Rhizosphere bacterial interactions and impact on plant health

Current Opinion in Microbiology, Journal Year: 2023, Volume and Issue: 73, P. 102297 - 102297

Published: March 30, 2023

The rhizosphere is a chemically complex environment that harbors strikingly diverse microbial community. past few decades have seen rapid growth in the body of literature on plant–microbe–microbe interactions and plant health. Thus, aim this paper to review current knowledge (specifically bacteria) how these influence microbiomes impact This article discusses (i) recruits beneficial bacteria ii) competition between mechanisms/weapons employed bacteria–bacteria shapes microbiome turn affects heath. discussion mainly focuses interference competition, characterized by production specialized metabolites (antibacterial compounds) exploitative where bacterial strain restricts competitor's access nutrients such as through secretion siderophores could allude cooperation. Understanding mechanisms plant–bacteria provide insights into manipulate for improved agricultural outcomes.

Language: Английский

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Microbiome convergence enables siderophore-secreting-rhizobacteria to improve iron nutrition and yield of peanut intercropped with maize

Nature Communications, Journal Year: 2024, Volume and Issue: 15(1)

Published: Jan. 29, 2024

Abstract Intercropping has the potential to improve plant nutrition as well crop yield. However, exact mechanism promoting improved nutrient acquisition and role rhizosphere microbiome may play in this process remains poorly understood. Here, we use a peanut/maize intercropping system investigate of root-associated microbiota iron these crops, combining profiling, strain substance isolation functional validation. We find that increases peanut but not maize plants composition changes converges between two tested experiments. identify Pseudomonas secreted siderophore, pyoverdine, improves glasshouse field Our results suggest presence siderophore-secreting intercropped plays an important nutrition. These findings could be used envision future practices aiming

Language: Английский

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Siderophore synthetase-receptor gene coevolution reveals habitat- and pathogen-specific bacterial iron interaction networks

Science Advances, Journal Year: 2025, Volume and Issue: 11(3)

Published: Jan. 15, 2025

Bacterial social interactions play crucial roles in various ecological, medical, and biotechnological contexts. However, predicting these from genome sequences is notoriously difficult. Here, we developed bioinformatic tools to predict whether secreted iron-scavenging siderophores stimulate or inhibit the growth of community members. Siderophores are chemically diverse can be stimulatory inhibitory depending on bacteria have lack corresponding uptake receptors. We focused 1928 representative Pseudomonas genomes an experimentally validated coevolution algorithm match encoded siderophore synthetases receptor groups. derived community-level iron interaction networks show that siderophore-mediated differ across habitats lifestyles. Specifically, dense sharing competition were observed among environmental nonpathogenic species, while small, fragmented occurred human-associated pathogenic species. Together, our sequence-to-ecology approach empowers analyses thousands bacterial strains offers opportunities for targeted intervention microbial communities.

Language: Английский

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Siderophores drive invasion dynamics in bacterial communities through their dual role as public good versus public bad

Ecology Letters, Journal Year: 2021, Volume and Issue: 25(1), P. 138 - 150

Published: Nov. 9, 2021

Microbial invasions can compromise ecosystem services and spur dysbiosis disease in hosts. Nevertheless, the mechanisms determining invasion outcomes often remain unclear. Here, we examine role of iron-scavenging siderophores driving Pseudomonas aeruginosa into resident communities environmental pseudomonads. Siderophores be 'public goods' by delivering iron to individuals possessing matching receptors; but they also bads' withholding from competitors lacking these receptors. Accordingly, should either promote or impede invasion, depending on their effects invader growth. Using supernatant feeding assays, show that success indeed increased when could use its inhibit (public bad) rather than stimulate good) Conversely, decreased more was inhibited residents' siderophores. Our findings identify as a major driver dynamics bacterial under iron-limited conditions.

Language: Английский

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Proximity-based defensive mutualism between Streptomyces and Mesorhizobium by sharing and sequestering iron

The ISME Journal, Journal Year: 2024, Volume and Issue: 18(1)

Published: Jan. 1, 2024

Abstract Microorganisms living in soil maintain intricate interactions among themselves, forming the microbiota that influences rhizosphere microbiome and plant growth. However, mechanisms underlying microbial remain unclear. Streptomyces Mesorhizobium are commonly found serve as growth-promoting rhizobacteria (PGPR). Here, we identified an unprecedented interaction between colonies of red-soil-derived sp. FXJ1.4098 BAC0120 referred to it “proximity-based defensive mutualism (PBDM).” We metabolite-mediated iron competition sharing two microorganisms were responsible for PBDM. produced a highly diffusible siderophore, desferrioxamine, which made unavailable co-cultured BAC0120, thereby inhibiting its also released poorly iron-porphyrin complexes, could be utilized by restoring growth nearby BAC0120. Furthermore, ternary interactions, PBDM strategy contributed protection close from other competitors, resulting coexistence these PGPR. A scale-up pairwise screening suggested may common Streptomyces. These results demonstrate key role complex provide novel insights into PGPR soil.

