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Shao J, Rong N, Wu Z, Gu S, Liu B, Shen N, Li Z. Siderophore-mediated iron partition promotes dynamical coexistence between cooperators and cheaters. iScience 2023; 26:107396. [PMID: 37701813 PMCID: PMC10494312 DOI: 10.1016/j.isci.2023.107396] [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: 03/09/2023] [Revised: 04/26/2023] [Accepted: 07/11/2023] [Indexed: 09/14/2023] Open
Abstract
Microbes shape their habitats by consuming resources and producing a diverse array of chemicals that can serve as public goods. Despite the risk of exploitation by cheaters, genes encoding sharable molecules like siderophores are widely found in nature, prompting investigations into the mechanisms that allow producers to resist invasion by cheaters. In this work, we presented the chemostat-typed "resource partition model" to demonstrate that dividing the iron resource between private and public siderophores can promote stable or dynamic coexistence between producers and cheaters in a well-mixed environment. Moreover, our analysis shows that when microbes not only consume but also produce resources, chemical innovation leads to stability criteria that differ from those of classical consumer resource models, resulting in more complex dynamics. Our work sheds light on the role of chemical innovations in microbial communities and the potential for resource partition to facilitate dynamical coexistence between cooperative and cheating organisms.
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Affiliation(s)
- Jiqi Shao
- Center for Quantitative Biology, Academy for Advanced Interdisciplinary Studies, Peking University, Beijing 100871, China
| | - Nan Rong
- Center for Quantitative Biology, Academy for Advanced Interdisciplinary Studies, Peking University, Beijing 100871, China
| | - Zhenchao Wu
- Department of Pulmonary and Critical Care Medicine, Peking University Third Hospital, Beijing 100191, China
| | - Shaohua Gu
- Center for Quantitative Biology, Academy for Advanced Interdisciplinary Studies, Peking University, Beijing 100871, China
- Peking-Tsinghua Center for Life Sciences, Academy for Advanced Interdisciplinary Studies, Peking University, Beijing 100871, China
| | - Beibei Liu
- Department of Pulmonary and Critical Care Medicine, Peking University Third Hospital, Beijing 100191, China
| | - Ning Shen
- Department of Pulmonary and Critical Care Medicine, Peking University Third Hospital, Beijing 100191, China
| | - Zhiyuan Li
- Center for Quantitative Biology, Academy for Advanced Interdisciplinary Studies, Peking University, Beijing 100871, China
- Peking-Tsinghua Center for Life Sciences, Academy for Advanced Interdisciplinary Studies, Peking University, Beijing 100871, China
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2
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Goel N, Singh R, Sood S, Khare SK. Investigation of Streptomyces sp. Strain EMB24 Secondary Metabolite Profile Has Unraveled Its Extraordinary Antibacterial Potency Against Drug-Resistant Bacteria. MARINE BIOTECHNOLOGY (NEW YORK, N.Y.) 2022; 24:1168-1175. [PMID: 36220897 PMCID: PMC9553293 DOI: 10.1007/s10126-022-10168-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/16/2021] [Accepted: 09/20/2022] [Indexed: 06/16/2023]
Abstract
With the overuse and misuse of antibiotics amid COVID-19 pandemic, the antimicrobial resistance, which is already a global challenge, has accelerated its pace significantly. Finding novel and potential antibiotics seems one of the probable solutions. In this work, a novel Streptomyces sp. strain EMB24 was isolated and found to be an excellent source of antimicrobials as confirmed by agar-plug assay. It showed antibacterial activity against infection-causing bacteria, namely Staphylococcus aureus, Escherichia coli, and Pseudomonas aeruginosa. In addition, Streptomyces sp. strain EMB24 inhibited the growth methicillin-resistant Staphylococcus aureus (MRSA), tetracycline-resistant Neisseria gonorrhoeae, and ampicillin-resistant Neisseria gonorrhoeae. Furthermore, to get deep insights about the genome and biosynthetic gene clusters producing antibiotics, whole genome sequencing was done. The strain EMB24 is closely related to the Streptomyces longispororuber as revealed by phylogenetic analysis which is a potential source of antibiotics and pigments as undecylprodigiosin and metacycloprodigiosin belonging to the class prodigiosin. Naphthyridinomycin, alkylresorcinols, desferrioxamine B and E, venezuelin, aborycin, MS-271, and siamycin are potent therapeutics that shared 100% similarity with the reference strain as revealed by the online antiSMASH tool.
