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Hintersatz C, Tsushima S, Kaufer T, Kretzschmar J, Thewes A, Pollmann K, Jain R. Efficient density functional theory directed identification of siderophores with increased selectivity towards indium and germanium. JOURNAL OF HAZARDOUS MATERIALS 2024; 478:135523. [PMID: 39178780 DOI: 10.1016/j.jhazmat.2024.135523] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2024] [Revised: 08/06/2024] [Accepted: 08/13/2024] [Indexed: 08/26/2024]
Abstract
Siderophores are promising ligands for application in novel recycling and bioremediation technologies, as they can selectively complex a variety of metals. However, with over 250 known siderophores, the selection of suiting complexants in the wet lab is impractical. Thus, this study established a density functional theory (DFT) based approach to efficiently identify siderophores with increased selectivity towards target metals on the example of germanium and indium. Considering 239 structures, chemically similar siderophores were clustered, and their complexation reactions modeled utilizing DFT. The calculations revealed siderophores with, compared to the reference siderophore desferrioxamine B (DFOB), up to 128 % or 48 % higher selectivity for indium or germanium, respectively. Experimental validation of the method was conducted with fimsbactin A and agrobactin, demonstrating up to 40 % more selective indium binding and at least sevenfold better germanium binding than DFOB, respectively. The results generated in this study open the door for the utilization of siderophores in eco-friendly technologies for the recovery of many different critical metals from various industry waters and leachates or bioremediation approaches. This endeavor is greatly facilitated by applying the herein-created database of geometry-optimized siderophore structures as de novo modeling of the molecules can be omitted.
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Affiliation(s)
- Christian Hintersatz
- Helmholtz Institute Freiberg for Resource Technology, Department of Biotechnology, Helmholtz-Zentrum Dresden-Rossendorf, Bautzner Landstraße 400, 01328 Dresden, Germany
| | - Satoru Tsushima
- Institute of Resource Ecology, Department of Biophysics, Helmholtz-Zentrum Dresden-Rossendorf, Bautzner Landstraße 400, 01328 Dresden, Germany
| | - Tobias Kaufer
- Helmholtz Institute Freiberg for Resource Technology, Department of Biotechnology, Helmholtz-Zentrum Dresden-Rossendorf, Bautzner Landstraße 400, 01328 Dresden, Germany
| | - Jerome Kretzschmar
- Institute of Resource Ecology, Department of Actinide Thermodynamics, Helmholtz-Zentrum Dresden-Rossendorf, Bautzner Landstraße 400, 01328 Dresden, Germany
| | - Angela Thewes
- Helmholtz Institute Freiberg for Resource Technology, Department of Biotechnology, Helmholtz-Zentrum Dresden-Rossendorf, Bautzner Landstraße 400, 01328 Dresden, Germany
| | - Katrin Pollmann
- Helmholtz Institute Freiberg for Resource Technology, Department of Biotechnology, Helmholtz-Zentrum Dresden-Rossendorf, Bautzner Landstraße 400, 01328 Dresden, Germany
| | - Rohan Jain
- Helmholtz Institute Freiberg for Resource Technology, Department of Biotechnology, Helmholtz-Zentrum Dresden-Rossendorf, Bautzner Landstraße 400, 01328 Dresden, Germany.
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Li X, Yang M, Mo K, Hu Y, Gu H, Sun D, Bao S, Huang H. Genome Analysis of Multiple Polysaccharide-Degrading Bacterium Microbulbifer thermotolerans HB226069: Determination of Alginate Lyase Activity. MARINE BIOTECHNOLOGY (NEW YORK, N.Y.) 2024; 26:488-499. [PMID: 38668917 DOI: 10.1007/s10126-024-10311-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/07/2023] [Accepted: 04/05/2024] [Indexed: 06/15/2024]
Abstract
Polysaccharide-degrading bacteria are key participants in the global carbon cycle and algal biomass recycling. Herein, a polysaccharide lyase-producing strain HB226069 was isolated from Sargassum sp. from Qingge Port, Hainan, China. Results of the phylogenetic of the 16S rRNA gene and genotypic analysis indicated that the isolate should be classified as Microbulbifer thermotolerans. The whole genome is a 4,021,337 bp circular chromosome with a G+C content of 56.5%. Analysis of the predicted genes indicated that strain HB226069 encoded 161 carbohydrate-active enzymes (CAZymes), and abundant putative enzymes involved in polysaccharide degradation were predicted, including alginate lyase, fucosidase, agarase, xylanase, cellulase, pectate lyase, amylase, and chitinase. Three of the putative polysaccharide lyases from PL7 and PL17 families were involved in alginate degradation. The alginate lyases of strain HB226069 showed the maximum activity of 117.4 U/mL at 50 °C, pH 7.0, and 0.05 M FeCl3, while exhibiting the best stability at 30 °C and pH 7.0. The Thin Layer Chromatography (TLC) and Electrospray Ionization Mass Spectrometry (ESI-MS) analyses indicated that the alginate oligosaccharides (AOSs) degraded by the partially purified alginate lyases contained oligosaccharides of DP2-DP5 and monosaccharide while reacting for 36 h. The complete genome of M. thermotolerans HB226069 enriches our understanding of the mechanism of polysaccharide lyase production and supports its potential application in polysaccharide degradation.
