: 03/04/2024] [Indexed: 04/18/2024] Open
Abstract
Halophyte-based remediation emerges as a novel strategy for ameliorating saline soils, offering a sustainable alternative to conventional leaching methods. While bioremediation is recognized for its ability to energize soil fertility and structure, the complex interplays among plant traits, soil functions, and soil microbial diversity remain greatly unknown. Here, we conducted a 5-year field experiment involving the continuous cultivation of the annual halophyte Suaeda salsa in saline soils to explore soil microbial diversity and their relationships with plant traits and soil functions. Our findings demonstrate that a decline in soil salinity corresponded with increases in the biomass and seed yield of S. salsa, which sustained a consistent seed oil content of approximately 22% across various salinity levels. Significantly, prolonged cultivation of halophytes substantially augmented soil microbial diversity, particularly from the third year of cultivation. Moreover, we identified positive associations between soil multifunctionality, seed yield, and taxonomic richness within a pivotal microbial network module. Soils enriched with taxa from this module showed enhanced multifunctionality and greater seed yields, correlating with the presence of functional genes implicated in nitrogen fixation and nitrification. Genomic analysis suggests that these taxa have elevated gene copy numbers of crucial functional genes related to nutrient cycling. Overall, our study emphasizes that the continuous cultivation of S. salsa enhances soil microbial diversity and recovers soil multifunctionality, expanding the understanding of plant-soil-microbe feedback in bioremediation.IMPORTANCEThe restoration of saline soils utilizing euhalophytes offers a viable alternative to conventional irrigation techniques for salt abatement and soil quality enhancement. The ongoing cultivation of the annual Suaeda salsa and its associated plant traits, soil microbial diversity, and functionalities are, however, largely underexplored. Our investigation sheds light on these dynamics, revealing that cultivation of S. salsa sustains robust plant productivity while fostering soil microbial diversity and multifunctionality. Notably, the links between enhanced soil multifunctionality, increased seed yield, and network-dependent taxa were found, emphasizing the importance of key microbial taxa linked with functional genes vital to nitrogen fixation and nitrification. These findings introduce a novel understanding of the role of soil microbes in bioremediation and advance our knowledge of the ecological processes that are vital for the rehabilitation of saline environments.
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Affiliation(s)
- Shuai Zhao
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Xu Liu
- Department of Microbiology, College of Life Sciences, Nanjing Agricultural University, Key Laboratory of Agricultural and Environmental Microbiology, Ministry of Agriculture and Rural Affairs, Nanjing, China
| | - Samiran Banerjee
- Department of Microbiological Sciences, North Dakota State University, Fargo, North Dakota, USA
| | - Martin Hartmann
- Sustainable Agroecosystems, Department of Environmental Systems Science, ETH Zurich, Zurich, Switzerland
| | - Bin Peng
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Rylie Elvers
- Department of Microbiological Sciences, North Dakota State University, Fargo, North Dakota, USA
| | - Zhen-Yong Zhao
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Na Zhou
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Jun-Jie Liu
- Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China
| | - Baozhan Wang
- Department of Microbiology, College of Life Sciences, Nanjing Agricultural University, Key Laboratory of Agricultural and Environmental Microbiology, Ministry of Agriculture and Rural Affairs, Nanjing, China
| | - Chang-Yan Tian
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Jiandong Jiang
- Department of Microbiology, College of Life Sciences, Nanjing Agricultural University, Key Laboratory of Agricultural and Environmental Microbiology, Ministry of Agriculture and Rural Affairs, Nanjing, China
| | - Teng-Xiang Lian
- Sustainable Agroecosystems, Department of Environmental Systems Science, ETH Zurich, Zurich, Switzerland
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, Guangdong, China
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12
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Ul Baligah H, Chesti MH, Ahmed Baba Z, Mir S, Wani FJ, Bhat JA, Khan IM. Vermicomposting technology as a dynamic strategy to mitigate environmental crisis: a bibliometric study of last three decades. Environ Technol 2024:1-15. [PMID: 38623591 DOI: 10.1080/09593330.2024.2339191] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/17/2023] [Accepted: 11/21/2023] [Indexed: 04/17/2024]
Abstract
Efficient recycling of resources forms the cornerstone of sustainable development. Among multiple options in stock for waste recycling, vermicomposting technology is regarded as a futuristic strategy, being tested in every part of the globe due to easy accessibility. Hence, a bibliometric study was planned to set a sight on global scientific trends encompassing vermicomposting research in last three decades. The data were retrieved from Google Scholar, Scopus and PubMed. Publications from different search engines were filtered out and 2064 unique documents were collected and illustrated in MS Excel and Vos-viewer. Inferences were drawn on significant aspects, such as publication growth trend, journal analysis and co-occurrence of keywords. The study revealed that the number of publications increased from 3 in 1992 to 166 in 2021. The number of citations also increased and peaked at 4314 in 2015. Following this, we clustered keywords using principle component analysis and worked out links between domains of vermicomposting. Vermicomposting conjoined to words substrate manipulation, quality improvement, heavy metal adsorption, and yield parameters. This implies that vermicompost is being explored for many alternate uses in addition to its use as a fertiliser. We concluded that vermicomposting is one of the promising technologies for waste recycling. It modulates plant growth and subdues stress in plants. Additionally, being an efficient adsorbent, it serves bioremediation of contaminated sites. Therefore, the future of this technology lies in synthesising nano-formulations, integrating into biosensor technology, simulating for predicting timelines under different conditions and making efforts to improve their adsorption.
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Affiliation(s)
| | - M H Chesti
- Division of Soil Science FoA, SKUAST-K Wadura, Jammu Kashmir, India
| | - Zahoor Ahmed Baba
- Division of Basic Sciences and Humanities FoA, SKUAST- K Wadura, Jammu Kashmir, India
| | - Shakeel Mir
- Division of Soil Science FoH, SKUAST-K Shalimar, Jammu Kashmir, India
| | - Fehim Jeelani Wani
- Division of Agricultural Statistics and Economics FoA, SKUAST- K Wadura, Kashmir, India
| | - Javid Ahmad Bhat
- Division of Soil Science FoA, SKUAST-K Wadura, Jammu Kashmir, India
| | - Inayat M Khan
- Division of Soil Science FoA, SKUAST-K Wadura, Jammu Kashmir, India
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13
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Melzi A, Zecchin S, Gomarasca S, Abruzzese A, Cavalca L. Ecological indicators and biological resources for hydrocarbon rhizoremediation in a protected area. Front Bioeng Biotechnol 2024; 12:1379947. [PMID: 38681962 PMCID: PMC11046468 DOI: 10.3389/fbioe.2024.1379947] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2024] [Accepted: 03/25/2024] [Indexed: 05/01/2024] Open
Abstract
Spillage from oil refineries, pipelines, and service stations consistently leads to soil, food and groundwater contamination. Bacterial-assisted phytoremediation is a non-invasive and sustainable solution to eliminate or decrease the concentration of xenobiotic contaminants in the environment. In the present study, a protected area interested by a fuel discharge was considered to assess a bioremediation intervention. From the spill point, a plume of contamination flowed South-West into the aquifer, eventually reaching a wetland area. Soils, groundwaters and plants belonging to the species Scirpus sylvaticus (L.) were sampled. In the majority of the soil samples, concentrations of total petroleum hydrocarbons, both C ≤ 12 and C > 12, exceeded legal limits set forth in Directive 2000/60/EC. The analysis of diatom populations, used as ecological indicators, evidenced morphology alterations and the presence of Ulnaria ulna and Ulnaria biceps species, previously detected in hydrocarbon-polluted waters. Tests for phytotoxicity and phytodegradation, carried out in soil mesocosms, planted with Zea mays and Helianthus annuus, demonstrated that both species significantly contributed to the removal of total petroleum hydrocarbons. Removal of C ≤ 12 and C > 12 petroleum hydrocarbons was in the range of 80%-82% for Z. mays and 71%-72% for H. annuus. Microbial communities inhabiting high organic carbon and vegetated soils were more active in hydrocarbon degradation than those inhabiting subsoils, as evidenced by soil slurry experiments. The abundance of functional genes encoding toluene-benzene monooxygenase (tbmD) and alkane hydroxylase (alkB), quantified in environmental samples, confirmed that the plant rhizosphere recruited a microbial community with higher biodegradation capacity. Bacterial strains isolated from the sampling site were able to grow on model hydrocarbons (hexane, hexadecane and o-, m-, p-xylene) as sole carbon and energy sources, indicating that a natural bio-attenuation process was on-going at the site. The bacterial strains isolated from rhizosphere soil, rhizoplane and endosphere showed plant growth promoting traits according to in vitro and in vivo tests on Z. mays and Oryza sativa, allowing to forecast a possible application of bacterial assisted rhizoremediation to recover the protected area.
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Affiliation(s)
- Alice Melzi
- Dipartimento di Scienze per gli Alimenti, la Nutrizione e l'Ambiente (DeFENS), Università degli Studi di Milano, Milano, Italy
| | - Sarah Zecchin
- Dipartimento di Scienze per gli Alimenti, la Nutrizione e l'Ambiente (DeFENS), Università degli Studi di Milano, Milano, Italy
| | - Stefano Gomarasca
- Dipartimento di Scienze e Politiche Ambientali (ESP), Università degli Studi di Milano, Milano, Italy
| | - Alessandro Abruzzese
- Dipartimento di Scienze Agrarie e Ambientali (DISAA), Università degli Studi di Milano, Milano, Italy
| | - Lucia Cavalca
- Dipartimento di Scienze per gli Alimenti, la Nutrizione e l'Ambiente (DeFENS), Università degli Studi di Milano, Milano, Italy
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14
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Belahmadi MSO, Abdessemed A. Enhancement of benzo[a]pyrene mineralization: symbiotic biodegradation by Acinetobacter sp. strain HAP1 in Association with Cyanobacteriota sp. S66. J Environ Sci Health B 2024; 59:248-262. [PMID: 38605578 DOI: 10.1080/03601234.2024.2336554] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/24/2023] [Accepted: 03/19/2024] [Indexed: 04/13/2024]
Abstract
The ability of Acinetobacter sp. strain HAP1, isolated from petroleum refinery effluent, to eliminate different concentrations (20, 40, 60, 80 and 100 mg/L) of Benzo[a]Pyrene degradation (BaP) was studied. A test to improve this degradation capacity was carried out by culturing the bacterial strain in association with a cyanobacteria. The results show a highly significant effect of the concentration of (BaP) and a very highly significant effect of the symbiosis between the bacterial strain and the cyanobacteria. This combination was able to significantly improve the (BaP) degradation rate by up to 18%. This degradation and especially in association leads to a complete mineralization of (BaP) and there is a difference in yield that can go up to 15%. Through molecular identification based on 16S rRNA gene sequence analysis, strains HAP1 and S66 were recognized as Acinetobacter sp. strain HAP1 and Cyanobacteriota sp. S66, respectively. Comparison of the retrieved sequences with the NCBI GenBank database was done, and the closest matches were found to be Acinetobacter pittii strain JD-10 for bacteria and Pseudochroococcus couteii strain PMC 885.14 for cyanobacteria.
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Affiliation(s)
| | - Ala Abdessemed
- Biotechnology and Environment, Biotechnology Research Center, Constantine, Algeria
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15
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Moriuchi R, Sano R, Fujii S, Suzuki Y, Makita M, Kawashima Y, Shirakawa T, Shindo R, Shinkai T, Miura K, Hirose M, Nakajima M, Kurokawa A, Chetia R, Hirokawa C, Suzuki T, Ito Y, Murano H, Dohra H, Ogawa N, Kanesaki Y. Complete genome sequence of Paraburkholderia sp. strain 22B1P capable of utilizing 3-chlorobenzoate as a carbon source. Microbiol Resour Announc 2024; 13:e0123523. [PMID: 38488372 PMCID: PMC11008179 DOI: 10.1128/mra.01235-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2023] [Accepted: 03/06/2024] [Indexed: 04/12/2024] Open
Abstract
Paraburkholderia sp. strain 22B1P utilizes 3-chlorobenzoate as a carbon source. Complete genome sequencing of strain 22B1P revealed two chromosomes and two plasmids. The genes involved in the conversion of 3-chlorobenzoate to 3-chlorocatechol and those involved in the conversion of 3-chlorocatechol to 3-oxoadipate were located on chromosomes 2 and 1, respectively.