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Affiliation(s)
- Nikky Goel
- Enzyme and Microbial Biochemistry Laboratory, Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi, 110016, India
| | - Rajendra Singh
- Department of Microbiology, All India Institute of Medical Sciences, New Delhi, India
| | - Seema Sood
- Department of Microbiology, All India Institute of Medical Sciences, New Delhi, India
| | - Sunil Kumar Khare
- Enzyme and Microbial Biochemistry Laboratory, Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi, 110016, India.
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3
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The Key Element Role of Metallophores in the Pathogenicity and Virulence of Staphylococcus aureus: A Review. BIOLOGY 2022; 11:biology11101525. [PMID: 36290427 PMCID: PMC9598555 DOI: 10.3390/biology11101525] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/20/2022] [Revised: 09/17/2022] [Accepted: 10/14/2022] [Indexed: 11/05/2022]
Abstract
The ubiquitous bacterium Staphylococcus aureus causes many diseases that sometimes can be fatal due to its high pathogenicity. The latter is caused by the ability of this pathogen to secrete secondary metabolites, enabling it to colonize inside the host causing infection through various processes. Metallophores are secondary metabolites that enable bacteria to sequester metal ions from the surrounding environment since the availability of metal ions is crucial for bacterial metabolism and virulence. The uptake of iron and other metal ions such as nickel and zinc is one of these essential mechanisms that gives this germ its virulence properties and allow it to overcome the host immune system. Additionally, extensive interactions occur between this pathogen and other bacteria as they compete for resources. Staphylococcus aureus has high-affinity metal import pathways including metal ions acquisition, recruitment and metal-chelate complex import. These characteristics give this bacterium the ability to intake metallophores synthesized by other bacteria, thus enabling it to compete with other microorganisms for the limited nutrients. In scarce host conditions, free metal ions are extremely low because they are confined to storage and metabolic molecules, so metal ions are sequestered by metallophores produced by this bacterium. Both siderophores (iron chelating molecules) and staphylopine (wide- spectrum metallophore) are secreted by Staphylococcus aureus giving it infectious properties. The genetic regulation of the synthesis and export together with the import of metal loaded metallophores are well established and are all covered in this review.
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Zhang Q, Yuan P, Liang W, Qiao Z, Shao X, Zhang W, Peng C. Exogenous iron alters uptake and translocation of CuO nanoparticles in soil-rice system: A life cycle study. ENVIRONMENT INTERNATIONAL 2022; 168:107479. [PMID: 36007301 DOI: 10.1016/j.envint.2022.107479] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2022] [Revised: 08/12/2022] [Accepted: 08/13/2022] [Indexed: 06/15/2023]
Abstract
The abundant iron in farmland soil may affect the environmental fate of metal-based nanoparticles (MNPs). In this study, the effect of FeSO4 and nano-zero-valent iron (nZVI) as exogenous iron on the uptake and translocation of CuO nanoparticles (NPs) in soil-rice system was performed in a life cycle study. The results show that exogenous iron basically elevated the soil pH and electrical conductivity but lowered the redox potential. Moreover, the Cu bioavailability in soil was significantly increased by 86-269% with exogenous iron at the tillering stage, while was reduced by 15-45% with medium and high concentrations of Fe(II) at the maturation stage. Meanwhile, the addition of exogenous iron resolved the unfilling of grains caused by CuO NPs. Notably, except for highest Fe(II) treatment, both Fe(II) and nZVI reduced Cu accumulation from 31% to 84% in roots and leaves due to more iron plaque. Especially, medium Fe(II) level markedly decreased the Cu content in the brown rice. μ-XRF analysis suggests that high intensity of Cu was primarily located in the rice hull and embryo under Fe(II) treatment. The reduction of CuO NPs to Cu2O caused by Fe(II) can explain the positive effect of exogenous iron on controlling the environmental risk of MNPs.
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Affiliation(s)
- Qi Zhang
- State Environmental Protection Key Laboratory of Environmental Risk Assessment and Control on Chemical Process, School of Resource and Environmental Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Peng Yuan
- College of Environmental Science and Engineering, Donghua University, Shanghai 201620, China
| | - Weiyu Liang
- State Environmental Protection Key Laboratory of Environmental Risk Assessment and Control on Chemical Process, School of Resource and Environmental Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Zhihua Qiao
- State Environmental Protection Key Laboratory of Environmental Risk Assessment and Control on Chemical Process, School of Resource and Environmental Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Xuechun Shao
- State Environmental Protection Key Laboratory of Environmental Risk Assessment and Control on Chemical Process, School of Resource and Environmental Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Wei Zhang
- State Environmental Protection Key Laboratory of Environmental Risk Assessment and Control on Chemical Process, School of Resource and Environmental Engineering, East China University of Science and Technology, Shanghai 200237, China; Shanghai Institute of Pollution Control and Ecological Security, Shanghai 200092, China
| | - Cheng Peng
- State Environmental Protection Key Laboratory of Environmental Risk Assessment and Control on Chemical Process, School of Resource and Environmental Engineering, East China University of Science and Technology, Shanghai 200237, China; Shanghai Institute of Pollution Control and Ecological Security, Shanghai 200092, China.