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Affiliation(s)
- Xue Li
- College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, 163000, Heilongjiang, China
| | - Miao Yang
- Institute of Tropical Bioscience and Biotechnology, Hainan Institute for Tropical Agricultural Resources, CATAS, Haikou, 571101, Hainan, China
- College of Life Science and Technology, Huazhong Agricultural University, CATAS, Wuhan, 430070, Hubei, China
| | - Kunlian Mo
- Institute of Tropical Bioscience and Biotechnology, Hainan Institute for Tropical Agricultural Resources, CATAS, Haikou, 571101, Hainan, China
- Zhanjiang Experimental Station, CATAS, Zhanjiang, 524013, Guangdong, China
- Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou, 571101, Hainan, China
| | - Yonghua Hu
- Institute of Tropical Bioscience and Biotechnology, Hainan Institute for Tropical Agricultural Resources, CATAS, Haikou, 571101, Hainan, China
- Zhanjiang Experimental Station, CATAS, Zhanjiang, 524013, Guangdong, China
- Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou, 571101, Hainan, China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, 266071, Shandong, China
| | - Hanjie Gu
- Institute of Tropical Bioscience and Biotechnology, Hainan Institute for Tropical Agricultural Resources, CATAS, Haikou, 571101, Hainan, China
- Zhanjiang Experimental Station, CATAS, Zhanjiang, 524013, Guangdong, China
- Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou, 571101, Hainan, China
| | - Dongmei Sun
- College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, 163000, Heilongjiang, China.
| | - Shixiang Bao
- Institute of Tropical Bioscience and Biotechnology, Hainan Institute for Tropical Agricultural Resources, CATAS, Haikou, 571101, Hainan, China.
- Zhanjiang Experimental Station, CATAS, Zhanjiang, 524013, Guangdong, China.
- Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou, 571101, Hainan, China.
| | - Huiqin Huang
- Institute of Tropical Bioscience and Biotechnology, Hainan Institute for Tropical Agricultural Resources, CATAS, Haikou, 571101, Hainan, China.
- Zhanjiang Experimental Station, CATAS, Zhanjiang, 524013, Guangdong, China.
- Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou, 571101, Hainan, China.
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Xie B, Wei X, Wan C, Zhao W, Song R, Xin S, Song K. Exploring the Biological Pathways of Siderophores and Their Multidisciplinary Applications: A Comprehensive Review. Molecules 2024; 29:2318. [PMID: 38792179 PMCID: PMC11123847 DOI: 10.3390/molecules29102318] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2024] [Revised: 05/11/2024] [Accepted: 05/13/2024] [Indexed: 05/26/2024] Open
Abstract
Siderophores are a class of small molecules renowned for their high iron binding capacity, essential for all life forms requiring iron. This article provides a detailed review of the diverse classifications, and biosynthetic pathways of siderophores, with a particular emphasis on siderophores synthesized via nonribosomal peptide synthetase (NRPS) and non-NRPS pathways. We further explore the secretion mechanisms of siderophores in microbes and plants, and their role in regulating bioavailable iron levels. Beyond biological functions, the applications of siderophores in medicine, agriculture, and environmental sciences are extensively discussed. These applications include biological pest control, disease treatment, ecological pollution remediation, and heavy metal ion removal. Through a comprehensive analysis of the chemical properties and biological activities of siderophores, this paper demonstrates their wide prospects in scientific research and practical applications, while also highlighting current research gaps and potential future directions.
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Affiliation(s)
| | | | | | | | | | - Shuquan Xin
- School of Life Science, Changchun Normal University, Changchun 130032, China; (B.X.); (X.W.); (C.W.); (W.Z.); (R.S.)
| | - Kai Song
- School of Life Science, Changchun Normal University, Changchun 130032, China; (B.X.); (X.W.); (C.W.); (W.Z.); (R.S.)
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Majewska M, Słomka A, Hanaka A. Siderophore-producing bacteria from Spitsbergen soils-novel agents assisted in bioremediation of the metal-polluted soils. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2024; 31:32371-32381. [PMID: 38652189 PMCID: PMC11133149 DOI: 10.1007/s11356-024-33356-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2023] [Accepted: 04/12/2024] [Indexed: 04/25/2024]
Abstract
Siderophores are molecules that exhibit a high specificity for iron (Fe), and their synthesis is induced by a deficiency of bioavailable Fe. Complexes of Fe-siderophore are formed extracellularly and diffuse through porins across membranes into bacterial cells. Siderophores can bind heavy metals facilitating their influx into cells via the same mechanism. The aim of the studies was to determine the ability of siderophore-producing bacteria isolated from soils in the north-west part of Wedel Jarlsberg Land (Spitsbergen) to chelate non-Fe metals (Al, Cd, Co, Cu, Hg, Mn, Sn, and Zn). Specially modified blue agar plates were used, where Fe was substituted by Al, Cd, Co, Cu, Hg, Mn, Sn, or Zn in metal-chrome azurol S (CAS) complex, which retained the blue color. It has been proven that 31 out of 33 strains were capable of producing siderophores that bind to Fe, as well as other metals. Siderophores from Pantoea sp. 24 bound only Fe and Zn, and O. anthropi 55 did not produce any siderophores in pure culture. The average efficiency of Cd, Co, Cu, Mn, Sn, and Zn chelation was either comparable or higher than that of Fe, while Al and Hg showed significantly lower efficiency. Siderophores produced by S. maltophilia 54, P. luteola 27, P. luteola 46, and P. putida 49 exhibited the highest non-Fe metal chelation activity. It can be concluded that the siderophores of these bacteria may constitute an integral part of the metal bioleaching preparation, and this fact will be the subject of further research.