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Affiliation(s)
- Ryota Moriuchi
- Shizuoka Instrumental Analysis Center, Shizuoka University, Suruga-ku, Shizuoka, Japan
- Division of Technical Service, Shizuoka University, Suruga-ku, Shizuoka, Japan
| | - Rion Sano
- Shizuoka Prefectural Fujinomiya-Kita High School, Fujinomiya, Shizuoka, Japan
| | - Shuma Fujii
- OISCA Hamamatsu Kokusai High School, Hamamatsu, Shizuoka, Japan
| | - Yuito Suzuki
- Shizuoka Prefectural Shimada Senior High School, Shimada, Shizuoka, Japan
| | - Miyune Makita
- Shizuoka Prefectural Shimada Senior High School, Shimada, Shizuoka, Japan
| | - Yo Kawashima
- Hamamatsu Gakugei High School, Hamamatsu, Shizuoka, Japan
| | | | - Renki Shindo
- Shizuoka Prefectural Shizuoka Higashi High School, Aoi-ku, Shizuoka, Japan
| | - Tatsumi Shinkai
- Shizuoka Prefectural Shizuoka Higashi High School, Aoi-ku, Shizuoka, Japan
| | - Kaede Miura
- Fuji Sacred Heart School, Susono, Shizuoka, Japan
| | - Moka Hirose
- Fuji Sacred Heart School, Susono, Shizuoka, Japan
| | - Momiji Nakajima
- Faculty of Agriculture, Shizuoka University, Suruga-ku, Shizuoka, Japan
| | - Asahi Kurokawa
- Faculty of Agriculture, Shizuoka University, Suruga-ku, Shizuoka, Japan
| | - Rituparna Chetia
- Graduate School of Integrated Science and Technology, Shizuoka University, Suruga-ku, Shizuoka, Japan
| | - Chiharu Hirokawa
- Shizuoka Instrumental Analysis Center, Shizuoka University, Suruga-ku, Shizuoka, Japan
| | - Tomoko Suzuki
- Shizuoka Instrumental Analysis Center, Shizuoka University, Suruga-ku, Shizuoka, Japan
| | - Yukiko Ito
- Division of Technical Service, Shizuoka University, Suruga-ku, Shizuoka, Japan
| | - Hiroki Murano
- Division of Technical Service, Shizuoka University, Suruga-ku, Shizuoka, Japan
| | - Hideo Dohra
- Shizuoka Instrumental Analysis Center, Shizuoka University, Suruga-ku, Shizuoka, Japan
- Graduate School of Integrated Science and Technology, Shizuoka University, Suruga-ku, Shizuoka, Japan
- Research Institute of Green Science and Technology, Shizuoka University, Suruga-ku, Shizuoka, Japan
| | - Naoto Ogawa
- Faculty of Agriculture, Shizuoka University, Suruga-ku, Shizuoka, Japan
- Graduate School of Integrated Science and Technology, Shizuoka University, Suruga-ku, Shizuoka, Japan
| | - Yu Kanesaki
- Shizuoka Instrumental Analysis Center, Shizuoka University, Suruga-ku, Shizuoka, Japan
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16
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Kharey GS, Palace V, Whyte L, Greer CW. Influence of heavy Canadian crude oil on pristine freshwater boreal lake ecosystems in an experimental oil spill. FEMS Microbiol Ecol 2024; 100:fiae054. [PMID: 38650065 PMCID: PMC11065361 DOI: 10.1093/femsec/fiae054] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2023] [Revised: 02/29/2024] [Accepted: 04/18/2024] [Indexed: 04/25/2024] Open
Abstract
The overall impact of a crude oil spill into a pristine freshwater environment in Canada is largely unknown. To evaluate the impact on the native microbial community, a large-scale in situ model experimental spill was conducted to assess the potential role of the natural community to attenuate hydrocarbons. A small volume of conventional heavy crude oil (CHV) was introduced within contained mesocosm enclosures deployed on the shoreline of a freshwater lake. The oil was left to interact with the shoreline for 72 h and then free-floating oil was recovered using common oil spill response methods (i.e. freshwater flushing and capture on oleophilic absorptive media). Residual polycyclic aromatic hydrocarbon (PAH) concentrations returned to near preoiling concentrations within 2 months, while the microbial community composition across the water, soil, and sediment matrices of the enclosed oligotrophic freshwater ecosystems did not shift significantly over this period. Metagenomic analysis revealed key polycyclic aromatic and alkane degradation mechanisms also did not change in their relative abundance over the monitoring period. These trends suggest that for small spills (<2 l of oil per 15 m2 of surface freshwater), physical oil recovery reduces polycyclic aromatic hydrocarbon concentrations to levels tolerated by the native microbial community. Additionally, the native microbial community present in the monitored pristine freshwater ecosystem possesses the appropriate hydrocarbon degradation mechanisms without prior challenge by hydrocarbon substrates. This study corroborated trends found previously (Kharey et al. 2024) toward freshwater hydrocarbon degradation in an environmentally relevant scale and conditions on the tolerance of residual hydrocarbons in situ.
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Affiliation(s)
- Gurpreet S Kharey
- Department of Natural Resource Sciences, McGill University, 21111 Lakeshore Rd Ste-Anne-de-Bellevue, Quebec, H9X 3V9S, Canada
| | - Vince Palace
- International Institute for Sustainable Development – Experimental Lakes Area, Pine Rd, Kenora, Unorganized Ontario, P0V 2V0, Canada
| | - Lyle Whyte
- Department of Natural Resource Sciences, McGill University, 21111 Lakeshore Rd Ste-Anne-de-Bellevue, Quebec, H9X 3V9S, Canada
| | - Charles W Greer
- Department of Natural Resource Sciences, McGill University, 21111 Lakeshore Rd Ste-Anne-de-Bellevue, Quebec, H9X 3V9S, Canada
- National Research Council Canada, Energy, Mining and Environment Research Centre, 6100 Royalmount Ave., Montreal, Quebec, H4P 2R2, Canada
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17
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Struik Q, Paranaíba JR, Glodowska M, Kosten S, Meulepas BMJW, Rios-Miguel AB, Jetten MSM, Lürling M, Waajen G, Nijman TPA, Veraart AJ. Fe(II)Cl2 amendment suppresses pond methane emissions by stimulating iron-dependent anaerobic oxidation of methane. FEMS Microbiol Ecol 2024; 100:fiae061. [PMID: 38632040 DOI: 10.1093/femsec/fiae061] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2024] [Revised: 03/27/2024] [Accepted: 04/16/2024] [Indexed: 04/19/2024] Open
Abstract
Aquatic ecosystems are large contributors to global methane (CH4) emissions. Eutrophication significantly enhances CH4-production as it stimulates methanogenesis. Mitigation measures aimed at reducing eutrophication, such as the addition of metal salts to immobilize phosphate (PO43-), are now common practice. However, the effects of such remedies on methanogenic and methanotrophic communities-and therefore on CH4-cycling-remain largely unexplored. Here, we demonstrate that Fe(II)Cl2 addition, used as PO43- binder, differentially affected microbial CH4 cycling-processes in field experiments and batch incubations. In the field experiments, carried out in enclosures in a eutrophic pond, Fe(II)Cl2 application lowered in-situ CH4 emissions by lowering net CH4-production, while sediment aerobic CH4-oxidation rates-as found in batch incubations of sediment from the enclosures-did not differ from control. In Fe(II)Cl2-treated sediments, a decrease in net CH4-production rates could be attributed to the stimulation of iron-dependent anaerobic CH4-oxidation (Fe-AOM). In batch incubations, anaerobic CH4-oxidation and Fe(II)-production started immediately after CH4 addition, indicating Fe-AOM, likely enabled by favorable indigenous iron cycling conditions and the present methanotroph community in the pond sediment. 16S rRNA sequencing data confirmed the presence of anaerobic CH4-oxidizing archaea and both iron-reducing and iron-oxidizing bacteria in the tested sediments. Thus, besides combatting eutrophication, Fe(II)Cl2 application can mitigate CH4 emissions by reducing microbial net CH4-production and stimulating Fe-AOM.
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Affiliation(s)
- Quinten Struik
- Department of Ecology, Radboud Institute for Biological and Environmental Sciences, Radboud University, 6525 AJ, Nijmegen, The Netherlands
| | - José R Paranaíba
- Department of Ecology, Radboud Institute for Biological and Environmental Sciences, Radboud University, 6525 AJ, Nijmegen, The Netherlands
| | - Martyna Glodowska
- Department of Microbiology, Radboud Institute for Biological and Environmental Sciences, Radboud University, 6525 AJ, Nijmegen, The Netherlands
| | - Sarian Kosten
- Department of Ecology, Radboud Institute for Biological and Environmental Sciences, Radboud University, 6525 AJ, Nijmegen, The Netherlands
| | - Berber M J W Meulepas
- Department of Ecology, Radboud Institute for Biological and Environmental Sciences, Radboud University, 6525 AJ, Nijmegen, The Netherlands
| | - Ana B Rios-Miguel
- Department of Microbiology, Radboud Institute for Biological and Environmental Sciences, Radboud University, 6525 AJ, Nijmegen, The Netherlands
| | - Mike S M Jetten
- Department of Microbiology, Radboud Institute for Biological and Environmental Sciences, Radboud University, 6525 AJ, Nijmegen, The Netherlands
| | - Miquel Lürling
- Aquatic Ecology & Water Quality Management Group, Department of Environmental Sciences, Wageningen University, PO Box 47, 6700 AA, Wageningen, The Netherlands
| | - Guido Waajen
- Water Authority Brabantse Delta, 4836 AA, Breda, The Netherlands
| | - Thomas P A Nijman
- Department of Ecology, Radboud Institute for Biological and Environmental Sciences, Radboud University, 6525 AJ, Nijmegen, The Netherlands
| | - Annelies J Veraart
- Department of Ecology, Radboud Institute for Biological and Environmental Sciences, Radboud University, 6525 AJ, Nijmegen, The Netherlands
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18
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Kharey GS, Palace V, Whyte L, Greer CW. Native freshwater lake microbial community response to an in situ experimental dilbit spill. FEMS Microbiol Ecol 2024; 100:fiae055. [PMID: 38650064 PMCID: PMC11068069 DOI: 10.1093/femsec/fiae055] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2023] [Revised: 02/29/2024] [Accepted: 04/18/2024] [Indexed: 04/25/2024] Open
Abstract
With the increase in crude oil transport throughout Canada, the potential for spills into freshwater ecosystems has increased and additional research is needed in these sensitive environments. Large enclosures erected in a lake were used as mesocosms for this controlled experimental dilbit (diluted bitumen) spill under ambient environmental conditions. The microbial response to dilbit, the efficacy of standard remediation protocols on different shoreline types commonly found in Canadian freshwater lakes, including a testing of a shoreline washing agent were all evaluated. We found that the native microbial community did not undergo any significant shifts in composition after exposure to dilbit or the ensuing remediation treatments. Regardless of the treatment, sample type (soil, sediment, or water), or type of associated shoreline, the community remained relatively consistent over a 3-month monitoring period. Following this, metagenomic analysis of polycyclic aromatic and alkane hydrocarbon degradation mechanisms also showed that while many key genes identified in PAH and alkane biodegradation were present, their abundance did not change significantly over the course of the experiment. These results showed that the native microbial community present in a pristine freshwater lake has the prerequisite mechanisms for hydrocarbon degradation in place, and combined with standard remediation practices in use in Canada, has the genetic potential and resilience to potentially undertake bioremediation.
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Affiliation(s)
- Gurpreet S Kharey
- Department of Natural Resource Sciences, McGill University, 21111 Lakeshore Rd Ste-Anne-de-Bellevue, Quebec, H9X 3V9, Canada
| | - Vince Palace
- International Institute for Sustainable Development – Experimental Lakes Area, Pine Rd, Kenora, Unorganized Ontario, P0V 2V0, Canada
| | - Lyle Whyte
- Department of Natural Resource Sciences, McGill University, 21111 Lakeshore Rd Ste-Anne-de-Bellevue, Quebec, H9X 3V9, Canada
| | - Charles W Greer
- Department of Natural Resource Sciences, McGill University, 21111 Lakeshore Rd Ste-Anne-de-Bellevue, Quebec, H9X 3V9, Canada
- National Research Council Canada, Energy, Mining and Environment Research Centre, 6100 Royalmount Ave., Montreal, Quebec, H4P 2R2, Canada
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19
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Skinner JP, Palar S, Allen C, Raderstorf A, Blake P, Morán Reyes A, Berg RN, Muse C, Robles A, Hamdan N, Chu MY, Delgado AG. Acetylene Tunes Microbial Growth During Aerobic Cometabolism of Trichloroethene. Environ Sci Technol 2024; 58:6274-6283. [PMID: 38531380 PMCID: PMC11008246 DOI: 10.1021/acs.est.3c08068] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2023] [Revised: 02/28/2024] [Accepted: 02/29/2024] [Indexed: 03/28/2024]
Abstract
Microbial aerobic cometabolism is a possible treatment approach for large, dilute trichloroethene (TCE) plumes at groundwater contaminated sites. Rapid microbial growth and bioclogging pose a persistent problem in bioremediation schemes. Bioclogging reduces soil porosity and permeability, which negatively affects substrate distribution and contaminant treatment efficacy while also increasing the operation and maintenance costs of bioremediation. In this study, we evaluated the ability of acetylene, an oxygenase enzyme-specific inhibitor, to decrease biomass production while maintaining aerobic TCE cometabolism capacity upon removal of acetylene. We first exposed propane-metabolizing cultures (pure and mixed) to 5% acetylene (v v-1) for 1, 2, 4, and 8 d and we then verified TCE aerobic cometabolic activity. Exposure to acetylene overall decreased biomass production and TCE degradation rates while retaining the TCE degradation capacity. In the mixed culture, exposure to acetylene for 1-8 d showed minimal effects on the composition and relative abundance of TCE cometabolizing bacterial taxa. TCE aerobic cometabolism and incubation conditions exerted more notable effects on microbial ecology than did acetylene. Acetylene appears to be a viable approach to control biomass production that may lessen the likelihood of bioclogging during TCE cometabolism. The findings from this study may lead to advancements in aerobic cometabolism remediation technologies for dilute plumes.