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5
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Antibiotic resistance and siderophores production by clinical Escherichia coli strains. BIOTECHNOLOGIA 2022; 103:169-184. [PMID: 36606072 PMCID: PMC9642952 DOI: 10.5114/bta.2022.116211] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2021] [Revised: 02/17/2022] [Accepted: 03/01/2022] [Indexed: 01/09/2023] Open
Abstract
The phenomenon of antibiotic resistance has dramatically increased in the last few decades, especially in enterobacterial pathogens. Different strains of Escherichia coli have been reported to produce a variety of structurally different siderophores. In the present study, 32 E. coli strains were collected from different clinical settings in Cairo, Egypt and subjected to the antibiotic susceptibility test by using 19 antibiotics belonging to 7 classes of chemical groups. The results indicated that 31 strains could be considered as extensively drug-resistant and only one strain as pan drug-resistant. Siderophores production by all the tested E. coli strains was determined qualitatively and quantitatively. Two E. coli strains coded 21 and 49 were found to be the most potent siderophores producers, with 79.9 and 46.62%, respectively. Bacterial colonies with cured plasmids derived from strain 49 showed susceptibility to all the tested antibiotics. Furthermore, E. coli DH5α cells transformed with the plasmid isolated from E. coli strain 21 or E. coli strain 49 were found to be susceptible to ansamycins, quinolones, and sulfonamide groups of antibiotics. In contrast, both plasmid-cured and plasmid-transformed strains did not produce siderophores, indicating that the genes responsible for siderophores production were located on plasmids and regulated by genes located on the chromosome. On the basis of the obtained results, it could be concluded that there is a positive correlation between antibiotic resistance, especially to quinolones and sulfonamide groups, and siderophores production by E. coli strains used in this study.
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Shalev O, Ashkenazy H, Neumann M, Weigel D. Commensal Pseudomonas protect Arabidopsis thaliana from a coexisting pathogen via multiple lineage-dependent mechanisms. THE ISME JOURNAL 2022; 16:1235-1244. [PMID: 34897280 PMCID: PMC9038753 DOI: 10.1038/s41396-021-01168-6] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/10/2021] [Revised: 11/19/2021] [Accepted: 11/26/2021] [Indexed: 11/09/2022]
Abstract
AbstractPlants are protected from pathogens not only by their own immunity but often also by colonizing commensal microbes. In Arabidopsis thaliana, a group of cryptically pathogenic Pseudomonas strains often dominates local populations. This group coexists in nature with commensal Pseudomonas strains that can blunt the deleterious effects of the pathogens in the laboratory. We have investigated the interaction between one of the Pseudomonas pathogens and 99 naturally co-occurring commensals, finding plant protection to be common among non-pathogenic Pseudomonas. While protective ability is enriched in one specific lineage, there is also a substantial variation for this trait among isolates of this lineage. These functional differences do not align with core-genome phylogenies, suggesting repeated gene inactivation or loss as causal. Using genome-wide association, we discovered that different bacterial genes are linked to plant protection in each lineage. We validated a protective role of several lineage-specific genes by gene inactivation, highlighting iron acquisition and biofilm formation as prominent mechanisms of plant protection in this Pseudomonas lineage. Collectively, our work illustrates the importance of functional redundancy in plant protective traits across an important group of commensal bacteria.
