An atlas of metabolites driving chemotaxis in prokaryotes

Nature Communications, Journal Year: 2025, Volume and Issue: 16(1)

Published: Feb. 1, 2025

Language: Английский

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Metabolite Cross-Feeding Promoting NADH Production and Electron Transfer during Efficient SMX Biodegradation by a Denitrifier and S. oneidensis MR-1 in the Presence of Nitrate

Environmental Science & Technology, Journal Year: 2023, Volume and Issue: 57(46), P. 18306 - 18316

Published: April 12, 2023

Antibiotics often coexist with other pollutants (e.g., nitrate) in an aquatic environment, and their simultaneous biological removal has attracted widespread interest. We have found that sulfamethoxazole (SMX) nitrate can be efficiently removed by the coculture of a model denitrifier (Paracoccus denitrificans, Pd) Shewanella oneidensis MR-1 (So), SMX degradation is affected NADH production electron transfer. In this paper, mechanism promoting transfer was investigated proteomic analysis intermediate experiments. The results showed glutamine lactate produced Pd were captured So to synthesize thiamine heme, released taken up as cofactor pyruvate ketoglutarate dehydrogenase, which related generation. Additionally, acquired facilitated important composition complex III cytochrome c iron source sulfur clusters, key component I chain. Further investigation revealed generated prompted chemotactic moving toward Pd, helped two bacteria effectively obtain required substances. Obviously, metabolite cross-feeding promoted transfer, resulting efficient biodegradation presence nitrate. Its feasibility finally verified activated sludge So.

Language: Английский

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Sensing preferences for prokaryotic solute binding protein families

Microbial Biotechnology, Journal Year: 2023, Volume and Issue: 16(9), P. 1823 - 1833

Published: Aug. 7, 2023

Solute binding proteins (SBPs) are of central physiological relevance for prokaryotes. These present substrates to transporters, but they also stimulate different signal transduction receptors. SBPs form a superfamily at least 33 protein Pfam families. To assess possible links between SBP sequence and the ligand recognized, we have inspected manually all three-dimensional structures deposited in data bank retrieved 748 prokaryotic that been solved complex with bound ligand. were classified into 26 The analysis ligands recognized revealed most families possess preference compound class. There three each bind preferentially saccharides amino acids. In addition, identified purines, quaternary amines, iron iron-chelating compounds, oxoanions, bivalent metal ions or phosphates. Phylogenetic analyses suggest convergent evolutionary events lead same functional link chemotaxis uptake is reflected similarities by chemoreceptors. Associating profiles will be help design experimental strategies aimed identification uncharacterized SBPs.

Language: Английский

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An Azospirillum brasilense chemoreceptor that mediates nitrate chemotaxis has conditional roles in the colonization of plant roots

Applied and Environmental Microbiology, Journal Year: 2024, Volume and Issue: 90(6)

Published: May 22, 2024

ABSTRACT Motile plant-associated bacteria use chemotaxis and dedicated chemoreceptors to navigate gradients in their surroundings colonize host plant surfaces. Here, we characterize a chemoreceptor that named Tlp2 the soil alphaproteobacterium Azospirillum brasilense . We show ligand-binding domain is related 4-helix bundle family conserved found genomes of many soil- sediment-dwelling alphaproteobacteria. The promoter tlp2 regulated an NtrC- RpoN-dependent manner most upregulated under conditions nitrogen fixation or presence nitrate. Using fluorescently tagged (Tlp2-YFP), this present low abundance chemotaxis-signaling clusters prone degradation. also obtained evidence ammonium rapidly disrupts Tlp2-YFP localization. Behavioral experiments using strain lacking variants arginine residues suggest mediates nitrate nitrite, with R159 residue being essential for function. provide root surface colonization some plants (teff, red clover, cowpea) but not others (wheat, sorghum, alfalfa, pea). These results highlight selective role sensing illustrate relative contribution colonization. IMPORTANCE Bacterial host-microbe associations, including association beneficial roots plants. Dedicated specify sensory preferences during chemotaxis. mediating important bacterium all hosts tested. Nitrate preferred source nutrition, sense tightly control transport, resulting varying uptake rates depending on its physiological state. thus limiting nutrient rhizosphere. Chemotaxis likely motile competitive advantage access

Language: Английский

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A large scale bacterial attraction assay: a new quantitative bacterial migration assay suitable for genetic screens v1

Published: May 3, 2024

Bacteria use various motility mechanisms to explore their environments. Chemotaxis is the ability of a motile bacterial cell direct its movement in response chemical gradients. A number methods have been developed and widely used study chemotactic responses chemoeffectors including capillary, agar plug, microscopic slide, microfluidic assays. While valuable, these assays are primarily designed monitor rapid on small scale, which poses challenges collecting large quantities attracted bacteria. Consequently, setups not ideal for experiments like forward genetic screens. To overcome this limitation, we Large Scale Bacterial Attraction assay (LSBA), relies Nalgene™ Reusable Filter Unit other materials commonly found laboratories. We validate LSBA by investigating chemoeffector kinetics setup using chemoattractants quantify wild-type, impaired strains plant pathogenic bacterium Xanthomonas campestris pv. environmental Shewanella oneidensis. show that establishes long lasting gradient, can be migration over time offers possibility collect high numbers bacteria, making it suitable

Language: Английский

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Protocol preparation of bacterial cells v1

Published: May 3, 2024

This protocol details the preparation of bacterial cells to set up LSBA.