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Affiliation(s)
- Justin P. Skinner
- Biodesign
Swette Center for Environmental Biotechnology, Arizona State University, Tempe, Arizona 85287, United States
- School
of Sustainable Engineering and the Built Environment, Arizona State University, Tempe, Arizona 85281, United States
- Engineering
Research Center for Bio-mediated and Bio-inspired Geotechnics (CBBG), Arizona State University, 650 E Tyler Mall, Tempe, Arizona 85281, United States
| | - Skye Palar
- Biodesign
Swette Center for Environmental Biotechnology, Arizona State University, Tempe, Arizona 85287, United States
- School
of Sustainable Engineering and the Built Environment, Arizona State University, Tempe, Arizona 85281, United States
- Engineering
Research Center for Bio-mediated and Bio-inspired Geotechnics (CBBG), Arizona State University, 650 E Tyler Mall, Tempe, Arizona 85281, United States
| | - Channing Allen
- Biodesign
Swette Center for Environmental Biotechnology, Arizona State University, Tempe, Arizona 85287, United States
- School
of Sustainable Engineering and the Built Environment, Arizona State University, Tempe, Arizona 85281, United States
- Engineering
Research Center for Bio-mediated and Bio-inspired Geotechnics (CBBG), Arizona State University, 650 E Tyler Mall, Tempe, Arizona 85281, United States
| | - Alia Raderstorf
- Biodesign
Swette Center for Environmental Biotechnology, Arizona State University, Tempe, Arizona 85287, United States
- School
of Sustainable Engineering and the Built Environment, Arizona State University, Tempe, Arizona 85281, United States
- Engineering
Research Center for Bio-mediated and Bio-inspired Geotechnics (CBBG), Arizona State University, 650 E Tyler Mall, Tempe, Arizona 85281, United States
| | - Presley Blake
- Biodesign
Swette Center for Environmental Biotechnology, Arizona State University, Tempe, Arizona 85287, United States
- School
of Sustainable Engineering and the Built Environment, Arizona State University, Tempe, Arizona 85281, United States
- Engineering
Research Center for Bio-mediated and Bio-inspired Geotechnics (CBBG), Arizona State University, 650 E Tyler Mall, Tempe, Arizona 85281, United States
| | - Arantza Morán Reyes
- Biodesign
Swette Center for Environmental Biotechnology, Arizona State University, Tempe, Arizona 85287, United States
- Instituto
de Energías Renovables, Universidad
Nacional Autónoma de México, Xochicalco s/n, Azteca, Temixco, Morelos 62588, Mexico
| | - Riley N. Berg
- Biodesign
Swette Center for Environmental Biotechnology, Arizona State University, Tempe, Arizona 85287, United States
- School
of Sustainable Engineering and the Built Environment, Arizona State University, Tempe, Arizona 85281, United States
- Engineering
Research Center for Bio-mediated and Bio-inspired Geotechnics (CBBG), Arizona State University, 650 E Tyler Mall, Tempe, Arizona 85281, United States
| | - Christopher Muse
- Biodesign
Swette Center for Environmental Biotechnology, Arizona State University, Tempe, Arizona 85287, United States
- School
of Sustainable Engineering and the Built Environment, Arizona State University, Tempe, Arizona 85281, United States
- Engineering
Research Center for Bio-mediated and Bio-inspired Geotechnics (CBBG), Arizona State University, 650 E Tyler Mall, Tempe, Arizona 85281, United States
| | - Aide Robles
- Biodesign
Swette Center for Environmental Biotechnology, Arizona State University, Tempe, Arizona 85287, United States
- School
of Sustainable Engineering and the Built Environment, Arizona State University, Tempe, Arizona 85281, United States
- Engineering
Research Center for Bio-mediated and Bio-inspired Geotechnics (CBBG), Arizona State University, 650 E Tyler Mall, Tempe, Arizona 85281, United States
- Haley
& Aldrich, Inc., 400 E Van Buren St., Suite 545, Phoenix, Arizona 85004, United States
| | - Nasser Hamdan
- School
of Sustainable Engineering and the Built Environment, Arizona State University, Tempe, Arizona 85281, United States
- Engineering
Research Center for Bio-mediated and Bio-inspired Geotechnics (CBBG), Arizona State University, 650 E Tyler Mall, Tempe, Arizona 85281, United States
| | - Min-Ying Chu
- Haley
& Aldrich, Inc., 400 E Van Buren St., Suite 545, Phoenix, Arizona 85004, United States
| | - Anca G. Delgado
- Biodesign
Swette Center for Environmental Biotechnology, Arizona State University, Tempe, Arizona 85287, United States
- School
of Sustainable Engineering and the Built Environment, Arizona State University, Tempe, Arizona 85281, United States
- Engineering
Research Center for Bio-mediated and Bio-inspired Geotechnics (CBBG), Arizona State University, 650 E Tyler Mall, Tempe, Arizona 85281, United States
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20
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Fernández D, Abalde J, Torres E. The Biosorption Capacity of the Marine Microalga Phaeodactylum tricornutum for the Removal of Toluidine Blue from Seawater. Toxics 2024; 12:277. [PMID: 38668500 PMCID: PMC11053973 DOI: 10.3390/toxics12040277] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2024] [Revised: 04/01/2024] [Accepted: 04/08/2024] [Indexed: 04/29/2024]
Abstract
A wide variety of dyes, such as toluidine blue (TB), are used daily for a multitude of purposes. After use, many of these compounds end up in aqueous effluents, reaching natural environments, including marine environments. The removal of these pollutants from marine environments must be considered a priority problem. The search for natural techniques, such as biosorption, is a preferred option to eliminate pollution from natural environments. However, biosorption studies in seawater are scarce. For this reason, the living biomass of the marine microalga Phaeodactylum tricornutum was studied to determine its ability to remove TB from seawater. The kinetics of the biosorption process, the isotherms, and the effect of light and pH were determined. This biomass showed a maximum TB removal capacity of 45 ± 2 mg g-1 in the presence of light. Light had a positive effect on the TB removal capacity of this living biomass. The best fitting kinetics was the pseudo-second order kinetics. The efficiency of the removal process increased with increasing pH. This removal was more effective at alkaline pH values. The results demonstrated the efficacy of P. tricornutum living biomass for the efficient removal of toluidine blue dye from seawater both in the presence and absence of light.
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Affiliation(s)
| | | | - Enrique Torres
- Laboratorio de Microbiología, Facultad de Ciencias, Universidade da Coruña, Campus de A Zapateira, 15071 A Coruña, Spain; (D.F.L.); (J.A.A.)
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21
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Young R, Ahmed KA, Court L, Castro-Vargas C, Marcora A, Boctor J, Paull C, Wijffels G, Rane R, Edwards O, Walsh T, Pandey G. Improved, reference quality genome sequence of the plastic-degrading greater wax moth, Galleria mellonella. G3 (Bethesda) 2024:jkae070. [PMID: 38564250 DOI: 10.1093/g3journal/jkae070] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2023] [Revised: 12/19/2023] [Accepted: 03/22/2024] [Indexed: 04/04/2024]
Abstract
Galleria mellonella is a pest of honeybees in many countries because its larvae feed on beeswax. However, G. mellonella larvae can also eat various plastics, including polyethylene, polystyrene and polypropylene, so the species is garnering increasing interest as a tool for plastic biodegradation research. This paper presents an improved genome (99.3% completed lepidoptera_odb10 BUSCO; genome mode) for G. mellonella. This 472 Mb genome is in 221 contigs with an N50 of 6.4 MB and contains 13,604 protein-coding genes. Genes that code for known and putative polyethylene-degrading enzymes and their similarity to proteins found in other Lepidoptera are highlighted. An analysis of secretory proteins more likely to be involved in the plastic catabolic process has also been carried out.
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Affiliation(s)
| | | | - Leon Court
- CSIRO Environment, Acton, ACT 2601, Australia
| | | | - Anna Marcora
- CSIRO Agriculture and Food, Dutton Park, QLD 4102, Australia
| | - Joseph Boctor
- Bioplastics Innovation Hub, Food Futures Institute, Murdoch University, Murdoch, WA 6150, Australia
| | - Cate Paull
- CSIRO Agriculture and Food, Dutton Park, QLD 4102, Australia
| | - Gene Wijffels
- CSIRO Agriculture and Food, St. Lucia, QLD 4067, Australia
| | - Rahul Rane
- CSIRO Health and Biosecurity, Parkville, VIC 3052, Australia
| | | | - Tom Walsh
- CSIRO Environment, Acton, ACT 2601, Australia
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Abstract
Lead is a naturally occurring, bluish-gray metal that is found in small quantities in the earth's crust. The existing literature demonstrates that non-biodegradable character and continuous use results in accumulation of lead concentration in the environment and causes various ill effects such as neurotoxicity, change in psychological and behavioral development of different organisms. Nowadays the most effective technique in the revival of the environment is bioremediation and it is environmentally friendly and cost-effective. Bacterial strains such as Oceanobacillus profundus and Lactobacillus acidophilus ATCC4356 have the ability to reduce lead 97% and 73.9%, respectively. Similarly some species of algae and fungal strains also showed lead removal efficiency as 74% (spirulina), 97.1% (Chlorella kessleri), 95.5% (Penicillium janthinillum) and 86% (Aspergillus flavus). Biodegradation of lead by various microbes would be the most efficient and sustainable approach. This review focuses on toxicity, fate of lead in the environment and its microbial degradation.
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Affiliation(s)
- Khushhal Kumar
- Department of Zoology, Central University of Jammu, Rahya-Suchani, Samba, Jammu and Kashmir, India
| | - Devinder Singh
- Department of Zoology, Chandigarh University, Mohali, Punjab, India
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23
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Coelho GD, Silva MA, de Melo Pinheiro MA, Nadvorny D, Costa Amador V, Maia RT. In silico and in vitro assays suggests Congo red dye degradation by a Lentinus sp. laccase enzyme. J Biomol Struct Dyn 2024; 42:3802-3813. [PMID: 37254291 DOI: 10.1080/07391102.2023.2216282] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2023] [Accepted: 05/12/2023] [Indexed: 06/01/2023]
Abstract
Laccase is a superfamily of ligninolytic enzymes known to degrade a wide variety of xenobiotics, including synthetic dyes. Congo Red (CR) has a diazo dye function, carcinogenic and mutagenic potential, and is currently applied in clinical analysis. The objective of this work was to produce and characterize the crude extract of Lentinus sp. in semi-solid fermentation (FSS) and perform in vitro and in silico studies to assess the potential of the crude extract to discolor the CR dye. Laccase activity was determined using ABTS as substrate and characterized. The in vitro discoloration was carried out using experimental design 22 at room temperature and monitored at 340 nm for 24h. Molecular docking and molecular dynamics simulations were performed between laccase and CR. The maximum laccase activity production was 29.63 U L-1 with six days of FSS. The optimal temperature and pH were 50 °C and 3.0, respectively. Discoloration of the CR dye was obtained only in tests containing CuSO4. Laccase formed stable complexes with the dye, presenting negative binding energy values ranging from -70.94 to -63.16 kcal mol-1 and the occurrence of seven hydrogen bonds. Molecular dynamics results showed the stability of the system (RMSD ranging from 1.0 to 2.5 Ä) and protein-ligand interaction along simulation. RMSF values pointed residues at the end of chains A (residues 300 to 305, 480 to 500) and B (residues 650 to 655 and 950 to 1000) as the most flexible regions of the laccase. This study highlighted the enzymatic action in the bioremediation of CR in vitro in agreement with the in silico simulations that demonstrate the enzyme potential.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Glauciane Danusa Coelho
- Center for Sustainable Development of the Semi-Arid, Academic Unit of Biotechnology Engineering, Federal University of Campina Grande, Sumé, Paraiba, Brazil
| | - Marco Antônio Silva
- Center for Water Resources and Environmental Studies, University of São Paulo, São Carlos School of Engineering, São Carlos, São Paulo, Brazil
| | - Maria Alice de Melo Pinheiro
- Post-Graduation in Materials Sciences, Center for Exact and Natural Sciences, Federal University of Pernambuco, Recife, Pernambuco, Brazil
| | - Daniela Nadvorny
- Department of Pharmaceutical Sciences, Federal University of Pernambuco, Recife, Pernambuco, Brazil
| | - Vinicius Costa Amador
- Post-Graduation in Biological Science, Federal University of Pernambuco, Recife, Pernambuco, Brazil
| | - Rafael Trindade Maia
- Center for Sustainable Development of the Semi-Arid, Academic Unit of Biotechnology Engineering, Federal University of Campina Grande, Sumé, Paraiba, Brazil
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24
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Korkmaz N, Himawan S, Usman M, Baik S, Kim M. Bacteriophage Engineering for Improved Copper Ion Binding. Macromol Biosci 2024; 24:e2300354. [PMID: 37985183 DOI: 10.1002/mabi.202300354] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2023] [Revised: 10/13/2023] [Indexed: 11/22/2023]
Abstract
In this study, fd viruses are genetically modified to display seven cropped versions (H, HG, HGF, HGFA, HGFAN, HGFANV and HGFANVA) of the previously identified Cu(II) specific peptide (HGFANVA). Atomic force microscopy (AFM) imaging reveals the typical filamentous structures of recombinant phages with thicknesses of ≈2-5 nm in dry state. Scanning electron microscopy (SEM) imaging shows that HGFANVA viruses form larger elongated assemblies than H viruses that are deposited with a mineral layer after Cu(II) treatment. C and N peaks are detected for virus samples through Energy dispersive X-ray spectroscopy (EDX) analyses confirming the presence of phage organic material. Cu peak is only detected for engineered viruses after Cu(II) exposure. Enzyme-linked immunosorbent assay (ELISA) analyses show the selective Cu(II) binding of engineered phages. Agarose gel electrophoresis (AGE) and zeta potential analyses reveal negative surface charges of engineered viral constructs. Positively charged Cytopore beads are coated with bacteriophages and used for Cu(II) ion sorption studies. ICP-MS analyses clearly show the improved Cu(II) binding of engineered viruses with respect to wild-type fd phages. Such bottom-up constructed, genetically engineered virus-based biomaterials may be applied in bioremediation studies targeting metal species from environmental samples.