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Affiliation(s)
- Małgorzata Majewska
- Department of Industrial and Environmental Microbiology, Institute of Biological Sciences, Faculty of Biology and Biotechnology, Maria Curie-Skłodowska University, Akademicka 19, 20-031, Lublin, Poland.
| | - Anna Słomka
- Department of Industrial and Environmental Microbiology, Institute of Biological Sciences, Faculty of Biology and Biotechnology, Maria Curie-Skłodowska University, Akademicka 19, 20-031, Lublin, Poland
| | - Agnieszka Hanaka
- Department of Plant Physiology and Biophysics, Institute of Biological Sciences, Faculty of Biology and Biotechnology, Maria Curie-Skłodowska University, Akademicka 19, 20-031, Lublin, Poland
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Chen J, Zhang X, Kuang M, Cui K, Xu T, Liu X, Zhuo R, Qin Z, Bu Z, Huang Z, Li H, Huang J, Liu T, Zhu Y. Endophytic Enterobacter sp. YG-14 mediated arsenic mobilization through siderophore and its role in enhancing phytostabilization. JOURNAL OF HAZARDOUS MATERIALS 2024; 465:133206. [PMID: 38134692 DOI: 10.1016/j.jhazmat.2023.133206] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/07/2023] [Revised: 11/26/2023] [Accepted: 12/07/2023] [Indexed: 12/24/2023]
Abstract
Soil arsenic (As) phytoremediation has long faced the challenge of efficiently absorbing As by plant accumulators while maintaining their health and fast growth. Even at low doses, arsenic is highly toxic to plants. Therefore, plant growth-promoting microorganisms that can mediate As accumulation in plants are of great interest. In this study, the endophyte Enterobacter sp. YG-14 (YG-14) was found to have soil mobilization activity. By constructing a siderophore synthesis gene deletion mutant (ΔentD) of YG-14, the endophyte was confirmed to effectively mobilize Fe-As complexes in mining soil by secreting enterobactin, releasing bioavailable Fe and As to the rhizosphere. YG-14 also enhances As accumulation in host plants via extracellular polymer adsorption and specific phosphatase transfer protein (PitA) absorption. The root accumulation of As was positively correlated with YG-14 root colonization. In addition, YG-14 promoted plant growth and alleviated oxidative damage in R. pseudoacacia L. under arsenic stress. This is the first study, from phenotype, physiology, and molecular perspectives, to determine the role of endophyte in promoting As phytostabilization and maintaining the growth of the host plant. This demonstrated the feasibility of using endophytes with high siderophore production to assist host plants in As phytoremediation.
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Affiliation(s)
- Jiawei Chen
- Hunan Provincial Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha 410082, Hunan, PR China
| | - Xuan Zhang
- State Key Laboratory of Utilization of Woody Oil Resource, Hunan Academy of Forestry, Changsha 410004, PR China
| | - Min Kuang
- Hunan Provincial Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha 410082, Hunan, PR China
| | - Kunpeng Cui
- Hunan Provincial Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha 410082, Hunan, PR China
| | - Ting Xu
- Hunan Provincial Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha 410082, Hunan, PR China
| | - Xuanming Liu
- Hunan Provincial Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha 410082, Hunan, PR China
| | - Rui Zhuo
- Hunan Provincial Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha 410082, Hunan, PR China
| | - Ziwei Qin
- Hunan Provincial Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha 410082, Hunan, PR China
| | - Zhigang Bu
- Hunan Provincial Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha 410082, Hunan, PR China
| | - Zhongliang Huang
- State Key Laboratory of Utilization of Woody Oil Resource, Hunan Academy of Forestry, Changsha 410004, PR China
| | - Hui Li
- State Key Laboratory of Utilization of Woody Oil Resource, Hunan Academy of Forestry, Changsha 410004, PR China
| | - Jing Huang
- State Key Laboratory of Utilization of Woody Oil Resource, Hunan Academy of Forestry, Changsha 410004, PR China
| | - Tingting Liu
- State Key Laboratory of Utilization of Woody Oil Resource, Hunan Academy of Forestry, Changsha 410004, PR China
| | - Yonghua Zhu
- Hunan Provincial Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha 410082, Hunan, PR China.
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Passari AK, Ruiz-Villafán B, Cruz-Bautista R, Díaz-Domínguez V, Rodríguez-Sanoja R, Sanchez S. Opportunities and challenges of microbial siderophores in the medical field. Appl Microbiol Biotechnol 2023; 107:6751-6759. [PMID: 37755507 PMCID: PMC10589192 DOI: 10.1007/s00253-023-12742-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2023] [Revised: 08/15/2023] [Accepted: 08/23/2023] [Indexed: 09/28/2023]
Abstract
Siderophores are low-molecular-weight secondary metabolites that function as iron chelators. Under iron-deficiency conditions, they are produced by a wide variety of microbes, allowing them to increase their iron uptake. The primary function of these compounds is the environmental iron scavenging and its transport into the cytosol. Iron is then reduced to its ferrous form to operate as an enzymatic cofactor for various functions, including respiration, nitrogen fixation, photosynthesis, methanogenesis, and amino acid synthesis. Depending on their functional group, siderophores are classified into hydroxamate, catecholate, phenolate, carboxylate, and mixed types. They have achieved great importance in recent years due to their medical applications as antimicrobial, antimalarial, or anticancer drugs, vaccines, and drug-delivery agents. This review integrates current advances in specific healthcare applications of microbial siderophores, delineating new opportunities and challenges as viable therapies to fight against diseases that represent crucial public health problems in the medical field.Key points• Siderophores are low-molecular-weight secondary metabolites functioning as iron chelators.• The siderophore's properties offer viable options to face diverse clinical problems.• Siderophores are alternatives for the enhancement of antibiotic activities.
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Affiliation(s)
- Ajit Kumar Passari
- Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, 04510, Mexico City, Mexico
| | - Beatriz Ruiz-Villafán
- Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, 04510, Mexico City, Mexico
| | - Rodrigo Cruz-Bautista
- Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, 04510, Mexico City, Mexico
| | - Valerie Díaz-Domínguez
- Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, 04510, Mexico City, Mexico
| | - Romina Rodríguez-Sanoja
- Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, 04510, Mexico City, Mexico
| | - Sergio Sanchez
- Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, 04510, Mexico City, Mexico.