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7
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Zhang C, Liu S, Hussain S, Li L, Baiome BA, Xiao S, Cao H. Fe(II) Addition Drives Soil Bacterial Co-Ocurrence Patterns and Functions Mediated by Anaerobic and Chemoautotrophic Taxa. Microorganisms 2022; 10:microorganisms10030547. [PMID: 35336122 PMCID: PMC8950066 DOI: 10.3390/microorganisms10030547] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2022] [Revised: 02/04/2022] [Accepted: 02/05/2022] [Indexed: 12/10/2022] Open
Abstract
Iron is among the most abundant elements in the soil of paddy fields, and its valence state and partitioning can be transformed by flooding and drainage alternations. However, little is known about the function of soil microbes that interact with Fe(II). In this study, sandy and loamy soils originating from rice fields were treated with Fe(II) at low and high concentrations. The findings demonstrate that additional Fe(II) has various effects on the soil’s microbial community structure and metabolic pathways. We conclude that Fe(II) at high concentrations reduced bacterial abundance and diversity in two textured paddy soils, yet the abundance in loamy soils was higher than it was in sandy soil. Additionally, in environments with high Fe(II) levels, the relative abundance of both anaerobic and chemoautotrophic bacteria increased. The Fe(II) concentration was positively correlated with total reduced substances but negatively correlated with redox potential and pH. Co-occurrence networks revealed that Fe(II) significantly promoted interactions with the most anaerobic and chemoautotrophic bacteria. In addition, adding Fe(II) greatly increased the number of more complex bacterial networks, and an increase in the number of mutually beneficial taxa occurred. We found that Fe(II) promoted the methane pathway, the Calvin cycle, and nitrate reduction to small but significant extents. These pathways involve the growth and interrelation of autotrophic and anaerobic bacteria. These results suggest that changes in the bacterial community structure occur in many dry–wet alternating environments.
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Affiliation(s)
- Chenyang Zhang
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
| | - Senlin Liu
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
- Wellington Research Group, School of Life Sciences, University of Warwick, Gibbet Hill Road, Coventry CV4 7AL, UK
| | - Sarfraz Hussain
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
| | - Lifeng Li
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
| | - Baiome Abdelmaguid Baiome
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
| | - Shuiqing Xiao
- School of Intercultural Studies, Jiangxi Normal University, Nanchang 330022, China;
| | - Hui Cao
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
- Correspondence: ; Tel./Fax: +86-025-8439-6753
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8
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Abstract
Freshwater iron mats are dynamic geochemical environments with broad ecological diversity, primarily formed by the iron-oxidizing bacteria. The community features functional groups involved in biogeochemical cycles for iron, sulfur, carbon, and nitrogen. Despite this complexity, iron mat communities provide an excellent model system for exploring microbial ecological interactions and ecological theories in situ Syntrophies and competition between the functional groups in iron mats, how they connect cycles, and the maintenance of these communities by taxons outside bacteria (the eukaryota, archaea, and viruses) have been largely unstudied. Here, we review what is currently known about freshwater iron mat communities, the taxa that reside there, and the interactions between these organisms, and we propose ways in which future studies may uncover exciting new discoveries. For example, the archaea in these mats may play a greater role than previously thought as they are diverse and widespread in iron mats based on 16S rRNA genes and include methanogenic taxa. Studies with a holistic view of the iron mat community members focusing on their diverse interactions will expand our understanding of community functions, such as those involved in pollution removal. To begin addressing questions regarding the fundamental interactions and to identify the conditions in which they occur, more laboratory culturing techniques and coculture studies, more network and keystone species analyses, and the expansion of studies to more freshwater iron mat systems are necessary. Increasingly accessible bioinformatic, geochemical, and culturing tools now open avenues to address the questions that we pose herein.
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Affiliation(s)
- Chequita N Brooks
- Department of Biology, East Carolina University, Greenville, North Carolina, USA
| | - Erin K Field
- Department of Biology, East Carolina University, Greenville, North Carolina, USA
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9
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Kramer J, Özkaya Ö, Kümmerli R. Bacterial siderophores in community and host interactions. Nat Rev Microbiol 2020; 18:152-163. [PMID: 31748738 PMCID: PMC7116523 DOI: 10.1038/s41579-019-0284-4] [Citation(s) in RCA: 380] [Impact Index Per Article: 95.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 09/30/2019] [Indexed: 01/06/2023]
Abstract
Iron is an essential trace element for most organisms. A common way for bacteria to acquire this nutrient is through the secretion of siderophores, which are secondary metabolites that scavenge iron from environmental stocks and deliver it to cells via specific receptors. While there has been tremendous interest in understanding the molecular basis of siderophore synthesis, uptake and regulation, questions about the ecological and evolutionary consequences of siderophore secretion have only recently received increasing attention. In this Review, we outline how eco-evolutionary questions can complement the mechanistic perspective and help to obtain a more integrated view of siderophores. In particular, we explain how secreted diffusible siderophores can affect other community members, leading to cooperative, exploitative and competitive interactions between individuals. These social interactions in turn can spur co-evolutionary arms races between strains and species, lead to ecological dependencies between them and potentially contribute to the formation of stable communities. In brief, this Review shows that siderophores are much more than just iron carriers: they are important mediators of interactions between members of microbial assemblies and the eukaryotic hosts they inhabit.