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Affiliation(s)
- Nuriye Korkmaz
- Biosensor Group, Korea Institute of Science and Technology Europe Forschungsgesellschaft mbH, Campus E 7.1, D-66123, Saarbrücken, Germany
| | - Sandiego Himawan
- Biosensor Group, Korea Institute of Science and Technology Europe Forschungsgesellschaft mbH, Campus E 7.1, D-66123, Saarbrücken, Germany
- Bioprogrammable Materials Group, INM - Leibniz Institute for New Materials, Campus D 2.2, D-66123, Saarbrücken, Germany
| | - Muhammed Usman
- Biosensor Group, Korea Institute of Science and Technology Europe Forschungsgesellschaft mbH, Campus E 7.1, D-66123, Saarbrücken, Germany
| | - Seungyun Baik
- Environmental Safety Group, Korea Institute of Science and Technology Europe Forschungsgesellschaft mbH, Campus E 7.1, D-66123, Saarbrücken, Germany
| | - Minyoung Kim
- Biosensor Group, Korea Institute of Science and Technology Europe Forschungsgesellschaft mbH, Campus E 7.1, D-66123, Saarbrücken, Germany
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25
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Mock MB, Summers RM. Microbial metabolism of caffeine and potential applications in bioremediation. J Appl Microbiol 2024; 135:lxae080. [PMID: 38549434 DOI: 10.1093/jambio/lxae080] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2023] [Revised: 02/28/2024] [Accepted: 03/22/2024] [Indexed: 04/26/2024]
Abstract
With increasing global consumption of caffeine-rich products, such as coffee, tea, and energy drinks, there is also an increase in urban and processing waste full of residual caffeine with limited disposal options. This waste caffeine has been found to leach into the surrounding environment where it poses a threat to microorganisms, insects, small animals, and entire ecosystems. Growing interest in harnessing this environmental contaminant has led to the discovery of 79 bacterial strains, eight yeast strains, and 32 fungal strains capable of metabolizing caffeine by N-demethylation and/or C-8 oxidation. Recently observed promiscuity of caffeine-degrading enzymes in vivo has opened up the possibility of engineering bacterial strains capable of producing a wide variety of caffeine derivatives from a renewable resource. These engineered strains can be used to reduce the negative environmental impact of leached caffeine-rich waste through bioremediation efforts supplemented by our increasing understanding of new techniques such as cell immobilization. Here, we compile all of the known caffeine-degrading microbial strains, discuss their metabolism and related enzymology, and investigate their potential application in bioremediation.
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Affiliation(s)
- Meredith B Mock
- Department of Chemical and Biological Engineering, The University of Alabama, Box 870203, Tuscaloosa, AL 35487, United States
| | - Ryan M Summers
- Department of Chemical and Biological Engineering, The University of Alabama, Box 870203, Tuscaloosa, AL 35487, United States
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26
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El-Saadony MT, Desoky ESM, El-Tarabily KA, AbuQamar SF, Saad AM. Exploiting the role of plant growth promoting rhizobacteria in reducing heavy metal toxicity of pepper (Capsicum annuum L.). Environ Sci Pollut Res Int 2024; 31:27465-27484. [PMID: 38512572 DOI: 10.1007/s11356-024-32874-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/07/2023] [Accepted: 03/08/2024] [Indexed: 03/23/2024]
Abstract
Microorganisms are cost-effective and eco-friendly alternative methods for removing heavy metals (HM) from contaminated agricultural soils. Therefore, this study aims to identify and characterize HM-tolerant (HMT) plant growth-promoting rhizobacteria (PGPR) isolated from industry-contaminated soils to determine their impact as bioremediators on HM-stressed pepper plants. Four isolates [Pseudomonas azotoformans (Pa), Serratia rubidaea (Sr), Paenibacillus pabuli (Pp) and Bacillus velezensis (Bv)] were identified based on their remarkable levels of HM tolerance in vitro. Field studies were conducted to evaluate the growth promotion and tolerance to HM toxicity of pepper plants grown in HM-polluted soils. Plants exposed to HM stress showed improved growth, physio-biochemistry, and antioxidant defense system components when treated with any of the individual isolates, in contrast to the control group that did not receive PGPR. The combined treatment of the tested HMT PGPR was, however, relatively superior to other treatments. Compared to no or single PGPR treatment, the consortia (Pa+Sr+Pp+Bv) increased the photosynthetic pigment contents, relative water content, and membrane stability index but lowered the electrolyte leakage and contents of malondialdehyde and hydrogen peroxide by suppressing the (non) enzymatic antioxidants in plant tissues. In pepper, Cd, Cu, Pb, and Ni contents decreased by 88.0-88.5, 63.8-66.5, 66.2-67.0, and 90.2-90.9% in leaves, and 87.2-88.1, 69.4-70.0%, 80.0-81.3, and 92.3%% in fruits, respectively. Thus, these PGPR are highly effective at immobilizing HM and reducing translocation in planta. These findings indicate that the application of HMT PGPR could be a promising "bioremediation" strategy to enhance growth and productivity of crops cultivated in soils contaminated with HM for sustainable agricultural practices.
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Affiliation(s)
- Mohamed T El-Saadony
- Department of Agricultural Microbiology, Faculty of Agriculture, Zagazig University, Zagazig, 44511, Egypt
| | - El-Sayed M Desoky
- Botany Department, Faculty of Agriculture, Zagazig University, Zagazig, 44519, Egypt
| | - Khaled A El-Tarabily
- Department of Biology, United Arab Emirates University, Al Ain, 15551, United Arab Emirates
- Harry Butler Institute, Murdoch University, 6150, W.A., Murdoch, Australia
| | - Synan F AbuQamar
- Department of Biology, United Arab Emirates University, Al Ain, 15551, United Arab Emirates.
| | - Ahmed M Saad
- Department of Biochemistry, Faculty of Agriculture, Zagazig University, Zagazig, 44511, Egypt
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27
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Qin H, Wang Z, Sha W, Song S, Qin F, Zhang W. Role of Plant-Growth-Promoting Rhizobacteria in Plant Machinery for Soil Heavy Metal Detoxification. Microorganisms 2024; 12:700. [PMID: 38674644 PMCID: PMC11052264 DOI: 10.3390/microorganisms12040700] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2024] [Revised: 03/23/2024] [Accepted: 03/26/2024] [Indexed: 04/28/2024] Open
Abstract
Heavy metals migrate easily and are difficult to degrade in the soil environment, which causes serious harm to the ecological environment and human health. Thus, soil heavy metal pollution has become one of the main environmental issues of global concern. Plant-growth-promoting rhizobacteria (PGPR) is a kind of microorganism that grows around the rhizosphere and can promote plant growth and increase crop yield. PGPR can change the bioavailability of heavy metals in the rhizosphere microenvironment, increase heavy metal uptake by phytoremediation plants, and enhance the phytoremediation efficiency of heavy-metal-contaminated soils. In recent years, the number of studies on the phytoremediation efficiency of heavy-metal-contaminated soil enhanced by PGPR has increased rapidly. This paper systematically reviews the mechanisms of PGPR that promote plant growth (including nitrogen fixation, phosphorus solubilization, potassium solubilization, iron solubilization, and plant hormone secretion) and the mechanisms of PGPR that enhance plant-heavy metal interactions (including chelation, the induction of systemic resistance, and the improvement of bioavailability). Future research on PGPR should address the challenges in heavy metal removal by PGPR-assisted phytoremediation.
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Affiliation(s)
| | | | | | | | - Fenju Qin
- School of Chemistry and Life Sciences, Suzhou University of Science and Technology, Suzhou 215009, China
| | - Wenchao Zhang
- School of Chemistry and Life Sciences, Suzhou University of Science and Technology, Suzhou 215009, China
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28
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Dike CC, Rani Batra A, Khudur LS, Nahar K, Ball AS. Effect of the Application of Ochrobactrum sp.-Immobilised Biochar on the Remediation of Diesel-Contaminated Soil. Toxics 2024; 12:234. [PMID: 38668457 PMCID: PMC11053889 DOI: 10.3390/toxics12040234] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/16/2024] [Revised: 03/15/2024] [Accepted: 03/19/2024] [Indexed: 04/29/2024]
Abstract
The immobilisation of bacteria on biochar has shown potential for enhanced remediation of petroleum hydrocarbon-contaminated soil. However, there is a lack of knowledge regarding the effect of bacterial immobilisation on biosolids-derived biochar for the remediation of diesel-contaminated soil. This current study aimed to assess the impact of the immobilisation of an autochthonous hydrocarbonoclastic bacteria, Ochrobacterium sp. (BIB) on biosolids-derived biochar for the remediation of diesel-contaminated soil. Additionally, the effect of fertiliser application on the efficacy of the BIB treatment was investigated. Biochar (BC) application alone led to significantly higher hydrocarbon removal than the control treatment at all sampling times (4887-11,589 mg/kg higher). When Ochrobacterium sp. was immobilised on biochar (BIB), the hydrocarbon removal was greater than BC by 5533 mg/kg and 1607 mg/kg at weeks 10 and 22, respectively. However, when BIB was co-applied with fertiliser (BIBF), hydrocarbon removal was lower than BIB alone by 6987-11,767 mg/kg. Quantitative PCR (q-PCR) analysis revealed that the gene related to Ochrobacterium sp. was higher in BIB than in the BC treatment, which likely contributed to higher hydrocarbon removal in the BIB treatment. The results of the q-PCR analysis for the presence of alkB genes and FTIR analysis suggest that the degradation of alkane contributed to hydrocarbon removal. The findings of this study demonstrate that bacterial immobilisation on biosolids-derived biochar is a promising technique for the remediation of diesel-contaminated soil. Future studies should focus on optimising the immobilisation process for enhanced hydrocarbon removal.