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Li Y, Wei S, Chen X, Dong Y, Zeng M, Yan C, Hou L, Jiao R. Isolation of cadmium-resistance and siderophore-producing endophytic bacteria and their potential use for soil cadmium remediation. Heliyon 2023; 9:e17661. [PMID: 37539295 PMCID: PMC10395048 DOI: 10.1016/j.heliyon.2023.e17661] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2023] [Revised: 06/12/2023] [Accepted: 06/25/2023] [Indexed: 08/05/2023] Open
Abstract
Endophyte-assisted phytoremediation is an emerging technique for soil heavy metals (HMs) remediation and has become a research focus in the world because of the benefits of endophytes on plant growth and uptake of HMs. In this study, multifunctional endophytic bacteria strains were isolated and screened, and the feasibility of these strains for soil cadmium (Cd) remediation was investigated by soil incubation experiments and pot experiments. All endophytic bacteria were isolated from the roots of woody plants grown on Cd-contaminated soil. Seven endophytic bacteria strains had capacities to tolerate Cd toxicity and produce siderophores, and sequence analysis of the 16S rRNA gene classified these strains as belonging to the genera Burkholderia, Pseudomonas, Pantoea, and Herbaspirillum. All strains were able to produce hydroxamate siderophores (32.40%-91.49%) and had three or more plant growth promoting properties such as phosphorus solubilization, nitrogen fixation, indole acetic acid and 1-aminocyclopropane-1-carboxylate deaminase production. They were all strongly resistant to Cd2+ toxicity, with the minimum inhibitory concentration in LB medium ranging from 1.5 mM to 9.0 mM. Except for strain Burkholderia contaminans JLS17, other strains showed decreasing removal rates within continuously elevated Cd2+ concentration of 10-100 mg L-1. Compared with the uninoculated treatment, the inoculation of strains B.contaminans JLS17, Pseudomonas lurida JLS32, and Pantoea endophytica JLS50 effectively increased the concentration of acid-soluble Cd and decreased the concentration of reducible, oxidizable, and residual Cd in the soils of different Cd contamination levels. In pot experiments, inoculation of strains JLS17 and YTG72 significantly (p < 0.05) promoted the growth of above-ground parts and root system of slash pine (Pinus elliottii) under Cd stress. This study provides a valuable biological resource for endophyte-assisted phytoremediation and a theoretical basis for the application of endophytic bacteria for remediation of Cd-contaminated soil.
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Affiliation(s)
- Yanglong Li
- Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
- State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing 100091, China
- Key Laboratory of Tree Breeding and Cultivation of State Forestry Administration, Chinese Academy of Forestry, Beijing 100091, China
| | - Shumeng Wei
- Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
- State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing 100091, China
- Key Laboratory of Tree Breeding and Cultivation of State Forestry Administration, Chinese Academy of Forestry, Beijing 100091, China
| | - Xiangteng Chen
- Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
- State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing 100091, China
- Key Laboratory of Tree Breeding and Cultivation of State Forestry Administration, Chinese Academy of Forestry, Beijing 100091, China
| | - Yuhong Dong
- Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
- State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing 100091, China
- Key Laboratory of Tree Breeding and Cultivation of State Forestry Administration, Chinese Academy of Forestry, Beijing 100091, China
| | - Mansheng Zeng
- Experimental Center of Subtropical Forestry, Chinese Academy of Forestry, Fenyi 336600, China
| | - Chaowu Yan
- Forestry Bureau of Xinyu City, Jiangxi Province, Xinyu 338000, China
| | - Lingyu Hou
- Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
- State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing 100091, China
- Key Laboratory of Tree Breeding and Cultivation of State Forestry Administration, Chinese Academy of Forestry, Beijing 100091, China
| | - Ruzhen Jiao
- Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
- State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing 100091, China
- Key Laboratory of Tree Breeding and Cultivation of State Forestry Administration, Chinese Academy of Forestry, Beijing 100091, China
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Malik S, Kumar D. Perspectives of nanomaterials in microbial remediation of heavy metals and their environmental consequences: A review. Biotechnol Genet Eng Rev 2023:1-48. [PMID: 36871166 DOI: 10.1080/02648725.2023.2182546] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2022] [Accepted: 02/06/2023] [Indexed: 03/06/2023]
Abstract
Nanomaterials (NMs) have diverse applications in various sectors, such as decontaminating heavy metals from drinking water, wastewater, and soil. Their degradation efficiency can be enhanced through the application of microbes. As microbial strain releases enzymes, which leads to the degradation of HMs. Therefore, nanotechnology and microbial-assisted remediation-based methods help us develop a remediation process with practical utility, speed, and less environmental toxicity. This review focuses on the success achieved for the bioremediation of heavy metals by nanoparticles and microbial strains and in their integrated approach. Still, the use of NMs and heavy metals (HMs) can negatively affect the health of living organisms. This review describes various aspects of the bioremediation of heavy materials using microbial nanotechnology. Their safe and specific use supported by bio-based technology paves the way for their better remediation. We discuss the utility of nanomaterials for removing heavy metals from wastewater, toxicity studies and issues to the environment with their practical implications. Nanomaterial assisted heavy metal degradation coupled with microbial technology and disposal issues are described along with detection methods. Environmental impact of nanomaterials is also discussed based on the recent work conducted by the researchers. Therefore, this review opens new avenues for future research with an impact on the environment and toxicity issues. Also, applying new biotechnological tools will help us develop better heavy metal degradation routes.
