Characterization of a Metal-Resistant Bacillus Strain With a High Molybdate Affinity ModA From Contaminated Sediments at the Oak Ridge Reservation

Ge, Xiaoxuan; Thorgersen, Michael P.; Poole, Farris L.; Deutschbauer, Adam M.; Chandonia, John-Marc; Novichkov, Pavel S.; Gushgari-Doyle, Sara; Lui, Lauren M.; Nielsen, Torben; Chakraborty, Romy; Adams, Paul D.; Arkin, Adam P.; Hazen, Terry C.; Adams, Michael W. W.

doi:10.3389/fmicb.2020.587127

Cited by 12 publications

(15 citation statements)

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“…This revealed that ModA bound MoO and WO with comparable affinity, with equilibrium dissociation constant ( K d ) values of 1.0 ± 1.3 and 1.2 ± 2.0 nM, respectively ( Figures 1D , E ; Table 2 ). Notably, these K d values for MoO are higher than those reported for orthologous ModA proteins from E. coli ( K d = ~5–67 nM; Rech et al, 1996 ; Imperial et al, 1998 ; Ge et al, 2020 ), Pseudomonas fluorescens N2E2 ( K d = 27 ± 6.2 nM; Ge et al, 2020 ), and Bacillus strain EB106-08-02-XG196 ( K d = 2.2 ± 1.0 nM; Ge et al, 2020 ). For CrO, P. aeruginosa ModA had a K d value of 927.0 ± 87.7 nM, approximately 900-fold lower than MoO and WO ( Figure 1C ; Table 2 ).…”

Section: Resultsmentioning

confidence: 56%

“…Despite E. coli ModA having a high affinity for MoO ( K d = ~5–67 nM; Rech et al, 1996 ; Imperial et al, 1998 ; Ge et al, 2020 ), it has been shown to be permissive for binding to tungstate (WO 4 2− ; henceforth WO), the oxyanion form of tungsten (W), a group 6 element with similar chemistry to molybdenum ( Imperial et al, 1998 ). In P. aeruginosa , exposure to WO reduced MoO acquisition, which was attributed to competition between the two metal ions for the ModA SBP and the inappropriate sensing of W by ModE, thereby leading to repression of the modABC operon ( Pederick et al, 2014 ).…”

Section: Introductionmentioning

confidence: 99%

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The Impact of Chromate on Pseudomonas aeruginosa Molybdenum Homeostasis

et al. 2022

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Acquisition of the trace-element molybdenum via the high-affinity ATP-binding cassette permease ModABC is essential for Pseudomonas aeruginosa respiration in anaerobic and microaerophilic environments. This study determined the X-ray crystal structures of the molybdenum-recruiting solute-binding protein ModA from P. aeruginosa PAO1 in the metal-free state and bound to the group 6 metal oxyanions molybdate, tungstate, and chromate. Pseudomonas aeruginosa PAO1 ModA has a non-contiguous dual-hinged bilobal structure with a single metal-binding site positioned between the two domains. Metal binding results in a 22° relative rotation of the two lobes with the oxyanions coordinated by four residues, that contribute six hydrogen bonds, distinct from ModA orthologues that feature an additional oxyanion-binding residue. Analysis of 485 Pseudomonas ModA sequences revealed conservation of the metal-binding residues and β-sheet structural elements, highlighting their contribution to protein structure and function. Despite the capacity of ModA to bind chromate, deletion of modA did not affect P. aeruginosa PAO1 sensitivity to chromate toxicity nor impact cellular accumulation of chromate. Exposure to sub-inhibitory concentrations of chromate broadly perturbed P. aeruginosa metal homeostasis and, unexpectedly, was associated with an increase in ModA-mediated molybdenum uptake. Elemental analyses of the proteome from anaerobically grown P. aeruginosa revealed that, despite the increase in cellular molybdenum upon chromate exposure, distribution of the metal within the proteome was substantially perturbed. This suggested that molybdoprotein cofactor acquisition may be disrupted, consistent with the potent toxicity of chromate under anaerobic conditions. Collectively, these data reveal a complex relationship between chromate toxicity, molybdenum homeostasis and anaerobic respiration.

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Section: Resultsmentioning

confidence: 56%

Section: Introductionmentioning

confidence: 99%

The Impact of Chromate on Pseudomonas aeruginosa Molybdenum Homeostasis

et al. 2022

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“…This system has been well characterized in Gram-negative bacteria such as E. coli , though similar mod genes have been identified in many bacterial species, including B. subtilis [ 294 , 295 ] ( Table 2 ). Moreover, high molybdate affinity uptake has been reported to be mediated by ModA protein in B. subtilis in Mo-limited conditions [ 296 ].…”

Section: Bacillus Species and Heavy Metalsmentioning

confidence: 99%

Unraveling the Underlying Heavy Metal Detoxification Mechanisms of Bacillus Species