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Affiliation(s)
- Charles Chinyere Dike
- ARC Training Centre for Transformation of Australia’s Biosolids Centre, RMIT University, Bundoora, Melbourne, VIC 3083, Australia
- School of Science, RMIT University, Bundoora, Melbourne, VIC 3083, Australia
| | - Alka Rani Batra
- ARC Training Centre for Transformation of Australia’s Biosolids Centre, RMIT University, Bundoora, Melbourne, VIC 3083, Australia
- School of Science, RMIT University, Bundoora, Melbourne, VIC 3083, Australia
- Environment Protection Authority Victoria, Centre for Applied Sciences, Ernest Jones Drive, Macleod, VIC 3085, Australia
| | - Leadin S. Khudur
- ARC Training Centre for Transformation of Australia’s Biosolids Centre, RMIT University, Bundoora, Melbourne, VIC 3083, Australia
- School of Science, RMIT University, Bundoora, Melbourne, VIC 3083, Australia
| | - Kamrun Nahar
- ARC Training Centre for Transformation of Australia’s Biosolids Centre, RMIT University, Bundoora, Melbourne, VIC 3083, Australia
- School of Engineering, RMIT University, Melbourne, VIC 3000, Australia
| | - Andrew S. Ball
- ARC Training Centre for Transformation of Australia’s Biosolids Centre, RMIT University, Bundoora, Melbourne, VIC 3083, Australia
- School of Science, RMIT University, Bundoora, Melbourne, VIC 3083, Australia
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White-Pettigrew M, Shaw S, Hughes L, Boothman C, Graham J, Abrahamsen-Mills L, Morris K, Lloyd JR. Enhanced Strontium Removal through Microbially Induced Carbonate Precipitation by Indigenous Ureolytic Bacteria. ACS Earth Space Chem 2024; 8:483-498. [PMID: 38533191 PMCID: PMC10961847 DOI: 10.1021/acsearthspacechem.3c00252] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/31/2023] [Revised: 11/23/2023] [Accepted: 11/27/2023] [Indexed: 03/28/2024]
Abstract
Microbial ureolysis offers the potential to remove metals including Sr2+ as carbonate minerals via the generation of alkalinity coupled to NH4+ and HCO3- production. Here, we investigated the potential for bacteria, indigenous to sediments representative of the U.K. Sellafield nuclear site where 90Sr is present as a groundwater contaminant, to utilize urea in order to target Sr2+-associated (Ca)CO3 formation in sediment microcosm studies. Strontium removal was enhanced in most sediments in the presence of urea only, coinciding with a significant pH increase. Adding the biostimulation agents acetate/lactate, Fe(III), and yeast extract to further enhance microbial metabolism, including ureolysis, enhanced ureolysis and increased Sr and Ca removal. Environmental scanning electron microscopy analyses suggested that coprecipitation of Ca and Sr occurred, with evidence of Sr associated with calcium carbonate polymorphs. Sr K-edge X-ray absorption spectroscopy analysis was conducted on authentic Sellafield sediments stimulated with Fe(III) and quarry outcrop sediments amended with yeast extract. Spectra from the treated Sellafield and quarry sediments showed Sr2+ local coordination environments indicative of incorporation into calcite and vaterite crystal structures, respectively. 16S rRNA gene analysis identified ureolytic bacteria of the genus Sporosarcina in these incubations, suggesting they have a key role in enhancing strontium removal. The onset of ureolysis also appeared to enhance the microbial reduction of Fe(III), potentially via a tight coupling between Fe(III) and NH4+ as an electron donor for metal reduction. This suggests ureolysis may support the immobilization of 90Sr via coprecipitation with insoluble calcium carbonate and cofacilitate reductive precipitation of certain redox active radionuclides, e.g., uranium.
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Affiliation(s)
- Matthew White-Pettigrew
- Research
Centre for Radwaste Disposal and Williamson Research Centre for Molecular
Environmental Science, Department of Earth and Environmental Sciences, The University of Manchester, Manchester M13 9PL, United Kingdom
- National
Nuclear Laboratory, Warrington, Cheshire WA3 6AE, United Kingdom
| | - Samuel Shaw
- Research
Centre for Radwaste Disposal and Williamson Research Centre for Molecular
Environmental Science, Department of Earth and Environmental Sciences, The University of Manchester, Manchester M13 9PL, United Kingdom
| | - Lewis Hughes
- Research
Centre for Radwaste Disposal and Williamson Research Centre for Molecular
Environmental Science, Department of Earth and Environmental Sciences, The University of Manchester, Manchester M13 9PL, United Kingdom
| | - Christopher Boothman
- Research
Centre for Radwaste Disposal and Williamson Research Centre for Molecular
Environmental Science, Department of Earth and Environmental Sciences, The University of Manchester, Manchester M13 9PL, United Kingdom
| | - James Graham
- National
Nuclear Laboratory, Warrington, Cheshire WA3 6AE, United Kingdom
| | | | - Katherine Morris
- Research
Centre for Radwaste Disposal and Williamson Research Centre for Molecular
Environmental Science, Department of Earth and Environmental Sciences, The University of Manchester, Manchester M13 9PL, United Kingdom
| | - Jonathan R. Lloyd
- Research
Centre for Radwaste Disposal and Williamson Research Centre for Molecular
Environmental Science, Department of Earth and Environmental Sciences, The University of Manchester, Manchester M13 9PL, United Kingdom
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30
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da Silva MRF, Souza KS, Motteran F, de Araújo LCA, Singh R, Bhadouria R, de Oliveira MBM. Exploring biodegradative efficiency: a systematic review on the main microplastic-degrading bacteria. Front Microbiol 2024; 15:1360844. [PMID: 38562477 PMCID: PMC10982435 DOI: 10.3389/fmicb.2024.1360844] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/24/2023] [Accepted: 02/14/2024] [Indexed: 04/04/2024] Open
Abstract
Introduction Microplastics (MPs) are widely distributed in the environment, causing damage to biota and human health. Due to their physicochemical characteristics, they become resistant particles to environmental degradation, leading to their accumulation in large quantities in the terrestrial ecosystem. Thus, there is an urgent need for measures to mitigate such pollution, with biological degradation being a viable alternative, where bacteria play a crucial role, demonstrating high efficiency in degrading various types of MPs. Therefore, the study aimed to identify bacteria with the potential for MP biodegradation and the enzymes produced during the process. Methods The methodology used followed the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) protocol. Results and Discussion The research yielded 68 eligible studies, highlighting bacteria from the genera Bacillus, Pseudomonas, Stenotrophomonas, and Rhodococcus as the main organisms involved in MP biodegradation. Additionally, enzymes such as hydrolases and alkane hydroxylases were emphasized for their involvement in this process. Thus, the potential of bacterial biodegradation is emphasized as a promising pathway to mitigate the environmental impact of MPs, highlighting the relevance of identifying bacteria with biotechnological potential for large-scale applications in reducing MP pollution.
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Affiliation(s)
| | - Karolayne Silva Souza
- Molecular Biology Laboratory, Department of Biochemistry, Federal University of Pernambuco - UFPE, Recife, PE, Brazil
| | - Fabricio Motteran
- Department of Civil and Environmental Engineering, Federal University of Pernambuco - UFPE, Recife, PE, Brazil
| | | | - Rishikesh Singh
- Amity School of Earth & Environmental Sciences, Amity University Punjab (AUP), Mohali, India
| | - Rahul Bhadouria
- Department of Environmental Studies, Delhi College of Arts and Commerce, University of Delhi, New Delhi, India
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31
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Morobane DM, Tshishonga K, Serepa-Dlamini MH. Draft Genome Sequence of Pantoea sp. Strain MHSD4, a Bacterial Endophyte With Bioremediation Potential. Evol Bioinform Online 2024; 20:11769343231217908. [PMID: 38487815 PMCID: PMC10938601 DOI: 10.1177/11769343231217908] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2022] [Accepted: 11/14/2023] [Indexed: 03/17/2024] Open
Abstract
Pantoea sp. strain MHSD4 is a bacterial endophyte isolated from the leaves of the medicinal plant Pellaea calomelanos. Here, we report on strain MHSD4 draft whole genome sequence and annotation. The draft genome size of Pantoea sp. strain MHSD4 is 4 647 677 bp with a G+C content of 54.2% and 41 contigs. The National Center for Biotechnology Information Prokaryotic Genome Annotation Pipeline tool predicted a total of 4395 genes inclusive of 4235 protein-coding genes, 87 total RNA genes, 14 non-coding (nc) RNAs and 70 tRNAs, and 73 pseudogenes. Biosynthesis pathways for naphthalene and anthracene degradation were identified. Putative genes involved in bioremediation such as copA, copD, cueO, cueR, glnGm, and trxC were identified. Putative genes involved in copper homeostasis and tolerance were identified which may suggest that Pantoea sp. strain MHSD4 has biotechnological potential for bioremediation of heavy metals.
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Affiliation(s)
- Dimpho Michelle Morobane
- Department of Biotechnology and Food Technology, Faculty of Science, University of Johannesburg, Doornfontein Campus, Doornfontein, Johannesburg, South Africa
| | - Khuthadzo Tshishonga
- Department of Biotechnology and Food Technology, Faculty of Science, University of Johannesburg, Doornfontein Campus, Doornfontein, Johannesburg, South Africa
| | - Mahloro Hope Serepa-Dlamini
- Department of Biotechnology and Food Technology, Faculty of Science, University of Johannesburg, Doornfontein Campus, Doornfontein, Johannesburg, South Africa
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Farrell MV, Airkin MY, Ali TN, Altoblani ZS, Bowman CR, Diaz AAB, Faurot PF, Frausto JE, Haji SF, Hamad BA, Lively JB, Luistro DCC, Macias Y, Mathew S, McKinley KM, Nasirimoseloo S, Tran BP, Trinh AN, Shikuma NJ. Draft genome sequence of Exiguobacterium sp. strain MMG028 isolated from a salt marsh. Microbiol Resour Announc 2024; 13:e0011623. [PMID: 38358284 DOI: 10.1128/mra.00116-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2023] [Accepted: 01/29/2024] [Indexed: 02/16/2024] Open
Abstract
Here, we report the draft genome sequence of Exiguobacterium sp. strain MMG028, isolated from Rose Creek, San Diego, CA, USA, assembled and analyzed by undergraduate students participating in a marine microbial genomics course. A genomic comparison suggests that MMG028 is a novel species, providing a resource for future microbiology and biotechnology investigations.
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Affiliation(s)
- Morgan V Farrell
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Mina Y Airkin
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Tatyana N Ali
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Zainalabdin S Altoblani
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Chynna R Bowman
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Abigail Anne B Diaz
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Paul F Faurot
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Joshua E Frausto
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Sazan F Haji
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Basma A Hamad
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - James B Lively
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Daniella Corene C Luistro
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Yvette Macias
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Steffy Mathew
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Kayla M McKinley
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Somayeh Nasirimoseloo
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Bradley P Tran
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Amanda N Trinh
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
| | - Nicholas J Shikuma
- Department of Biology, Viral Information Institute, San Diego State University, San Diego, California, USA
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Sun H, Jin J, Sun Y, Zuo F, Feng R, Wang F. Preparation of microbial agent immobilized composites for Cr(VI) removal from wastewater. Environ Technol 2024:1-13. [PMID: 38429873 DOI: 10.1080/09593330.2024.2323030] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/25/2023] [Accepted: 02/18/2024] [Indexed: 03/03/2024]
Abstract
Because of its extreme toxicity and health risks, hexavalent chromium [Cr(VI)] has been identified as a major environmental contaminant. Bioreduction is considered as one of effective techniques for cleaning up Cr(VI)-contaminated sites, but the remediation efficiency needs to be enhanced. Here, a novel immobilized microbial agent was produced by immobilizing Bacillus cereus ZY-2009 with sodium alginate (SA) using polyvinyl alcohol (PVA) and activated carbon (AC). To evaluate the decrease of Cr(VI) by immobilized bacterial agents, batch tests were conducted with varying immobilization conditions, immobilization carriers, and dosages of medication. The removal of Cr(VI) by the agent prepared by the composite immobilization method was better than that by the adsorption and encapsulation methods. The optimal preparation conditions were the fraction of magnetic PVA was 5.00%, the fraction of SA was 4.00%, the fraction of CaCl2 was 4.00%, and the calcification time was 12 h. The experimental results indicated that PVA/SA/AC agents accelerated the reduction rate of Cr(VI). The removal rate of Cr(VI) by immobilized cells (90.5%) under ideal conditions was substantially higher than that of free cells (11.0%). This novel agent had a large specific surface area and a rich pore structure, accounting for its high reduction rate. The results suggest that the PVA/SA/AC immobilized Bacillus cereus ZY-2009 agent has great potential to remove Cr(VI) from wastewater treatment systems.
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Affiliation(s)
- Haihan Sun
- College of Environment and Safety Engineering, Qingdao University of Science and Technology, Qingdao, Shandong Province, People's Republic of China
| | - Jianyong Jin
- College of Environment and Safety Engineering, Qingdao University of Science and Technology, Qingdao, Shandong Province, People's Republic of China
| | - Yuhuan Sun
- College of Environment and Safety Engineering, Qingdao University of Science and Technology, Qingdao, Shandong Province, People's Republic of China
| | - Fang Zuo
- College of Environment and Safety Engineering, Qingdao University of Science and Technology, Qingdao, Shandong Province, People's Republic of China
| | - Ruiqing Feng
- College of Environment and Safety Engineering, Qingdao University of Science and Technology, Qingdao, Shandong Province, People's Republic of China
| | - Fayuan Wang
- College of Environment and Safety Engineering, Qingdao University of Science and Technology, Qingdao, Shandong Province, People's Republic of China
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Hussain N, Muccee F, Hammad M, Mohiuddin F, Bunny SM, Shahab A. Molecular and metabolic characterization of petroleum hydrocarbons degrading Bacillus cereus. Pol J Microbiol 2024; 73:107-120. [PMID: 38437466 PMCID: PMC10911661 DOI: 10.33073/pjm-2024-012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2023] [Accepted: 02/12/2024] [Indexed: 03/06/2024] Open
Abstract
Hydrocarbon constituents of petroleum are persistent, bioaccumulated, and bio-magnified in living tissues, transported to longer distances, and exert hazardous effects on human health and the ecosystem. Bioaugmentation with microorganisms like bacteria is an emerging approach that can mitigate the toxins from environmental sources. The present study was initiated to target the petroleum-contaminated soil of gasoline stations situated in Lahore. Petroleum degrading bacteria were isolated by serial dilution method followed by growth analysis, biochemical and molecular characterization, removal efficiency estimation, metabolites extraction, and GC-MS of the metabolites. Molecular analysis identified the bacterium as Bacillus cereus, which exhibited maximum growth at 72 hours and removed 75% petroleum. Biochemical characterization via the Remel RapID™ ONE panel system showed positive results for arginine dehydrolase (ADH), ornithine decarboxylase (ODC), lysine decarboxylase (LDC), o-nitrophenyl-β-D-galactosidase (ONPG), p-nitrophenyl-β-D-glucosidase (βGLU), p-nitrophenyl-N-acetyl-β-D-glucosaminidase (NAG), malonate (MAL), adonitol fermentation (ADON), and tryptophane utilization (IND). GC-MS-based metabolic profiling identified alcohols (methyl alcohol, o-, p- and m-cresols, catechol, and 3-methyl catechol), aldehydes (methanone, acetaldehyde, and m-tolualdehyde), carboxylic acid (methanoic acid, cis,cis-muconic acid, cyclohexane carboxylic acid and benzoic acid), conjugate bases of carboxylic acids (benzoate, cis,cis-muconate, 4-hydroxybenzoate, and pyruvate) and cycloalkane (cyclohexene). It suggested the presence of methane, methylcyclohexane, toluene, xylene, and benzene degradation pathways in B. cereus.