Language: Английский

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A large scale bacterial attraction assay: A new quantitative bacterial migration assay suitable for genetic screens

PLoS ONE, Journal Year: 2024, Volume and Issue: 19(6), P. e0305037 - e0305037

Published: June 5, 2024

Bacteria use various motility mechanisms to explore their environments. Chemotaxis is the ability of a motile bacterial cell direct its movement in response chemical gradients. A number methods have been developed and widely used study chemotactic responses chemoeffectors including capillary, agar plug, microscopic slide, microfluidic assays. While valuable, these assays are primarily designed monitor rapid on small scale, which poses challenges collecting large quantities attracted bacteria. Consequently, setups not ideal for experiments like forward genetic screens. To overcome this limitation, we L arge S cale B acterial ttraction assay (LSBA), relies Nalgene™ Reusable Filter Unit other materials commonly found laboratories. We validate LSBA by investigating chemoeffector kinetics setup using chemoattractants quantify wild-type, impaired strains plant pathogenic bacterium Xanthomonas campestris pv. environmental Shewanella oneidensis . show that establishes long lasting gradient, can be migration over time offers possibility collect high numbers bacteria, making it suitable

Language: Английский

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Chemoreceptor family in plant-associated bacteria responds preferentially to the plant signal molecule glycerol 3-phosphate

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Dec. 11, 2024

Abstract Plant pathogens and plant-associated bacteria contain about twice as many chemoreceptors the bacterial average, indicating that chemotaxis is particularly important for bacteria-plant interactions. However, information on corresponding limited. In this study, we identified chemoreceptor PacP from phytopathogen Pectobacterium atrosepticum , which exclusively recognized C3 phosphorylated compounds at its sCache ligand binding domain, mediating chemoattraction. Using a motif of amino acid residues involved in binding, family, termed sCache_PC3, was specific compounds. Isothermal titration calorimetry studies revealed family members preferentially bound glycerol 3-phosphate, key plant signaling molecule. Additionally, 2-phosphate glycolysis intermediates glyceraldehyde dihydroxyacetone phosphate 3-phosphoglycerate. This study presents first evidence bind We show sCache_PC3 has evolved an ancestral domain respond primarily to Krebs cycle intermediates. Members were mainly found interact with plants, including such Brenneria, Dickeya, Musicola, Pectobacterium, Herbaspirillum . Glycerol 3-phosphate signal molecule excreted by plants response stress infection. Chemotaxis towards may thus be means localize stressed move infection sites. lays groundwork investigating functional importance plant-bacteria interactions virulence. Significance statement The lifestyle shaped evolution transduction systems, number type varies greatly between occupying various ecological niches. Our understanding relationship function limited discovery responds significant advancement, allowing further determine physiological relevance. lack knowledge signals receptors currently major challenge microbiology. illustrates potential combining experimental screening computational prediction identify uncharacterized receptors.

Language: Английский

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Defining Two Chemosensory Arrays in Shewanella oneidensis

Biomolecules, Journal Year: 2022, Volume and Issue: 13(1), P. 21 - 21

Published: Dec. 22, 2022

Shewanella oneidensis has 2 functional chemosensory systems named Che1 and Che3, 27 chemoreceptors. Che3 is dedicated to chemotaxis while could be involved in RpoS post-translational regulation. In this study, we have shown that two chemoreceptors Aer2so McpAso, genetically related the system, form distinct core-signaling units signal respectively. Moreover, observed a cytoplasmic dynamic chemoreceptor that, when complex with CheA1 CheW1, localizes at poles centre of cells. Altogether, results obtained indicate are interconnected by these allowing global response for bacterial survival.

Language: Английский

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Cellular Damage of Bacteria Attached to Senescent Phytoplankton Cells as a Result of the Transfer of Photochemically Produced Singlet Oxygen: A Review

Microorganisms, Journal Year: 2023, Volume and Issue: 11(6), P. 1565 - 1565

Published: June 13, 2023

Several studies set out to explain the presence of high proportions photooxidation products cis-vaccenic acid (generally considered be bacterial origin) in marine environments. These show that these oxidation result from transfer singlet oxygen senescent phytoplankton cells bacteria attached them response irradiation by sunlight. This paper summarizes and reviews key findings studies, i.e., demonstration process at work effect different parameters (intensity solar irradiance, carotenoids, polar matrices such as silica, carbonate, exopolymeric substances around cells) on this transfer. A large part review looks how type alteration can affect preservation algal material environment, especially regions where conditions drive increased sympagic algae bacteria.

Language: Английский

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