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Affiliation(s)
- Sachin Malik
- Department of Biotechnology, Deenbandhu Chhotu Ram University of Science and Technology, Sonepat, Haryana, India
| | - Dharmender Kumar
- Department of Biotechnology, Deenbandhu Chhotu Ram University of Science and Technology, Sonepat, Haryana, India
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Iqbal S, Begum F, Rabaan AA, Aljeldah M, Al Shammari BR, Alawfi A, Alshengeti A, Sulaiman T, Khan A. Classification and Multifaceted Potential of Secondary Metabolites Produced by Bacillus subtilis Group: A Comprehensive Review. Molecules 2023; 28:molecules28030927. [PMID: 36770594 PMCID: PMC9919246 DOI: 10.3390/molecules28030927] [Citation(s) in RCA: 22] [Impact Index Per Article: 22.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2022] [Revised: 12/31/2022] [Accepted: 01/04/2023] [Indexed: 01/19/2023] Open
Abstract
Despite their remarkable biosynthetic potential, Bacillus subtilis have been widely overlooked. However, their capability to withstand harsh conditions (extreme temperature, Ultraviolet (UV) and γ-radiation, and dehydration) and the promiscuous metabolites they synthesize have created increased commercial interest in them as a therapeutic agent, a food preservative, and a plant-pathogen control agent. Nevertheless, the commercial-scale availability of these metabolites is constrained due to challenges in their accessibility via synthesis and low fermentation yields. In the context of this rising in interest, we comprehensively visualized the antimicrobial peptides produced by B. subtilis and highlighted their prospective applications in various industries. Moreover, we proposed and classified these metabolites produced by the B. subtilis group based on their biosynthetic pathways and chemical structures. The biosynthetic pathway, bioactivity, and chemical structure are discussed in detail for each class. We believe that this review will spark a renewed interest in the often disregarded B. subtilis and its remarkable biosynthetic capabilities.
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Affiliation(s)
- Sajid Iqbal
- Atta-ur-Rahman School of Applied Biosciences, National University of Sciences and Technology (NUST), Islamabad 44000, Pakistan
- Correspondence: or
| | - Farida Begum
- Department of Biochemistry, Abdul Wali Khan University Mardan (AWKUM), Mardan 23200, Pakistan
| | - Ali A. Rabaan
- Molecular Diagnostic Laboratory, Johns Hopkins Aramco Healthcare, Dhahran 31311, Saudi Arabia
- College of Medicine, Alfaisal University, Riyadh 11533, Saudi Arabia
- Department of Public Health and Nutrition, The University of Haripur, Haripur 22610, Pakistan
| | - Mohammed Aljeldah
- Department of Clinical Laboratory Sciences, College of Applied Medical Sciences, University of Hafr Al Batin, Hafr Al Batin 39831, Saudi Arabia
| | - Basim R. Al Shammari
- Department of Clinical Laboratory Sciences, College of Applied Medical Sciences, University of Hafr Al Batin, Hafr Al Batin 39831, Saudi Arabia
| | - Abdulsalam Alawfi
- Department of Pediatrics, College of Medicine, Taibah University, Al-Madinah 41491, Saudi Arabia
| | - Amer Alshengeti
- Department of Pediatrics, College of Medicine, Taibah University, Al-Madinah 41491, Saudi Arabia
- Department of Infection Prevention and Control, Prince Mohammad Bin Abdulaziz Hospital, National Guard Health Affairs, Al-Madinah 41491, Saudi Arabia
| | - Tarek Sulaiman
- Infectious Diseases Section, Medical Specialties Department, King Fahad Medical City, Riyadh 12231, Saudi Arabia
| | - Alam Khan
- Department of Life Sciences, Abasyn University Islamabad Campus, Islamabad 44000, Pakistan
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10
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Zhang J, Wang P, Tao Z, Tian H, Guo T. Phosphate-solubilizing bacteria abate cadmium absorption and restore the rhizospheric bacterial community composition of grafted watermelon plants. JOURNAL OF HAZARDOUS MATERIALS 2022; 438:129563. [PMID: 35999731 DOI: 10.1016/j.jhazmat.2022.129563] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2022] [Revised: 06/21/2022] [Accepted: 07/06/2022] [Indexed: 06/15/2023]
Abstract
The grafting of watermelon plants to rootstocks is common due to the strong capacity of rootstocks to adapt to abiotic and biotic stresses. However, the effect of phosphate-solubilizing bacteria (PSB) on grafted watermelon plant growth and bacterial structures in root soil is unclear. In this study, the growth and hormone levels of grafted plants were measured, and the bacterial communities under cadmium (Cd) stress and inoculation with PSB were sequenced in three treatments (S1, control; S2, 50 μmol Cd [CdCl2]; and S3, 50 μmol Cd plus inoculation with the Cd-resistant PSB strain 'N3'). The results showed that inoculation with PSB significantly (P < 0.05) improved the total dry weight of the grafted plants. Typically, inoculation with PSB significantly (P < 0.05) reduced Cd content in scions and roots. The level of the phytohormone jasmonic acid increased in treatment S2, but decreased in treatment S3 under inoculation with PSB. The functional annotation of prokaryotic taxa showed that Cd decreased the abundance of nitrogen respiration and chloroplast functional groups. Nevertheless, inoculation with PSB helped restore bacterial community structures. These findings provide a new understanding of the effect of PSB on the promotion of seedling growth and bacterial communities in grafted watermelon plants under Cd stress.