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Affiliation(s)
- Nadia Hussain
- Department of Pharmaceutical Sciences, College of Pharmacy, Al Ain University, Al Ain Campus, Al Ain, United Arab Emirates
- AAU Health and Biomedical Research Center, Al Ain University, Abu Dhabi Campus, Abu Dhabi, United Arab Emirates
| | - Fatima Muccee
- School of Biochemistry and Biotechnology, University of Punjab, Lahore, Pakistan
| | - Muhammad Hammad
- School of Biochemistry and Biotechnology, University of Punjab, Lahore, Pakistan
| | - Farhan Mohiuddin
- School of Biochemistry and Biotechnology, University of Punjab, Lahore, Pakistan
| | - Saboor Muarij Bunny
- School of Biochemistry and Biotechnology, University of Punjab, Lahore, Pakistan
| | - Aansa Shahab
- School of Biochemistry and Biotechnology, University of Punjab, Lahore, Pakistan
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Sun Q, Wada T, Liao CS. Editorial: Recent advances in bioremediation of emerging contaminants and endocrine disruptors. Front Microbiol 2024; 15:1383770. [PMID: 38476946 PMCID: PMC10927955 DOI: 10.3389/fmicb.2024.1383770] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2024] [Accepted: 02/15/2024] [Indexed: 03/14/2024] Open
Affiliation(s)
- Qian Sun
- CAS Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, China
| | - Takayuki Wada
- Graduate School of Human Life and Ecology, Osaka Metropolitan University, Osaka, Japan
| | - Chien-Sen Liao
- Department of Medical Science and Biotechnology, I-Shou University, Kaohsiung, Taiwan
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Qiao P, Ning L, Chen J, Tang Y, Zhao R, Chen G, Ye Q, Zhou T, Chen J, Zhong W. The critical roles of propanethiol oxidoreductase and sulfide-quinone oxidoreductase in the propanethiol catabolism pathway in Pseudomonas putida S-1. Appl Environ Microbiol 2024; 90:e0195923. [PMID: 38193681 PMCID: PMC10880595 DOI: 10.1128/aem.01959-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2023] [Accepted: 11/29/2023] [Indexed: 01/10/2024] Open
Abstract
Propanethiol (PT) is a hazardous pollutant that poses risks to both the environment and human well-being. Pseudomonas putida S-1 has been identified as a microorganism capable of utilizing PT as its sole carbon source. However, the metabolic pathway responsible for PT degradation in P. putida S-1 has remained poorly understood, impeding its optimization and practical application. In this study, we investigated the catabolic network involved in PT desulfurization with P. putida S-1 and identified key gene modules crucial to this process. Notably, propanethiol oxidoreductase (PTO) catalyzes the initial degradation of PT, a pivotal step for P. putida S-1's survival on PT. PTO facilitates the oxidation of PT, resulting H2S, H2O2, and propionaldehyde (PA). Catalase-peroxidase catalyzes the conversion of H2O2 to oxygen and water, while PA undergoes gradual conversion to Succinyl-CoA, which is subsequently utilized in the tricarboxylic acid cycle. H2S is digested in a comprehensive desulfurization network where sulfide-quinone oxidoreductase (SQOR) predominantly converts it to sulfane sulfur. The transcriptome analysis suggests that sulfur can be finally converted to sulfite or sulfate and exported out of the cell. The PT degradation capacity of P. putida S-1 was enhanced by increasing the transcription level of PTO and SQOR genes in vivo.IMPORTANCEThis work investigated the PT catabolism pathway in Pseudomonas putida S-1, a microorganism capable of utilizing PT as the sole carbon source. Critical genes that control the initiation of PT degradation were identified and characterized, such as pto and sqor. By increasing the transcription level of pto and sqor genes in vivo, we have successfully enhanced the PT degradation efficiency and growth rate of P. putida S-1. This work does not only reveal a unique PT degradation pathway but also highlights the potential of enhancing the microbial desulfurization process in the bioremediation of thiol-contaminated environment.
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Affiliation(s)
- Pei Qiao
- College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, China
| | - Lixiao Ning
- College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, China
| | - Jinhui Chen
- College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, China
| | - Yuhang Tang
- College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, China
| | - Rui Zhao
- College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, China
| | - Guoqing Chen
- College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, China
| | - Qun Ye
- College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, China
| | - Tong Zhou
- College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, China
| | - Jianmeng Chen
- College of Environment, Zhejiang University of Technology, Hangzhou, China
| | - Weihong Zhong
- College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, China
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Chang B, Xu Y, Zhang Z, Wang X, Jin Q, Wang Y. Purification Effect of Water Eutrophication Using the Mosaic System of Submerged-Emerged Plants and Growth Response. Plants (Basel) 2024; 13:560. [PMID: 38498525 PMCID: PMC10891872 DOI: 10.3390/plants13040560] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2023] [Revised: 02/14/2024] [Accepted: 02/15/2024] [Indexed: 03/20/2024]
Abstract
Aquatic plants play a crucial role in the sustainable management of eutrophic water bodies, serving as a valuable tool for water purification. However, the effectiveness of using aquatic plants for improving water quality is influenced by landscape considerations. In practical applications, challenges arise concerning low purification efficiency and compromised aesthetic appeal when utilizing plants for water purification. To address these issues, this study aimed to examine the impact of aquatic plants on the purification of simulated landscape water bodies, specifically focusing on the effectiveness of the mosaic system of submerged-emerged plants in remediating eutrophic water bodies. Our findings indicated that individual aquatic plants exhibited limited efficacy in pollutant (total nitrogen, total phosphorus, ammonia nitrogen, and chemical oxygen demand) removal. However, when combined in appropriate proportions, submerged plants could enhance species growth and improve the purification efficiency of polluted water bodies. Notably, the mosaic system of submerged-emerged plants neither significantly promoted nor inhibited the growth of each other, but it effectively removed pollutants from the simulated water bodies and inhibited turbidity increase. The comprehensive evaluation ranked the purification capacity as Canna indica-submerged plants combination (C + S) > Thalia dealbata-submerged plants combination (T + S) > Iris pseudacorus-submerged plants combination (I + S) > Lythrum salicaria-submerged plants combination (L + S). Both C + S and T + S configurations effectively mitigated the rise of water turbidity and offered appealing landscape benefits, making them viable options for practical applications in urban landscape water bodies. Our study highlights that a submerged-emerged mosaic combination is a means of water purification that combines landscape aesthetics and purification efficiency.
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Affiliation(s)
- Baoliang Chang
- Key Laboratory of Landscape Agriculture, Ministry of Agriculture and Rural Affairs, Key Laboratory of Flower Biology and Germplasm Development, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China; (B.C.); (Y.X.)
- CAS Key Laboratory of Forest Ecology and Management, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, China
- Liaoning Shenyang Urban Ecosystem Research Station, National Forestry and Grassland Administration, Shenyang 110164, China
| | - Yingchun Xu
- Key Laboratory of Landscape Agriculture, Ministry of Agriculture and Rural Affairs, Key Laboratory of Flower Biology and Germplasm Development, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China; (B.C.); (Y.X.)
| | - Ze Zhang
- Key Laboratory of Landscape Agriculture, Ministry of Agriculture and Rural Affairs, Key Laboratory of Flower Biology and Germplasm Development, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China; (B.C.); (Y.X.)
| | - Xiaowen Wang
- Key Laboratory of Landscape Agriculture, Ministry of Agriculture and Rural Affairs, Key Laboratory of Flower Biology and Germplasm Development, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China; (B.C.); (Y.X.)
| | - Qijiang Jin
- Key Laboratory of Landscape Agriculture, Ministry of Agriculture and Rural Affairs, Key Laboratory of Flower Biology and Germplasm Development, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China; (B.C.); (Y.X.)
| | - Yanjie Wang
- Key Laboratory of Landscape Agriculture, Ministry of Agriculture and Rural Affairs, Key Laboratory of Flower Biology and Germplasm Development, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China; (B.C.); (Y.X.)
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Robinson JM, Breed MF, Beckett R. Probiotic Cities: microbiome-integrated design for healthy urban ecosystems. Trends Biotechnol 2024:S0167-7799(24)00005-2. [PMID: 38368168 DOI: 10.1016/j.tibtech.2024.01.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2023] [Revised: 01/19/2024] [Accepted: 01/22/2024] [Indexed: 02/19/2024]
Abstract
Combining microbiome science and biointegrated design offers opportunities to help address the intertwined challenges of urban ecosystem degradation and human disease. Biointegrated materials have the potential to combat superbugs and remediate pollution while inoculating landscape materials with microbiota can promote human immunoregulation and biodiverse green infrastructure, contributing to 'probiotic cities'.
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Affiliation(s)
- Jake M Robinson
- College of Science and Engineering, Flinders University, Bedford Park, South Australia 5042, Australia; The Aerobiome Innovation and Research Hub, College of Science and Engineering, Flinders University, Bedford Park, South Australia5042, Australia.
| | - Martin F Breed
- College of Science and Engineering, Flinders University, Bedford Park, South Australia 5042, Australia; The Aerobiome Innovation and Research Hub, College of Science and Engineering, Flinders University, Bedford Park, South Australia5042, Australia
| | - Richard Beckett
- The Bartlett School of Architecture, University College London, Gordon Street, London, WC1H 0QB, UK
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López Arias TR, Franco D, Medina L, Benítez C, Villagra V, McGahan S, Duré GM, Kurita-Oyamada HG. Removal of Chromium (III) and Reduction in Toxicity in a Primary Tannery Effluent Using Two Floating Macrophytes. Toxics 2024; 12:152. [PMID: 38393247 PMCID: PMC10893173 DOI: 10.3390/toxics12020152] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/04/2023] [Revised: 02/07/2024] [Accepted: 02/13/2024] [Indexed: 02/25/2024]
Abstract
Trivalent chromium (Cr(III)) is a contaminant with toxic activity. Its presence in waters and soils is usually related to industrial activities such as tanneries. The aim of this study was to compare the removal of Cr(III) in hydroponic solutions and tannery effluents using two floating macrophytes: Salvinia auriculata and Eichhornia crassipes. First, to determine the chromium removal capacity in solution and the bioaccumulation factor (BAF) in tissues of each plant, experiments were set up with contaminated solutions with Cr(III) concentrations of 2, 5, 10, 20, and 40 mg/L. Subsequently, both plant species were exposed to a primary tannery effluent contaminated with 12 mg/L of Cr(III) in order to study the removal capacity of organic and inorganic matter, as well as the acute toxicity in the water flea (Daphnia magna) and genotoxicity in zebrafish (Danio rerio). Tests carried out on nutrient solutions revealed that both plants have a high capacity for removing Cr(III) in solution. The BAF in tissues was higher in E. crassipes compared to S. auriculata. In the experiments with a tannery effluent, both species presented low nutrient and organic matter removal efficiency, but they showed good Cr(III) removal capacity, with average reduction values of 57% for S. auriculata and 54% for E. crassipes after 72 h of exposure. E. crassipes contributed most to the reduction in acute toxicity in D. magna, while S. auriculata did not show a similar effect. However, both plant species managed to reduce the genotoxicity marker in D. rerio when compared with the initial effluent and the control.