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Affiliation(s)
- Jos Kramer
- Department of Quantitative Biomedicine, University of Zurich, Zurich, Switzerland
| | - Özhan Özkaya
- Department of Quantitative Biomedicine, University of Zurich, Zurich, Switzerland
| | - Rolf Kümmerli
- Department of Quantitative Biomedicine, University of Zurich, Zurich, Switzerland.
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10
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Maisch M, Lueder U, Laufer K, Scholze C, Kappler A, Schmidt C. Contribution of Microaerophilic Iron(II)-Oxidizers to Iron(III) Mineral Formation. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2019; 53:8197-8204. [PMID: 31203607 DOI: 10.1021/acs.est.9b01531] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Neutrophilic microbial aerobic oxidation of ferrous iron (Fe(II)) is restricted to pH-circumneutral environments characterized by low oxygen where microaerophilic Fe(II)-oxidizing microorganisms successfully compete with abiotic Fe(II) oxidation. However, accumulation of ferric (bio)minerals increases competition by stimulating abiotic surface-catalyzed heterogeneous Fe(II) oxidation. Here, we present an experimental approach that allows quantification of microbial and abiotic contribution to Fe(II) oxidation in the presence or initial absence of ferric (bio)minerals. We found that at 20 μM O2 and the initial absence of Fe(III) minerals, an iron(II)-oxidizing enrichment culture (99.6% similarity to Sideroxydans spp.) contributed 40% to the overall Fe(II) oxidation within approximately 26 h and oxidized up to 3.6 × 10-15 mol Fe(II) cell-1 h-1. Optimum O2 concentrations at which enzymatic Fe(II) oxidation can compete with abiotic Fe(II) oxidation ranged from 5 to 20 μM. Lower O2 levels limited biotic Fe(II) oxidation, while at higher O2 levels abiotic Fe(II) oxidation dominated. The presence of ferric (bio)minerals induced surface-catalytic heterogeneous abiotic Fe(II) oxidation and reduced the microbial contribution to Fe(II) oxidation from 40% to 10% at 10 μM O2. The obtained results will help to better assess the impact of microaerophilic Fe(II) oxidation on the biogeochemical iron cycle in a variety of environmental natural and anthropogenic settings.
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Affiliation(s)
- Markus Maisch
- Geomicrobiology, Center for Applied Geosciences , University of Tübingen , Tübingen 72074 , Germany
| | - Ulf Lueder
- Geomicrobiology, Center for Applied Geosciences , University of Tübingen , Tübingen 72074 , Germany
| | - Katja Laufer
- Department for Bioscience , Aarhus University , 8000 Aarhus , Denmark
| | - Caroline Scholze
- Department for Bioscience , Aarhus University , 8000 Aarhus , Denmark
| | - Andreas Kappler
- Geomicrobiology, Center for Applied Geosciences , University of Tübingen , Tübingen 72074 , Germany
- Department for Bioscience , Aarhus University , 8000 Aarhus , Denmark
| | - Caroline Schmidt
- Geomicrobiology, Center for Applied Geosciences , University of Tübingen , Tübingen 72074 , Germany
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11
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Zhang Y, Liu X, Fu C, Li X, Yan B, Shi T. Effect of Fe 2+ addition on chemical oxygen demand and nitrogen removal in horizontal subsurface flow constructed wetlands. CHEMOSPHERE 2019; 220:259-265. [PMID: 30590292 DOI: 10.1016/j.chemosphere.2018.12.144] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/10/2018] [Revised: 12/17/2018] [Accepted: 12/19/2018] [Indexed: 06/09/2023]
Abstract
Horizontal subsurface flow constructed wetlands (CWs) planted with Phragmites australis were set up to analyze the effect of external ferrous iron (Fe2+) addition on chemical oxygen demand (COD) and nitrogen removal. The results showed that external Fe2+ addition has no significant effect on COD removal, while the COD removal efficiencies in CWs with Fe2+ addition were slightly lower than those in CWs without Fe2+ addition, since Fe2+ as an electron donor for denitrification may decrease the consumption of organic carbon. However, external Fe2+ addition significantly enhanced the nitrogen removal capability of the CWs. With an increase in external Fe2+ concentration, the removal efficiencies for total nitrogen (TN), nitrate nitrogen (NO3N), and ammonium nitrogen (NH4N) all increased. The removal efficiencies for TN and NH4N were greatest for an influent Fe2+ concentration of 50 mg L-1, while the greatest removal efficiencies for NO3N were observed at an influent Fe2+ concentration of 150 mg L-1. With increasing hydraulic retention time (HRT), the COD and NO3N removal efficiencies in the CWs with external Fe2+ addition increase sharply and then became stable, while the removal efficiency for TN exhibited a continuous increase. The removal efficiency for NH4N was greatest at an HRT of 5 d-7 d with Fe2+ addition. The change in pH with increasing HRT indicated that external Fe2+ addition did not significantly affect the pH value of the effluent water, but that the wetland systems caused an increase in effluent pH. Fe2+ addition remarkably reduced the oxygen-reduction potential of both the influent and effluent water, which was beneficial to denitrification of microorganisms.