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Affiliation(s)
- Jian Zhang
- Institute of Horticulture, Anhui Academy of Agricultural Sciences, Hefei 230031 Anhui Province, PR China; Key Laboratory of Intelligent Seedling Breeding in Vegetable Factory, Ma-an-shan 238200, Anhui Province, PR China; Key Laboratory of Genetic Improvement and Ecophysiology of Horticultural Crops, Hefei 230031 Anhui Province, PR China.
| | - Pengcheng Wang
- Institute of Horticulture, Anhui Academy of Agricultural Sciences, Hefei 230031 Anhui Province, PR China; Key Laboratory of Intelligent Seedling Breeding in Vegetable Factory, Ma-an-shan 238200, Anhui Province, PR China; Key Laboratory of Genetic Improvement and Ecophysiology of Horticultural Crops, Hefei 230031 Anhui Province, PR China
| | - Zhen Tao
- Institute of Horticulture, Anhui Academy of Agricultural Sciences, Hefei 230031 Anhui Province, PR China
| | - Hongmei Tian
- Institute of Horticulture, Anhui Academy of Agricultural Sciences, Hefei 230031 Anhui Province, PR China; Key Laboratory of Intelligent Seedling Breeding in Vegetable Factory, Ma-an-shan 238200, Anhui Province, PR China; Key Laboratory of Genetic Improvement and Ecophysiology of Horticultural Crops, Hefei 230031 Anhui Province, PR China
| | - Tingting Guo
- Institute of Horticulture, Anhui Academy of Agricultural Sciences, Hefei 230031 Anhui Province, PR China; School of Life Sciences, Anhui Agricultural University, Hefei 230036 Anhui Province, PR China
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11
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Khan A, Singh P, Chaudhary A, Haque R, Singh P, Mishra AK, Sarkar A, Srivastava A. Induction of Iron Stress in Hepatocellular Carcinoma Cell Lines by Siderophore of Aspergillus nidulans Towards Promising Anticancer Effect. Biol Trace Elem Res 2022; 200:3594-3607. [PMID: 34705190 DOI: 10.1007/s12011-021-02980-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 08/26/2021] [Accepted: 10/17/2021] [Indexed: 11/26/2022]
Abstract
Hepatocellular carcinoma is among the leading causes of cancer-related deaths worldwide and needs efficient and feasible approach of treatment. Present study focuses on exploring the anticancer activity of a secondary metabolite called siderophore of Aspergillus nidulans against hepatocellular carcinoma cell line HepG2. These small peptides are produced by microorganisms including fungi for scavenging iron from its surroundings. Fungi including Aspergillus spp. are known to produce siderophores under iron-limited conditions. Siderophores have high affinity towards iron and are classified into various types. In the present study, siderophore isolated and purified from fungal cultures was confirmed to be of hydroxamate type by chrome azurol sulfonate and Atkin's assay. HPLC analysis confirmed purity while LC-ESI-MS revealed that the siderophore is triacetyl fusigen. Cancerous cells, HepG2, grown under siderophore treatment showed inhibition in growth and proliferation in a dose- and time-dependent manner. Reduction in viability and metabolic activity was evident upon treatment as seen in trypan blue, MTT and WST assay. Fluorescent staining using PI and DAPI confirmed the same while DCFDA staining revealed increased reactive oxygen species production which might have led to cell death and deterioration. Such increase in ROS has been correlated with iron accumulation by assessing intracellular iron level through ICP-MS. To assess the effect of siderophore treatment on normal cells, WRL-68, same assays were carried out but the effect was mostly non-significant up to 48 h. Thus, present work suggests that an optimum dose of siderophore purified from A. nidulans culture might prove a useful anticancer agent.
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Affiliation(s)
- Azmi Khan
- Department of Life Science, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, Bihar, India
| | - Pratika Singh
- Department of Life Science, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, Bihar, India
| | - Archana Chaudhary
- Department of Biotechnology, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, Bihar, India
| | - Rizwanul Haque
- Department of Biotechnology, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, Bihar, India
| | - Prashant Singh
- Department of Botany, Banaras Hindu University, Varanasi, Uttar Pradesh, India
| | - Arun Kumar Mishra
- Laboratory of Microbial Genetics, Banaras Hindu University, Varanasi, Uttar Pradesh, India
| | - Abhijit Sarkar
- Laboratory of Applied Stress Biology, Department of Botany, University of Gour Banga, Malda, West Bengal, India
| | - Amrita Srivastava
- Department of Life Science, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, Bihar, India.
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12
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Roskova Z, Skarohlid R, McGachy L. Siderophores: an alternative bioremediation strategy? THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 819:153144. [PMID: 35038542 DOI: 10.1016/j.scitotenv.2022.153144] [Citation(s) in RCA: 36] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/16/2021] [Revised: 01/07/2022] [Accepted: 01/11/2022] [Indexed: 05/15/2023]
Abstract
Siderophores are small molecular weight iron scavengers that are mainly produced by bacteria, fungi, and plants. Recently, they have attracted increasing attention because of their potential role in environmental bioremediation. Although siderophores are generally considered to exhibit high specificity for iron, they have also been reported to bind to various metal and metalloid ions. This unique ability allows siderophores to solubilise and mobilise heavy metals and metalloids from soil, thereby facilitating their bioremediation. In addition, because of their redox nature, they can mediate the production of reactive oxygen species (ROS), and thus promote the biodegradation of organic contaminants. The aim of this review is to summarise the existing knowledge on the developed strategies of siderophore-assisted bioremediation of metals, metalloids, and organic contaminants. Additionally, this review also includes the biosynthesis and classification of microbial and plant siderophores.
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Affiliation(s)
- Zuzana Roskova
- Department of Environmental Chemistry, University of Chemistry and Technology Prague, Technická 5, 16628 Prague, Czech Republic
| | - Radek Skarohlid
- Department of Environmental Chemistry, University of Chemistry and Technology Prague, Technická 5, 16628 Prague, Czech Republic
| | - Lenka McGachy
- Department of Environmental Chemistry, University of Chemistry and Technology Prague, Technická 5, 16628 Prague, Czech Republic.