Language: Английский

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Iron acquisition strategies in pseudomonads: mechanisms, ecology, and evolution

BioMetals, Journal Year: 2022, Volume and Issue: 36(4), P. 777 - 797

Published: Dec. 12, 2022

Iron is important for bacterial growth and survival, as it a common co-factor in essential enzymes. Although iron very abundant the earth crust, its bioavailability low most habitats because ferric largely insoluble under aerobic conditions at neutral pH. Consequently, bacteria have evolved plethora of mechanisms to solubilize acquire from environmental host stocks. In this review, I focus on Pseudomonas spp. first present main uptake taxa, which involve direct ferrous via importers, production iron-chelating siderophores, exploitation siderophores produced by other microbial species, use compounds plants animals. second part elaborate how these affect interactions between communities, their hosts. This live diverse communities certain iron-uptake strategies might not only nutrient, but also gain relative advantages over competitors race iron. Thus, an integrative understanding acquisition eco-evolutionary dynamics they drive community level prove useful understand why spp., particular, many general, such repertoires.

Language: Английский

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A comprehensive method to elucidate pyoverdines produced by fluorescent Pseudomonas spp. by UHPLC-HR-MS/MS

Analytical and Bioanalytical Chemistry, Journal Year: 2022, Volume and Issue: 414(8), P. 2671 - 2685

Published: Jan. 27, 2022

Microbial secondary metabolites represent a rich source for drug discovery, plant protective agents, and biotechnologically relevant compounds. Among them are siderophores, iron-chelating molecules, that show great influence on bacterial community assembly the potential to control pathogen invasions. One of such siderophore is pyoverdine produced by fluorescent Pseudomonas members consists different peptide chains specific each species. The identification structural elucidation suites siderophores remain widely underexplored as general high-throughput analytical protocols missing. Therefore, dedicated method was established allowing rapid localization pyoverdines. Liquid culture samples were purified an easy small-scale solid-phase extraction (SPE). Ultra-high-performance liquid chromatography high-resolution tandem mass spectrometry (UHPLC-HR-MS/MS) separated highly polar pyoverdines their derivatives. All ion fragmentation (AIF) generated spectra containing characteristic fragments biological precursor pyoverdine, ferribactin. This led revelation secreted Targeted MS/MS experiments at multiple collision energies accomplished full structure chain. A calculator predictor facilitated greatly interpretation providing accurate masses straightforward comparison measured theoretical values. successfully validated using four well-known with various chains. Finally, applicability proven analysis 13 unknown sampled cultures. these, 4 novel discovered herein reported first time.

Language: Английский

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Antimicrobial activity of iron-depriving pyoverdines against human opportunistic pathogens

eLife, Journal Year: 2024, Volume and Issue: 13

Published: Jan. 8, 2024

The global rise of antibiotic resistance calls for new drugs against bacterial pathogens. A common approach is to search natural compounds deployed by microbes inhibit competitors. Here, we show that the iron-chelating pyoverdines, siderophores produced environmental Pseudomonas spp., have strong antibacterial properties inducing iron starvation and growth arrest in screen 320 isolates used 12 human pathogens uncovered several pyoverdines with particularly high distinct chemical characteristics. most potent pyoverdine effectively reduced Acinetobacter baumannii , Klebsiella pneumoniae, Staphylococcus aureus a concentration- iron-dependent manner. Pyoverdine increased survival infected Galleria mellonella host larvae showed low toxicity host, mammalian cell lines, erythrocytes. Furthermore, experimental evolution combined whole-genome sequencing revealed limited compared an antibiotic. Thus, from strains potential become class sustainable antibacterials specific

Language: Английский

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Feature sequence-based genome mining uncovers the hidden diversity of bacterial siderophore pathways

eLife, Journal Year: 2024, Volume and Issue: 13

Published: May 1, 2024

Microbial secondary metabolites are a rich source for pharmaceutical discoveries and play crucial ecological functions. While tools exist to identify metabolite clusters in genomes, precise sequence-to-function mapping remains challenging because neither function nor substrate specificity of biosynthesis enzymes can accurately be predicted. Here, we developed knowledge-guided bioinformatic pipeline solve these issues. We analyzed 1928 genomes Pseudomonas bacteria focused on iron-scavenging pyoverdines as model metabolites. Our predicted 188 chemically different with nearly 100% structural accuracy the presence 94 distinct receptor groups required uptake iron-loaded pyoverdines. unveils an enormous yet overlooked diversity siderophores (151 new structures) receptors (91 groups). approach, combining feature sequence phylogenetic approaches, is extendable other microbial genera, thus emerges powerful tool reconstruct bacterial metabolism pathways based data.

Language: Английский

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Predicting bacterial interaction outcomes from monoculture growth and supernatant assays

ISME Communications, Journal Year: 2024, Volume and Issue: 4(1)

Published: Jan. 1, 2024

How to derive principles of community dynamics and stability is a central question in microbial ecology. Bottom-up experiments, which small number bacterial species are mixed, have become popular address it. However, experimental setups typically limited because co-culture experiments labor-intensive difficult distinguish. Here, we use four-species show that information from monoculture growth inhibitory effects induced by secreted compounds can be combined predict the competitive rank order community. Specifically, integrative parameters allow building preliminary order, then adjusted using supernatant assays. While our procedure worked for two different media, observed differences orders between media. We parameterized computer simulations with empirical data higher interactions largely follow predicted pairwise one important exception. The impact was reduced communities their negative were spread across multiple target species. Altogether, formulated three simple rules how assay establish an

Language: Английский

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