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Affiliation(s)
- Yan Zhang
- Poultry Institute, Shangdong Academy of Agricultural Science, Jinan 250023, PR China
| | - Xuelan Liu
- Poultry Institute, Shangdong Academy of Agricultural Science, Jinan 250023, PR China.
| | - Chunyan Fu
- Poultry Institute, Shangdong Academy of Agricultural Science, Jinan 250023, PR China
| | - Xinhua Li
- Shandong Institute of Agricultural Sustainable Development, Jinan 250100, PR China
| | - Baixing Yan
- Key Laboratory of Wetland Ecology and Environment, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130012, PR China
| | - Tianhong Shi
- Poultry Institute, Shangdong Academy of Agricultural Science, Jinan 250023, PR China
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12
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Marquart KA, Haller BR, Paper JM, Flynn TM, Boyanov MI, Shodunke G, Gura C, Jin Q, Kirk MF. Influence of pH on the balance between methanogenesis and iron reduction. GEOBIOLOGY 2019; 17:185-198. [PMID: 30387274 DOI: 10.1111/gbi.12320] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/19/2018] [Revised: 08/28/2018] [Accepted: 09/11/2018] [Indexed: 06/08/2023]
Abstract
Methanogenesis and iron reduction play major roles in determining global fluxes of greenhouse gases. Despite their importance, environmental factors that influence their interactions are poorly known. Here, we present evidence that pH significantly influences the balance between each reaction in anoxic environments that contain ferric (oxyhydr)oxide minerals. In sediment bioreactors that contained goethite as a source of ferric iron, both iron reduction and methanogenesis occurred but the balance between them varied significantly with pH. Compared to bioreactors receiving acidic media (pH 6), electron donor oxidation was 85% lower for iron reduction and 61% higher for methanogenesis in bioreactors receiving alkaline media (pH 7.5). Thus, methanogenesis displaced iron reduction considerably at alkaline pH. Geochemistry data collected from U.S. aquifers demonstrate that a similar pattern also exists on a broad spatial scale in natural settings. In contrast, in bioreactors that were not augmented with goethite, clay minerals served as the source of ferric iron and the balance between each reaction did not vary significantly with pH. We therefore conclude that pH can regulate the relative contributions of microbial iron reduction and methanogenesis to carbon fluxes from terrestrial environments. We further propose that the availability of ferric (oxyhydr)oxide minerals influences the extent to which the balance between each reaction is sensitive to pH. The results of this study advance our understanding of environmental controls on microbial methane generation and provide a basis for using pH and the occurrence of ferric minerals to refine predictions of greenhouse gas fluxes.
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Affiliation(s)
- Kyle A Marquart
- Department of Geology, Kansas State University, Manhattan, Kansas
| | - Ben R Haller
- Department of Geology, Kansas State University, Manhattan, Kansas
| | - Janet M Paper
- Department of Geology, Kansas State University, Manhattan, Kansas
| | - Theodore M Flynn
- Biosciences Division, Argonne National Laboratory, Lemont, Illinois
| | - Maxim I Boyanov
- Biosciences Division, Argonne National Laboratory, Lemont, Illinois
- Bulgarian Academy of Sciences, Institute of Chemical Engineering, Sofia, Bulgaria
| | - Ganiyat Shodunke
- Department of Geology, Kansas State University, Manhattan, Kansas
| | - Colleen Gura
- Department of Geology, Kansas State University, Manhattan, Kansas
| | - Qusheng Jin
- Department of Earth Sciences, University of Oregon, Eugene, Oregon
| | - Matthew F Kirk
- Department of Geology, Kansas State University, Manhattan, Kansas
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13
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Jubb AM, Eskelsen JR, Yin X, Zheng J, Philben MJ, Pierce EM, Graham DE, Wullschleger SD, Gu B. Characterization of iron oxide nanoparticle films at the air-water interface in Arctic tundra waters. THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 633:1460-1468. [PMID: 29758898 DOI: 10.1016/j.scitotenv.2018.03.332] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/14/2018] [Revised: 03/26/2018] [Accepted: 03/27/2018] [Indexed: 06/08/2023]
Abstract
Massive amounts of organic carbon have accumulated in Arctic permafrost and soils due to anoxic and low temperature conditions that limit aerobic microbial respiration. Alternative electron acceptors are thus required for microbes to degrade organic carbon in these soils. Iron or iron oxides have been recognized to play an important role in carbon cycle processes in Arctic soils, although the exact form and role as an electron acceptor or donor remain poorly understood. Here, Arctic biofilms collected during the summers of 2016 and 2017 from tundra surface waters on the Seward Peninsula of western Alaska were characterized with a suite of microscopic and spectroscopic methods. We hypothesized that these films contain redox-active minerals bound to biological polymers. The major components of the films were found to be iron oxide nanoparticle aggregates associated with extracellular polymeric substances. The observed mineral phases varied between films collected in different years with magnetite (Fe2+Fe23+O4) nanoparticles (<5nm) predominantly identified in the 2016 films, while for films collected in 2017 ferrihydrite-like amorphous iron oxyhydroxides were found. While the exact formation mechanism of these Artic iron oxide films remains to be explored, the presence of magnetite and other iron oxide/oxyhydroxide nanoparticles at the air-water interface may represent a previously unknown source of electron acceptors for continual anaerobic microbial respiration of organic carbon within poorly drained Arctic tundra.