2021

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The rise of anthropogenic activities has resulted in the increasing release of various contaminants into the environment, jeopardizing fragile ecosystems in the process. Heavy metals are one of the major pollutants that contribute to the escalating problem of environmental pollution, being primarily introduced in sensitive ecological habitats through industrial effluents, wastewater, as well as sewage of various industries. Where heavy metals like zinc, copper, manganese, and nickel serve key roles in regulating different biological processes in living systems, many heavy metals can be toxic even at low concentrations, such as mercury, arsenic, cadmium, chromium, and lead, and can accumulate in intricate food chains resulting in health concerns. Over the years, many physical and chemical methods of heavy metal removal have essentially been investigated, but their disadvantages like the generation of chemical waste, complex downstream processing, and the uneconomical cost of both methods, have rendered them inefficient,. Since then, microbial bioremediation, particularly the use of bacteria, has gained attention due to the feasibility and efficiency of using them in removing heavy metals from contaminated environments. Bacteria have several methods of processing heavy metals through general resistance mechanisms, biosorption, adsorption, and efflux mechanisms. Bacillus spp. are model Gram-positive bacteria that have been studied extensively for their biosorption abilities and molecular mechanisms that enable their survival as well as their ability to remove and detoxify heavy metals. This review aims to highlight the molecular methods of Bacillus spp. in removing various heavy metals ions from contaminated environments.

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“…The system phenotype is also controlled by abiotic reactions, which are determined by measuring their kinetic rate constants as in studies on the reactivity between nitrogen and sulfur species and iron minerals ( Hansen et al, 1996 ; Carlson et al, 2012 ; Flynn et al, 2014 ; Grabb et al, 2017 ). To decipher causation for Step 2c.3 , molecular reductionist methods answer how a particular molecule or microorganism is acting to alter phenotype at high resolution ( Carlson et al, 2015a ; Thorgersen et al, 2015 ; Vaccaro et al, 2016 ; Price et al, 2018 ; Ge et al, 2020 ). For example, pooled mutant fitness assays can be used to help determine gene functions of an organism ( Price et al, 2018 ).…”

Section: Approach To Applying the Framework For Integrated Conceptuamentioning

confidence: 99%

“…At the field scale, ENIGMA has conducted surveys ( Step 2a.1 ) to characterize the biotic and abiotic components of the subsurface using 16S amplicon and shotgun metagenomics sequencing to characterize the microbial communities ( Smith et al, 2015 ; Zelaya et al, 2019 ; Tian et al, 2020 ) and biogeochemical measurements for the abiotic factors ( Smith et al, 2015 ; Ge et al, 2020 ; Moon et al, 2020 ; Wu et al, 2020 ). Hydrology and topology studies of ORR indicate that there are significant groundwater flow rates influenced by frequent rain events ( Watson et al, 2005 ), and preliminary tracer measurements with push–pull tests determined dispersal rates of chemicals like nitrate and their transfer between compartments ( Paradis et al, 2018 ) ( Step 2a.2 ).…”

Section: Approach To Applying the Framework For Integrated Conceptuamentioning

confidence: 99%

Mechanism Across Scales: A Holistic Modeling Framework Integrating Laboratory and Field Studies for Microbial Ecology

et al. 2021

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Over the last century, leaps in technology for imaging, sampling, detection, high-throughput sequencing, and -omics analyses have revolutionized microbial ecology to enable rapid acquisition of extensive datasets for microbial communities across the ever-increasing temporal and spatial scales. The present challenge is capitalizing on our enhanced abilities of observation and integrating diverse data types from different scales, resolutions, and disciplines to reach a causal and mechanistic understanding of how microbial communities transform and respond to perturbations in the environment. This type of causal and mechanistic understanding will make predictions of microbial community behavior more robust and actionable in addressing microbially mediated global problems. To discern drivers of microbial community assembly and function, we recognize the need for a conceptual, quantitative framework that connects measurements of genomic potential, the environment, and ecological and physical forces to rates of microbial growth at specific locations. We describe the Framework for Integrated, Conceptual, and Systematic Microbial Ecology (FICSME), an experimental design framework for conducting process-focused microbial ecology studies that incorporates biological, chemical, and physical drivers of a microbial system into a conceptual model. Through iterative cycles that advance our understanding of the coupling across scales and processes, we can reliably predict how perturbations to microbial systems impact ecosystem-scale processes or vice versa. We describe an approach and potential applications for using the FICSME to elucidate the mechanisms of globally important ecological and physical processes, toward attaining the goal of predicting the structure and function of microbial communities in chemically complex natural environments.

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Characterization of a Metal-Resistant Bacillus Strain With a High Molybdate Affinity ModA From Contaminated Sediments at the Oak Ridge Reservation

Cited by 12 publications

References 76 publications

The Impact of Chromate on Pseudomonas aeruginosa Molybdenum Homeostasis

The Impact of Chromate on Pseudomonas aeruginosa Molybdenum Homeostasis

Unraveling the Underlying Heavy Metal Detoxification Mechanisms of Bacillus Species

Mechanism Across Scales: A Holistic Modeling Framework Integrating Laboratory and Field Studies for Microbial Ecology

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