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Affiliation(s)
- Tomás R. López Arias
- Grupo de Investigación en Biotecnología Ambiental, Departamento de Biotecnología, Facultad de Ciencias Exactas y Naturales, Universidad Nacional de Asunción, San Lorenzo 1039-1804, Paraguay; (D.F.); (C.B.); (S.M.); (G.M.D.); (H.G.K.-O.)
| | - Deidamia Franco
- Grupo de Investigación en Biotecnología Ambiental, Departamento de Biotecnología, Facultad de Ciencias Exactas y Naturales, Universidad Nacional de Asunción, San Lorenzo 1039-1804, Paraguay; (D.F.); (C.B.); (S.M.); (G.M.D.); (H.G.K.-O.)
| | - Leonida Medina
- Instituto Nacional de Tecnología, Normalización y Metrología (INTN), Asunción 1518, Paraguay;
| | - César Benítez
- Grupo de Investigación en Biotecnología Ambiental, Departamento de Biotecnología, Facultad de Ciencias Exactas y Naturales, Universidad Nacional de Asunción, San Lorenzo 1039-1804, Paraguay; (D.F.); (C.B.); (S.M.); (G.M.D.); (H.G.K.-O.)
| | - Verónica Villagra
- Central Public Health Laboratory, Ministry of Health and Social Welfare, Asunción 1429, Paraguay;
| | - Shaun McGahan
- Grupo de Investigación en Biotecnología Ambiental, Departamento de Biotecnología, Facultad de Ciencias Exactas y Naturales, Universidad Nacional de Asunción, San Lorenzo 1039-1804, Paraguay; (D.F.); (C.B.); (S.M.); (G.M.D.); (H.G.K.-O.)
| | - Giselle Mariza Duré
- Grupo de Investigación en Biotecnología Ambiental, Departamento de Biotecnología, Facultad de Ciencias Exactas y Naturales, Universidad Nacional de Asunción, San Lorenzo 1039-1804, Paraguay; (D.F.); (C.B.); (S.M.); (G.M.D.); (H.G.K.-O.)
| | - Hajime G. Kurita-Oyamada
- Grupo de Investigación en Biotecnología Ambiental, Departamento de Biotecnología, Facultad de Ciencias Exactas y Naturales, Universidad Nacional de Asunción, San Lorenzo 1039-1804, Paraguay; (D.F.); (C.B.); (S.M.); (G.M.D.); (H.G.K.-O.)
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40
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Adeniji AA, Ayangbenro AS, Babalola OO. Draft genome sequence of Priestia megaterium AB-S79 strain isolated from active gold mine. Microbiol Resour Announc 2024; 13:e0105523. [PMID: 38189306 PMCID: PMC10868194 DOI: 10.1128/mra.01055-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2023] [Accepted: 11/28/2023] [Indexed: 01/09/2024] Open
Abstract
We screened and isolated Priestia megaterium strain AB-S79 from active gold mine soil, then sequenced its genome to unravel its biosynthetic traits. The isolate with a 5.7-Mb genome can be utilized as a reference in genome-guided strain selection for metabolic engineering and other biotechnological operations.
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Affiliation(s)
- Adetomiwa A. Adeniji
- Food Security and Safety Focus Area, Faculty of Natural and Agricultural Science, North-West University, Mmabatho, North West, South Africa
- Center for Epidemic Response and Innovation, School of Data Science & Computational Thinking, Stellenbosch University, Cape Town, Western Cape, South Africa
| | - Ayansina S. Ayangbenro
- Food Security and Safety Focus Area, Faculty of Natural and Agricultural Science, North-West University, Mmabatho, North West, South Africa
| | - Olubukola O. Babalola
- Food Security and Safety Focus Area, Faculty of Natural and Agricultural Science, North-West University, Mmabatho, North West, South Africa
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Hessler T, Harrison ST, Banfield JF, Huddy RJ. Harnessing Fermentation May Enhance the Performance of Biological Sulfate-Reducing Bioreactors. Environ Sci Technol 2024; 58:2830-2846. [PMID: 38301118 PMCID: PMC10867827 DOI: 10.1021/acs.est.3c04187] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/01/2023] [Revised: 12/28/2023] [Accepted: 01/08/2024] [Indexed: 02/03/2024]
Abstract
Biological sulfate reduction (BSR) represents a promising strategy for bioremediation of sulfate-rich waste streams, yet the impact of metabolic interactions on performance is largely unexplored. Here, genome-resolved metagenomics was used to characterize 17 microbial communities in reactors treating synthetic sulfate-contaminated solutions. Reactors were supplemented with lactate or acetate and a small amount of fermentable substrate. Of the 163 genomes representing all the abundant bacteria, 130 encode 321 NiFe and FeFe hydrogenases and all genomes of the 22 sulfate-reducing microorganisms (SRM) encode genes for H2 uptake. We observed lactate oxidation solely in the first packed bed reactor zone, with propionate and acetate oxidation in the middle and predominantly acetate oxidation in the effluent zone. The energetics of these reactions are very different, yet sulfate reduction kinetics were unaffected by the type of electron donor available. We hypothesize that the comparable rates, despite the typically slow growth of SRM on acetate, are a result of the consumption of H2 generated by fermentation. This is supported by the sustained performance of a predominantly acetate-supplemented stirred tank reactor dominated by diverse fermentative bacteria encoding FeFe hydrogenase genes and SRM capable of acetate and hydrogen consumption and CO2 assimilation. Thus, addition of fermentable substrates to stimulate syntrophic relationships may improve the performance of BSR reactors supplemented with inexpensive acetate.
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Affiliation(s)
- Tomas Hessler
- The
Center for Bioprocess Engineering Research, University of Cape Town, Cape Town 7700, South Africa
- Department
of Chemical Engineering, University of Cape
Town, Cape Town 7700, South Africa
- The
Innovative Genomics Institute at the University of California, Berkeley, California CA94720, United
States
- The
Department of Earth and Planetary Science, University of California, Berkeley, California CA94720, United States
- Environmental
Genomics and Systems Biology Division, Lawrence
Berkeley National Laboratory, Berkeley, California CA94720, United States
| | - Susan T.L. Harrison
- The
Center for Bioprocess Engineering Research, University of Cape Town, Cape Town 7700, South Africa
- Department
of Chemical Engineering, University of Cape
Town, Cape Town 7700, South Africa
- The Future
Water Institute, University of Cape Town, Cape Town 7700, South Africa
| | - Jillian F. Banfield
- The
Innovative Genomics Institute at the University of California, Berkeley, California CA94720, United
States
- The
Department of Earth and Planetary Science, University of California, Berkeley, California CA94720, United States
- The
Department of Environmental Science, Policy and Management, University of California, Berkeley, California CA94720, United States
| | - Robert J. Huddy
- The
Center for Bioprocess Engineering Research, University of Cape Town, Cape Town 7700, South Africa
- Department
of Chemical Engineering, University of Cape
Town, Cape Town 7700, South Africa
- The Future
Water Institute, University of Cape Town, Cape Town 7700, South Africa
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Zhu Y, An M, Anwar T, Wang H. Differences in soil bacterial community structure during the remediation of Cd-polluted cotton fields by biochar and biofertilizer in Xinjiang, China. Front Microbiol 2024; 15:1288526. [PMID: 38404600 PMCID: PMC10884324 DOI: 10.3389/fmicb.2024.1288526] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2023] [Accepted: 01/29/2024] [Indexed: 02/27/2024] Open
Abstract
Introduction Heavy metal pollution is a major worldwide environmental problem. Many remediation techniques have been developed, these techniques have different performance in different environments. Methods In this study, soil sampling was conducted in multiple cotton fields in Xinjiang, China, and found that cadmium (Cd) was the most abundant soil heavy metal. Then, to find the most suitable technique for the remediation of Cd pollution in cotton fields, a two-year study was conducted to explore the effects of cotton straw-derived biochar (BC, 3%) and Bacillus-based biofertilizer (BF, 1.5%) on cotton Cd uptake and transport and soil microbial community structure under Cd exposure conditions (soil Cd contents: 1, 2, and 4 mg·kg-1). Results The results showed that the bioaccumulation coefficients (Cd content of cotton organs / soil available Cd content) of cotton roots, stems, leaves, and buds/bolls reduced by 15.93%, 14.41%, 23.53%, and 20.68%, respectively after the application of BC, and reduced by 16.83%, 17.15%, 22.21%, and 26.25%, respectively after the application of BF, compared with the control (no BC and BF). Besides, the application of BC and BF reduced the transport of Cd from soil to root system, and enhanced the diversity of soil bacterial communities (dominant species: Alphaproteobacteria and Actinobacteria) and the metabolic functions related to amino acid synthesis. It was worth noting that the differential species for BF group vs BC group including Alphaproteobacteria, Gemmatimonadetes, Bacilli, and Vicinamibacteria were associated with the enrichment and transport of Cd, especially the transport of Cd from cotton roots to stems. Discussion Therefore, the application of BC and BF changed the soil bacterial diversity in Cd-polluted cotton field, and then promoted the transport of Cd in cotton, ultimately improving soil quality. This study will provide a reference for the selection of soil heavy metal pollution remediation techniques in Xinjiang, China.
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Affiliation(s)
- Yongqi Zhu
- Key Laboratory of Biological Resources and Genetic Engineering of Xinjiang Uygur Autonomous Region, College of Life Science and Technology, Xinjiang University, Ürümqi, Xinjiang, China
| | - Mengjie An
- Key Laboratory of Biological Resources and Genetic Engineering of Xinjiang Uygur Autonomous Region, College of Life Science and Technology, Xinjiang University, Ürümqi, Xinjiang, China
| | - Tumur Anwar
- Key Laboratory of Biological Resources and Genetic Engineering of Xinjiang Uygur Autonomous Region, College of Life Science and Technology, Xinjiang University, Ürümqi, Xinjiang, China
| | - Haijiang Wang
- Agricultural College, Shihezi University, Shihezi, Xinjiang, China
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Cai Z, Karunakaran E, Pandhal J. Bottom-up construction and screening of algae-bacteria consortia for pollutant biodegradation. Front Microbiol 2024; 15:1349016. [PMID: 38389536 PMCID: PMC10883772 DOI: 10.3389/fmicb.2024.1349016] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2023] [Accepted: 01/17/2024] [Indexed: 02/24/2024] Open
Abstract
Microbial communities have been used as important biological tools for a variety of purposes associated with agriculture, the food industry and human health. Artificial engineering of microbial communities is an emerging field of research motivated by finding stable and efficient microbial systems. However, the successful design of microbial communities with desirable functions not only requires profound understanding of microbial activities, but also needs efficient approaches to piece together the known microbial traits to give rise to more complex systems. This study demonstrates the bottom-up integration of environmentally isolated phototrophic microalgae and chemotrophic bacteria as artificial consortia to bio-degrade selected volatile organic compounds (VOCs). A high throughput screening method based on 96-well plate format was developed for discovering consortia with bioremediation potential. Screened exemplar consortia were verified for VOCs degradation performance, among these, certain robust consortia were estimated to have achieved efficiencies of 95.72% and 92.70% and near 100% removal (7 days) of benzene, toluene, and phenol, respectively, with initial concentrations of 100 mg/L. VOCs degradation by consortia was mainly attributed to certain bacteria including Rhodococcus erythropolis, and Cupriavidus metallidurans, and directly contributed to the growth of microalgae Coelastrella terrestris (R = 0.82, p < 0.001). This work revealed the potential of converting VOCs waste into algal biomass by algae-bacteria consortia constructed through a bottom-up approach. The screening method enables rapid shortlisting of consortia combinatorial scenarios without prior knowledge about the individual strains or the need for interpreting complex microbial interactions.
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Affiliation(s)
- Zongting Cai
- Department of Chemical and Biological Engineering, The University of Sheffield, Sheffield, United Kingdom
- Grantham Centre for Sustainable Futures, The University of Sheffield, Sheffield, United Kingdom
| | - Esther Karunakaran
- Department of Chemical and Biological Engineering, The University of Sheffield, Sheffield, United Kingdom
| | - Jagroop Pandhal
- Department of Chemical and Biological Engineering, The University of Sheffield, Sheffield, United Kingdom
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Nil S, Abi-Ayad SMEA. Biodegradation of used engine oil by lead-resistant bacteria Acinetobacter sp.HAR20 newly isolated from harbour seawater (Oran, Algeria ). Environ Technol 2024:1-16. [PMID: 38325427 DOI: 10.1080/09593330.2024.2311084] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 02/09/2024]
Abstract
This paper focuses on the degrading capacity of various hydrocarbon fractions of used engine oils (UEO) by marine microorganisms, as well as the biosorption of heavy metals. A bacterial strain with a significant capability to grow on UEO as a sole source of carbon and energy was isolated from harbour seawater samples (Oran, Algeria). The molecular identification by sequencing the 16S rDNA gene revealed that the bacterium matched Acinetobacter baumanii with 96.84% homology similarity. Thus, strain HAR20 was named Acinetobacter sp.HAR20. The degradation rate of UEO (at 1%, v/v) obtained after 15 days of incubation was about 53.4 ± 4.2%. The results of GC-MS analysis of the biodegraded residual motor oil indicate that strain Acinetobacter sp.HAR20 degrades alkanes with chain lengths ranging from C4 to C48 completely or to shorter fractions. The bacterium was also able to degrade all aromatic compounds of UEO, including polycyclic aromatic hydrocarbons (alkylated and no alkylated naphthalene, alkylated phenanthrene, and fluorene). The strain Acinetobacter sp.HAR20 exhibited different degrees of resistance to the heavy metals tested (Cd, Zn, Ni, Cu, Fe, and Pb). The highest tolerance was obtained for Pb (600 mg.l-1). The study of lead biosorption at a concentration of 300 mg.l-1 revealed that the bacterium displayed a removal rate of 57.47 ± 7.5%. The strain Acinetobacter sp.HAR20 has shown an interesting biodegradation potential; therefore, it could be proposed as a choice for the bioremediation of contaminated seawater by used engine oils.