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Affiliation(s)
- Aaron M Jubb
- Environmental Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA.
| | - Jeremy R Eskelsen
- Environmental Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA
| | - Xiangping Yin
- Environmental Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA
| | - Jianqiu Zheng
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA
| | - Michael J Philben
- Environmental Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA
| | - Eric M Pierce
- Environmental Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA
| | - David E Graham
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA; Climate Change Science Institute, Oak Ridge National Laboratory, Oak Ridge, TN, USA
| | - Stan D Wullschleger
- Environmental Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA; Climate Change Science Institute, Oak Ridge National Laboratory, Oak Ridge, TN, USA
| | - Baohua Gu
- Environmental Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA; Department of Biosystems Engineering and Soil Science, University of Tennessee, Knoxville, TN, USA.
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14
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Valentín-Vargas A, Neilson JW, Root RA, Chorover J, Maier RM. Treatment impacts on temporal microbial community dynamics during phytostabilization of acid-generating mine tailings in semiarid regions. THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 618:357-368. [PMID: 29132003 PMCID: PMC5773348 DOI: 10.1016/j.scitotenv.2017.11.010] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2017] [Revised: 09/28/2017] [Accepted: 11/01/2017] [Indexed: 05/27/2023]
Abstract
Direct revegetation, or phytostabilization, is a containment strategy for contaminant metals associated with mine tailings in semiarid regions. The weathering of sulfide ore-derived tailings frequently drives acidification that inhibits plant establishment resulting in materials prone to wind and water dispersal. The specific objective of this study was to associate pyritic mine waste acidification, characterized through pore-water chemistry analysis, with dynamic changes in microbial community diversity and phylogenetic composition, and to evaluate the influence of different treatment strategies on the control of acidification dynamics. Samples were collected from a highly instrumented one-year mesocosm study that included the following treatments: 1) unamended tailings control; 2) tailings amended with 15% compost; and 3) the 15% compost-amended tailings planted with Atriplex lentiformis. Tailings samples were collected at 0, 3, 6 and 12months and pore water chemistry was monitored as an indicator of acidification and weathering processes. Results confirmed that the acidification process for pyritic mine tailings is associated with a temporal progression of bacterial and archaeal phylotypes from pH sensitive Thiobacillus and Thiomonas to communities dominated by Leptospirillum and Ferroplasma. Pore-water chemistry indicated that weathering rates were highest when Leptospirillum was most abundant. The planted treatment was most successful in disrupting the successional evolution of the Fe/S-oxidizing community. Plant establishment stimulated growth of plant-growth-promoting heterotrophic phylotypes and controlled the proliferation of lithoautotrophic Fe/S-oxidizers. The results suggest the potential for eco-engineering a microbial inoculum to stimulate plant establishment and inhibit proliferation of the most efficient Fe/S-oxidizing phylotypes.