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13
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Yi S, Li F, Wu C, Wei M, Tian J, Ge F. Synergistic leaching of heavy metal-polycyclic aromatic hydrocarbon in co-contaminated soil by hydroxamate siderophore: Role of cation-π and chelation. JOURNAL OF HAZARDOUS MATERIALS 2022; 424:127514. [PMID: 34879514 DOI: 10.1016/j.jhazmat.2021.127514] [Citation(s) in RCA: 18] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/27/2021] [Revised: 10/05/2021] [Accepted: 10/13/2021] [Indexed: 06/13/2023]
Abstract
Exploring a novel green efficient bioeluant is a golden key to unlock the ex-situ scale remediation of soil contaminated with heavy metals (HMs) and polycyclic aromatic hydrocarbons (PAHs). Hydroxamate siderophore (HDS) produced by Pseudomonas fluorescens HMP01, with certain hydrophobicity and strong coordination because of its special chemical structure (e.g., hydroxamic acid and dihydroxy quinoline chromophore), was used to investigate the bioleaching efficiency of HMs and PAHs from actual contaminated soils and underlying mechanisms. Results showed that leaching efficiency for HMs and PAHs from the co-contaminated soil was higher than that of single contaminated soil due to the cation-π interaction and coordination, which was closely related to the spacial configuration changes of the complex. HDS not only increased the bioleaching efficiency of cationic HMs by chelation (the leaching amount of Cd2+, Pb2+, Hg2+, Cu2+, Zn2+, and Ni2+ achieved 27.5, 110.4, 6.9, 477.7, 10,606.9, and 137.4 mg/kg HDS, respectively) but also enhanced the bioleaching amount of PAHs by solubilization (the leaching amount of phenanthrene reached 90.2 mg/kg HDS. Also, the residual HDS in soils caused no significant ecological risk. As expected, HDS is a desirable bioeluant to promote the scale application of the ex-situ remediation of soil contaminated with HMs and PAHs.
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Affiliation(s)
- Shengwei Yi
- College of Environment Science and Resources, Xiangtan University, Xiangtan 411105, PR China; Hunan Engineering Laboratory for High-Efficiency Purification Technology and its Application on Complex Heavy Metal Wastewater Treatment, Xiangtan 411105, PR China; Scientific Research Innovation Platform of Environmental Behavior and Control Principle about Novel Pollutants in Hunan Provincial Universities, Xiangtan 411105, PR China
| | - Feng Li
- College of Environment Science and Resources, Xiangtan University, Xiangtan 411105, PR China; Hunan Engineering Laboratory for High-Efficiency Purification Technology and its Application on Complex Heavy Metal Wastewater Treatment, Xiangtan 411105, PR China; Scientific Research Innovation Platform of Environmental Behavior and Control Principle about Novel Pollutants in Hunan Provincial Universities, Xiangtan 411105, PR China.
| | - Chen Wu
- College of Environment Science and Resources, Xiangtan University, Xiangtan 411105, PR China; Hunan Engineering Laboratory for High-Efficiency Purification Technology and its Application on Complex Heavy Metal Wastewater Treatment, Xiangtan 411105, PR China; Scientific Research Innovation Platform of Environmental Behavior and Control Principle about Novel Pollutants in Hunan Provincial Universities, Xiangtan 411105, PR China
| | - Ming Wei
- College of Environment Science and Resources, Xiangtan University, Xiangtan 411105, PR China; Hunan Engineering Laboratory for High-Efficiency Purification Technology and its Application on Complex Heavy Metal Wastewater Treatment, Xiangtan 411105, PR China; Scientific Research Innovation Platform of Environmental Behavior and Control Principle about Novel Pollutants in Hunan Provincial Universities, Xiangtan 411105, PR China
| | - Jiang Tian
- College of Environment Science and Resources, Xiangtan University, Xiangtan 411105, PR China; Hunan Engineering Laboratory for High-Efficiency Purification Technology and its Application on Complex Heavy Metal Wastewater Treatment, Xiangtan 411105, PR China; Scientific Research Innovation Platform of Environmental Behavior and Control Principle about Novel Pollutants in Hunan Provincial Universities, Xiangtan 411105, PR China
| | - Fei Ge
- College of Environment Science and Resources, Xiangtan University, Xiangtan 411105, PR China; Hunan Engineering Laboratory for High-Efficiency Purification Technology and its Application on Complex Heavy Metal Wastewater Treatment, Xiangtan 411105, PR China; Scientific Research Innovation Platform of Environmental Behavior and Control Principle about Novel Pollutants in Hunan Provincial Universities, Xiangtan 411105, PR China
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14
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Singh P, Khan A, Kumar R, Ojha KK, Singh VK, Srivastava A. In silico analysis of comparative affinity of phytosiderophore and bacillibactin for iron uptake by YSL15 and YSL18 receptors of Oryza sativa. J Biomol Struct Dyn 2022; 41:2733-2746. [PMID: 35139756 DOI: 10.1080/07391102.2022.2037464] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Abstract
Iron is an important micronutrient for plant growth and development. In the case of Oryza sativa, iron is made available primarily with the help of iron chelators called phytosiderophores i.e. variants of deoxymugineic acid (DMA). They bind with ferric ions and get internalized through Yellow Stripe Like transporters viz. YSL15 and YSL18. However, due to low amount of secretion of phytosiderophores, rice suffers from iron deficiency. Alternatively, siderophores of plant growth promoting rhizobacteria may support iron uptake and make it available to plants via transporting ferric ions possibly through the same transporters. Present study aims to assess comparative binding of DMA and a xenosiderophore (siderophores used by organisms other than the ones producing them) of rhizobacteria i.e. bacillibactin with Fe3+ ion and subsequent transporters of rice. Protein-protein interaction and gene expression analysis predicts uptake of Fe3+ by YSL15 from the rhizosphere region and further distribution through YSL18 with the help of various predicted functional partners. Docking studies confirm the thermodynamically more favourable structure of bacillibactin-Fe3+ complex than DMA-Fe3+ complex. Molecular modelling of YSL15 and YSL18 was done through ab initio method and their evaluation by Ramachandran plot, ProSA, ERRAT value and verify 3 D score revealed a good quality models. Comparative binding assessment through docking and molecular dynamics simulation suggests better binding energies of YSL transporters with bacillibactin-Fe3+ complex as compared to DMA-Fe3+ complex. The current study suggests possible application of xenosiderophores of PGPR origin in supporting plant growth via iron uptake and distribution in rice.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Pratika Singh