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Affiliation(s)
- Soumia Nil
- Laboratory of Aquaculture and Bioremediation (AquaBior), Department of Biotechnology, Faculty of Natural and Life Sciences (Campus I.G.M.O.), University Oran1 Ahmed Ben Bella, Oran, Algeria
| | - Sidi-Mohammed El-Amine Abi-Ayad
- Laboratory of Aquaculture and Bioremediation (AquaBior), Department of Biotechnology, Faculty of Natural and Life Sciences (Campus I.G.M.O.), University Oran1 Ahmed Ben Bella, Oran, Algeria
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Chen C, Xu G, Rogers MJ, He J. Metabolic Synergy of Dehalococcoides Populations Leading to Greater Reductive Dechlorination of Polychlorinated Biphenyls. Environ Sci Technol 2024; 58:2384-2392. [PMID: 38266236 DOI: 10.1021/acs.est.3c08473] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/26/2024]
Abstract
Polychlorinated biphenyls (PCBs) are dioxin-like pollutants that cause persistent harm to life. Organohalide-respiring bacteria (OHRB) can detoxify PCBs via reductive dechlorination, but individual OHRB are potent in dechlorinating only specific PCB congeners, restricting the extent of PCB dechlorination. Moreover, the low biomass of OHRB frequently leads to the slow natural attenuation of PCBs at contaminated sites. Here we constructed defined microbial consortia comprising various combinations of PCB-dechlorinating Dehalococcoides strains (CG1, CG4, and CG5) to successfully enhance PCB dechlorination. Specifically, the defined consortia consisting of strains CG1 and CG4 removed 0.28-0.44 and 0.23-0.25 more chlorine per PCB from Aroclor1260 and Aroclor1254, respectively, compared to individual strains, which was attributed to the emergence of new PCB dechlorination pathways in defined consortia. Notably, different Dehalococcoides populations exhibited similar growth when cocultivated, but temporal differences in the expression of PCB reductive dehalogenase genes indicated their metabolic synergy. Bioaugmentation with individual strains (CG1, CG4, and CG5) or defined consortia led to greater PCB dechlorination in wetland sediments, and augmentation with the consortium comprising strains CG1 and CG4 resulted in the greatest PCB dechlorination. These findings collectively suggest that simultaneous application of multiple Dehalococcoides strains, which catalyze complementary dechlorination pathways, is an effective strategy to accelerate PCB dechlorination.
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Affiliation(s)
- Chen Chen
- Department of Civil and Environmental Engineering, National University of Singapore, Singapore 117576, Singapore
| | - Guofang Xu
- Department of Civil and Environmental Engineering, National University of Singapore, Singapore 117576, Singapore
| | - Matthew James Rogers
- Department of Civil and Environmental Engineering, National University of Singapore, Singapore 117576, Singapore
| | - Jianzhong He
- Department of Civil and Environmental Engineering, National University of Singapore, Singapore 117576, Singapore
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Książek-Trela P, Figura D, Węzka D, Szpyrka E. Degradation of a mixture of 13 polycyclic aromatic hydrocarbons by commercial effective microorganisms. Open Life Sci 2024; 19:20220831. [PMID: 38415204 PMCID: PMC10898624 DOI: 10.1515/biol-2022-0831] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2023] [Revised: 12/27/2023] [Accepted: 01/02/2024] [Indexed: 02/29/2024] Open
Abstract
The study focused on the contribution of effective microorganisms (EM) and their consortia, used in commercial biological preparations and formulations for soil revitalization, to the degradation of a mixture of 13 polycyclic aromatic hydrocarbons (PAHs) commonly found in the soil environment. PAHs, diverse forms of which are present in the environment, never occur individually but always as a part of a chemical mixture. Therefore, the research presented in this article, focusing on the EM impact on the mixture of PAHs, reflects the conditions most similar to natural ones. On Day 35 of the experiment, PAH levels decreased by 75.5-95.5%. The highest PAHs degradation efficiency was achieved for fluorene, with a preparation containing eight bacteria strains from the Bacillus genus: B. coagulans, B. amyloliquefaciens, B. laterosporus, B. licheniformis, B. mucilaginosus, B. megaterium, B. polymyxa, and B. pumilus. All tested preparations containing bacterial consortia and a preparation with the yeast S. cerevisiae intensified the PAHs degradation more effectively than formulations including only the yeast Yarrowia lipolytica or a mixture of Debaryomyces hansenii and Bacillus. The designed and proposed research will contribute to the development of biotechnological methods - bioremediation by microorganisms that are safe for the human and environment health.
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Affiliation(s)
- Paulina Książek-Trela
- Department of Biotechnology, Institute of Biotechnology, University of Rzeszow 1 Pigonia St., 35-310 Rzeszow, Poland
| | - Damian Figura
- Department of Biotechnology, Institute of Biotechnology, University of Rzeszow 1 Pigonia St., 35-310 Rzeszow, Poland
| | - Dominika Węzka
- Department of Biotechnology, Institute of Biotechnology, University of Rzeszow 1 Pigonia St., 35-310 Rzeszow, Poland
| | - Ewa Szpyrka
- Department of Biotechnology, Institute of Biotechnology, University of Rzeszow 1 Pigonia St., 35-310 Rzeszow, Poland
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Ghitti E, Rolli E, Vergani L, Borin S. Flavonoids influence key rhizocompetence traits for early root colonization and PCB degradation potential of Paraburkholderia xenovorans LB400. Front Plant Sci 2024; 15:1325048. [PMID: 38371405 PMCID: PMC10869545 DOI: 10.3389/fpls.2024.1325048] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/20/2023] [Accepted: 01/15/2024] [Indexed: 02/20/2024]
Abstract
Introduction Flavonoids are among the main plant root exudation components, and, in addition to their role in symbiosis, they can broadly affect the functionality of plant-associated microbes: in polluted environments, for instance, flavonoids can induce the expression of the enzymatic degradative machinery to clean-up soils from xenobiotics like polychlorinated biphenyls (PCBs). However, their involvement in root community recruitment and assembly involving non-symbiotic beneficial interactions remains understudied and may be crucial to sustain the holobiont fitness under PCB stress. Methods By using a set of model pure flavonoid molecules and a natural blend of root exudates (REs) with altered flavonoid composition produced by Arabidopsis mutant lines affected in flavonoid biosynthesis and abundance (null mutant tt4, flavonoid aglycones hyperproducer tt8, and flavonoid conjugates hyperaccumulator ttg), we investigated flavonoid contribution in stimulating rhizocompetence traits and the catabolic potential of the model bacterial strain for PCB degradation Paraburkholderia xenovorans LB400. Results Flavonoids influenced the traits involved in bacterial recruitment in the rhizoplane by improving chemotaxis and motility responses, by increasing biofilm formation and by promoting the growth and activation of the PCB-degradative pathway of strain LB400, being thus potentially exploited as carbon sources, stimulating factors and chemoattractant molecules. Indeed, early rhizoplane colonization was favored in plantlets of the tt8 Arabidopsis mutant and reduced in the ttg line. Bacterial growth was promoted by the REs of mutant lines tt4 and tt8 under control conditions and reduced upon PCB-18 stress, showing no significant differences compared with the WT and ttg, indicating that unidentified plant metabolites could be involved. PCB stress presumably altered the Arabidopsis root exudation profile, although a sudden "cry-for-help" response to recruit strain LB400 was excluded and flavonoids appeared not to be the main determinants. In the in vitro plant-microbe interaction assays, plant growth promotion and PCB resistance promoted by strain LB400 seemed to act through flavonoid-independent mechanisms without altering bacterial colonization efficiency and root adhesion pattern. Discussions This study further contributes to elucidate the vast array of functions provided by flavonoids in orchestrating the early events of PCB-degrading strain LB400 recruitment in the rhizosphere and to support the holobiont fitness by stimulating the catabolic machinery involved in xenobiotics decomposition and removal.
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Affiliation(s)
| | - Eleonora Rolli
- Department of Food, Environmental and Nutritional Sciences (DeFENS), University of Milan, Milan, Italy
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Shukla SK, Tkavc R, Sghaier H. Editorial: Microbiology of radioactive environments. Front Microbiol 2024; 15:1352802. [PMID: 38348188 PMCID: PMC10859409 DOI: 10.3389/fmicb.2024.1352802] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2023] [Accepted: 01/04/2024] [Indexed: 02/15/2024] Open
Affiliation(s)
- Sudhir K. Shukla
- Biofouling and Biofilm Processes Section, Water and Steam Chemistry Division, Bhabha Atomic Research Centre Facilities, Kalpakkam, India
- Homi Bhabha National Institute, Mumbai, India
| | - Rok Tkavc
- Henry M. Jackson Foundation for the Advancement of Military Medicine, Bethesda, MD, United States
- Department of Microbiology and Immunology, Uniformed Services University of the Health Sciences, Bethesda, MD, United States
| | - Haitham Sghaier
- Laboratory “Energy and Matter for Development of Nuclear Sciences” (LR16CNSTN02), National Center for Nuclear Sciences and Technology (CNSTN), Sidi Thabet Technopark, Ariana, Tunisia
- Universite de la Manouba, ISBST, BVBGR-LR11ES31, Biotechpole Sidi Thabet, Ariana, Tunisia
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Jayan A, Nizam A, Nagella P, Veerappa Lakshmaiah V. Acidified groundnut cake for enhanced bio adsorption of anionic textile dye Reactive Red 195. Int J Phytoremediation 2024:1-12. [PMID: 38279798 DOI: 10.1080/15226514.2024.2305271] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/29/2024]
Abstract
This study focuses on the improvement of bioremediation of textile dye Reactive Red 195 using agro-industrial waste, groundnut oil cake (GNOC) obtained after oil-pressing. The treatment of GNOC with 1 N H2SO4 had resulted in physiochemical changes on the insoluble porous adsorbent, which improved their adsorption efficiency. The dye removal efficiency increased from 55% to 94% on acidification of GNOC. The raw groundnut oil cake (RGNOC) and acid-treated groundnut oil cake (AGNOC) were characterized using Fourier-transform infrared spectroscopy (FTIR), scanning electron microscopy (SEM), X-ray diffraction, and zeta potential. The rate and efficiency of dye adsorption were examined using adsorption kinetics and isotherm models. The results confirm that acid-treated GNOC eliminates impurities, alter the surface functional groups, and significantly increase porous surface areas of RGNOC. The investigation of key factors such as contact time, initial concentration of dye, static/agitation impact, particle size, and adsorbent dose had significantly influenced adsorption capacity of GNOC. Adsorption of dye fits best into the Langmuir model and equilibrium data of dye on AGNOC was explained by psuedo-second-order reaction with maximum adsorption capacity of 12.65 mg/g. This emphasis AGNOC has a very excellent potential to remove the textile dye Reactive Red dye from industrial effluent.
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Affiliation(s)
- Arpita Jayan
- Department of Life Sciences, CHRIST (Deemed to be University), Bangalore, India
| | - Aatika Nizam
- Deparment of Chemistry, CHRIST (Deemed to be University), Bangalore, India
| | - Praveen Nagella
- Department of Life Sciences, CHRIST (Deemed to be University), Bangalore, India
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50
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Wilcox SM, Mulligan CN, Neculita CM. Microbially Induced Calcium Carbonate Precipitation as a Bioremediation Technique for Mining Waste. Toxics 2024; 12:107. [PMID: 38393202 PMCID: PMC10891697 DOI: 10.3390/toxics12020107] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/28/2023] [Revised: 01/18/2024] [Accepted: 01/24/2024] [Indexed: 02/25/2024]
Abstract
Mining waste represents a global issue due to its potential of generating acidic or alkaline leachate with high concentrations of metals and metalloids (metal(loid)s). Microbial-induced calcium carbonate precipitation (MICP) is an engineering tool used for remediation. MICP, induced via biological activity, aims to precipitate calcium carbonate (CaCO3) or co-precipitate other metal carbonates (MCO3). MICP is a bio-geochemical remediation method that aims to immobilize or remove metal(loid)s via enzyme, redox, or photosynthetic metabolic pathways. Contaminants are removed directly through immobilization as mineral precipitates (CaCO3 or MCO3), or indirectly (via sorption, complexes, or inclusion into the crystal structure). Further, CaCO3 precipitates deposited on the surface or within the pore spaces of a solid matrix create a clogging effect to reduce contaminant leachate. Experimental research on MICP has shown its promise as a bioremediation technique for mining waste. Additional research is required to evaluate the long-term feasibility and potential by-products of MICP-treated/stabilized waste.
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Affiliation(s)
- Samantha M. Wilcox
- Department of Building, Civil and Environmental Engineering, Concordia University, Montréal, QC H3G IM8, Canada
| | - Catherine N. Mulligan
- Department of Building, Civil and Environmental Engineering, Concordia University, Montréal, QC H3G IM8, Canada
| | - Carmen Mihaela Neculita
- Research Institute on Mines and the Environment (RIME), University of Quebec in Abitibi-Témiscamingue, Rouyn-Noranda, QC J9X 5E4, Canada;
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