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Affiliation(s)
- Alexis Valentín-Vargas
- Department of Soil, Water and Environmental Science, 429 Shantz Bldg. #38, 1177 E. Fourth Street, University of Arizona, Tucson, AZ 85721-0038, USA
| | - Julia W Neilson
- Department of Soil, Water and Environmental Science, 429 Shantz Bldg. #38, 1177 E. Fourth Street, University of Arizona, Tucson, AZ 85721-0038, USA.
| | - Robert A Root
- Department of Soil, Water and Environmental Science, 429 Shantz Bldg. #38, 1177 E. Fourth Street, University of Arizona, Tucson, AZ 85721-0038, USA
| | - Jon Chorover
- Department of Soil, Water and Environmental Science, 429 Shantz Bldg. #38, 1177 E. Fourth Street, University of Arizona, Tucson, AZ 85721-0038, USA
| | - Raina M Maier
- Department of Soil, Water and Environmental Science, 429 Shantz Bldg. #38, 1177 E. Fourth Street, University of Arizona, Tucson, AZ 85721-0038, USA
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15
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Boral H, Metin B, Döğen A, Seyedmousavi S, Ilkit M. Overview of selected virulence attributes in Aspergillus fumigatus, Candida albicans, Cryptococcus neoformans, Trichophyton rubrum, and Exophiala dermatitidis. Fungal Genet Biol 2017; 111:92-107. [PMID: 29102684 DOI: 10.1016/j.fgb.2017.10.008] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2017] [Revised: 10/24/2017] [Accepted: 10/27/2017] [Indexed: 12/13/2022]
Abstract
The incidence of fungal diseases has been increasing since 1980, and is associated with excessive morbidity and mortality, particularly among immunosuppressed patients. Of the known 625 pathogenic fungal species, infections caused by the genera Aspergillus, Candida, Cryptococcus, and Trichophyton are responsible for more than 300 million estimated episodes of acute or chronic infections worldwide. In addition, a rather neglected group of opportunistic fungi known as black yeasts and their filamentous relatives cause a wide variety of recalcitrant infections in both immunocompetent and immunosuppressed hosts. This article provides an overview of selected virulence factors that are known to suppress host immunity and enhance the infectivity of these fungi.
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Affiliation(s)
- Hazal Boral
- Division of Mycology, Department of Microbiology, Faculty of Medicine, University of Çukurova, Adana, Turkey
| | - Banu Metin
- Department of Food Engineering, Faculty of Engineering and Natural Sciences, Istanbul Sabahattin Zaim University, Istanbul, Turkey
| | - Aylin Döğen
- Department of Pharmaceutical Microbiology, Faculty of Pharmacy, University of Mersin, Mersin, Turkey
| | - Seyedmojtaba Seyedmousavi
- Department of Medical Microbiology, Radboud University Medical Center, Nijmegen, The Netherlands; Invasive Fungi Research Center, Mazandaran University of Medical Sciences, Sari, Iran; Center of Excellence for Infection Biology and Antimicrobial Pharmacology, Tehran, Iran
| | - Macit Ilkit
- Division of Mycology, Department of Microbiology, Faculty of Medicine, University of Çukurova, Adana, Turkey.
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Tong H, Hu M, Li F, Chen M, Lv Y. Burkholderiales participating in pentachlorophenol biodegradation in iron-reducing paddy soil as identified by stable isotope probing. ENVIRONMENTAL SCIENCE. PROCESSES & IMPACTS 2015; 17:1282-1289. [PMID: 26051859 DOI: 10.1039/c4em00530a] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
As the most prevalent preservative worldwide for many years, pentachlorophenol (PCP) has attracted much interest in the study of biodegradation in soil and aquatic ecosystems. However, the key microorganisms involved in anaerobic degradation are less well understood. Hence, we used DNA-based stable isotope probing (SIP) to identify the PCP-degrading microorganisms in iron-rich paddy soil under anaerobic conditions. (12)C- and (13)C-labeled PCP were almost completely degraded in 30 days under iron-reducing conditions. The results of terminal restriction fragment length polymorphism (T-RFLP) of 16S rRNA genes showed that 197 and 217 bp (HaeIII digests) restriction fragments (T-RFs) were enriched in heavy DNA fractions of (13)C-labeled samples, and the information from 16S rRNA gene clone libraries suggested that the microorganisms corresponding to these T-RF fragments, which increased in relative abundance during incubation, belonged to the order of Burkholderiales, in which 197 and 217 bp were classified as unclassified Burkholderiales and the genus Achromobacter, respectively. The results of the present study indicated that Burkholderiales-affiliated microorganisms were responsible for PCP degradation in anaerobic paddy soil and shed new light on in situ bioremediation in anaerobic PCP contaminated soil.
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Affiliation(s)
- Hui Tong
- Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou 510640, PR China
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17
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Membrane Vesicles as a Novel Strategy for Shedding Encrusted Cell Surfaces. MINERALS 2014. [DOI: 10.3390/min4010074] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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