- Department of Life Science, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, Bihar, India
| | - Azmi Khan
- Department of Life Science, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, Bihar, India
| | - Rakesh Kumar
- Department of Bioinformatics, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, Bihar, India
| | - Krishna Kumar Ojha
- Department of Bioinformatics, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, Bihar, India
| | - Vijay Kumar Singh
- Department of Bioinformatics, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, Bihar, India
| | - Amrita Srivastava
- Department of Life Science, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, Bihar, India
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15
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Khan A, Singh P, Kumar R, Das S, Singh RK, Mina U, Agrawal GK, Rakwal R, Sarkar A, Srivastava A. Antifungal Activity of Siderophore Isolated From Escherichia coli Against Aspergillus nidulans via Iron-Mediated Oxidative Stress. Front Microbiol 2021; 12:729032. [PMID: 34803944 PMCID: PMC8596375 DOI: 10.3389/fmicb.2021.729032] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2021] [Accepted: 10/11/2021] [Indexed: 01/11/2023] Open
Abstract
Microorganisms produce various secondary metabolites for growth and survival. During iron stress, they produce secondary metabolites termed siderophores. In the current investigation, antifungal activity of catecholate siderophore produced by Escherichia coli has been assessed against Aspergillus nidulans. Exogenous application of the bacterial siderophore to fungal cultures resulted in decreased colony size, increased filament length, and changes in hyphal branching pattern. Growth inhibition was accompanied with increased intracellular iron content. Scanning electron microscopy revealed dose-dependent alteration in fungal morphology. Fluorescent staining by propidium iodide revealed cell death in concert with growth inhibition with increasing siderophore concentration. Antioxidative enzyme activity was also compromised with significant increase in catalase activity and decrease in ascorbate peroxidase activity. Siderophore-treated cultures showed increased accumulation of reactive oxygen species as observed by fluorescence microscopy and enhanced membrane damage in terms of malondialdehyde content. Antifungal property might thus be attributed to xenosiderophore-mediated iron uptake leading to cell death. STRING analysis showed interaction of MirB (involved in transport of hydroxamate siderophore) and MirA (involved in transport of catecholate siderophore), confirming the possibility of uptake of iron-xenosiderophore complex through fungal transporters. MirA structure was modeled and validated with 95% residues occurring in the allowed region. In silico analysis revealed MirA-Enterobactin-Fe3+ complex formation. Thus, the present study reveals a promising antifungal agent in the form of catecholate siderophore and supports involvement of MirA fungal receptors in xenosiderophore uptake.
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Affiliation(s)
- Azmi Khan
- Department of Life Science, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, India
| | - Pratika Singh
- Department of Life Science, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, India
| | - Ravinsh Kumar
- Department of Life Science, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, India
| | - Sujit Das
- Laboratory of Applied Stress Biology, Department of Botany, University of Gour Banga, Malda, India
| | - Rakesh Kumar Singh
- Department of Biochemistry, Institute of Science, Banaras Hindu University, Varanasi, India
| | - Usha Mina
- School of Environmental Sciences, Jawaharlal Nehru University, New Delhi, India
| | - Ganesh Kumar Agrawal
- Research Laboratory for Biotechnology and Biochemistry (RLABB), Kathmandu, Nepal
| | - Randeep Rakwal
- Faculty of Health and Sport Sciences, University of Tsukuba, Tsukuba, Japan
| | - Abhijit Sarkar
- Laboratory of Applied Stress Biology, Department of Botany, University of Gour Banga, Malda, India
| | - Amrita Srivastava
- Department of Life Science, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, India
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16
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Singh P, Khan A, Kumar R, Kumar R, Singh VK, Srivastava A. Recent developments in siderotyping: procedure and application. World J Microbiol Biotechnol 2020; 36:178. [PMID: 33128090 DOI: 10.1007/s11274-020-02955-7] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2020] [Accepted: 10/27/2020] [Indexed: 12/31/2022]
Abstract
Siderophores are metal chelating secondary metabolites secreted by almost all organisms. Beside iron starvation, the ability to produce siderophores depends upon several other factors. Chemical structure of siderophore is very complex with vast structural diversity, thus the principle challenge involves its detection, quantification, purification and characterisation. Metal chelation is its most fascinating attribute. This metal chelation property is now forming the basis of its application as molecular markers, siderotyping tool for taxonomic clarification, biosensors and bioremediation agents. This has led researchers to develop and continuously modify previous techniques in order to provide accurate and reproducible methods of studying siderophores. Knowledge obtained via computational approaches provides a new horizon in the field of siderophore biosynthetic gene clusters and their interaction with various proteins/peptides. This review illustrates various techniques, bioinformatics tools and databases employed in siderophores' studies, the principle of analytical methods and their recent applications.
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Affiliation(s)
- Pratika Singh
- Department of Life Science, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, 824236, India
| | - Azmi Khan
- Department of Life Science, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, 824236, India
| | - Rakesh Kumar
- Department of Bioinformatics, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, 824236, India
| | - Ravinsh Kumar
- Department of Life Science, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, 824236, India
| | - Vijay Kumar Singh
- Department of Bioinformatics, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, 824236, India
| | - Amrita Srivastava
- Department of Life Science, School of Earth, Biological and Environmental Sciences, Central University of South Bihar, Gaya, 824236, India.
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