The Brassica napus seed microbiota is cultivar‐specific and transmitted via paternal breeding lines

Microbial Biotechnology, Journal Year: 2022, Volume and Issue: 15(9), P. 2379 - 2390

Published: May 20, 2022

Seed microbiota influence germination and plant health have the potential to improve crop performance, but factors that determine their structure functions are still not fully understood. Here, we analysed impact of plant-related external on seed endophyte communities 10 different oilseed rape (Brassica napus L.) cultivars from 26 field sites across Europe. All lots harboured a high abundance diversity endophytes, which were dominated by six genera: Ralstonia, Serratia, Enterobacter, Pseudomonas, Pantoea, Sphingomonas. The cultivar was main factor explaining variations in bacterial diversity, composition. In addition, latter significantly influenced diverse biotic abiotic factors, for example host rates disease resistance against Plasmodiophora brassicae. A set biomarkers identified discriminate between characteristics seeds, Sphingomonas improved Brevundimonas resistance. Application Bayesian community approach suggested vertical transmission where paternal parent plays major role might even performance offspring. This study contributes understanding microbiome assembly underlines be implemented breeding biocontrol programmes.

Language: Английский

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Metadata harmonization–Standards are the key for a better usage of omics data for integrative microbiome analysis

Environmental Microbiome, Journal Year: 2022, Volume and Issue: 17(1)

Published: June 24, 2022

Abstract Background Tremendous amounts of data generated from microbiome research studies during the last decades require not only standards for sampling and preparation omics but also clear concepts how metadata is prepared to ensure re-use integrative interdisciplinary analysis. Results In this Commentary, we present our views on key issues related current system submission in research, propose development a global system. Such should be easy use, clearly structured hierarchical way, compatible with all existing repositories, following common minimal required information ontology. Although minimum requirements are essential datasets, immense technological progress requires flexible system, which will have constantly improved re-thought. While FAIR principles (Findable, Accessible, Interoperable, Reusable) already considered, international legal genetic resource sequence sharing provided by Convention Biological Diversity need more awareness engagement scientific community. Conclusions The suggested approach entries would strongly improve retrieving re-using as demonstrated several representative use cases. These analyses, turn, further advance potential novel discoveries microbiome-derived products.

Language: Английский

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Seed fungal endophytes as biostimulants and biocontrol agents to improve seed performance

Frontiers in Plant Science, Journal Year: 2023, Volume and Issue: 14

Published: Oct. 24, 2023

Seed germination is a major determinant of plant development and final yield establishment but strongly reliant on the plant’s abiotic biotic environment. In context global climate change, classical approaches to improve seed under challenging environments through selection use synthetic pesticides reached their limits. A currently underexplored way exploit beneficial impact microorganisms associated with plants. Among microbiota, endophytes, which are micro-organisms living inside host tissues without causing any visible symptoms, promising candidates for improving fitness. They possibly establish mutualistic relationship host, leading enhanced improved tolerance threats pathogen attacks. The current view that such association relies chemical mediations using large variety molecules produced by endophytes. contrast leaf root seed-borne fungal endophytes have been poorly studied although they constitute early-life microbiota. Moreover, microbiota its metabolites appear as pertinent lever quality improvement. This review summarizes recent advances in identification benefits biology, especially stress. It also addresses mechanisms underlying effects physiology potential crop performance.’

Language: Английский

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Depletion of protective microbiota promotes the incidence of fruit disease

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

Published: Jan. 1, 2024

Language: Английский

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The type VI secretion system of Stenotrophomonas rhizophilaCFBP13503 limits the transmission of Xanthomonas campestris pv. campestris 8004 from radish seeds to seedlings

Molecular Plant Pathology, Journal Year: 2024, Volume and Issue: 25(1)

Published: Jan. 1, 2024

Stenotrophomonas rhizophila CFBP13503 is a seedborne commensal bacterial strain, which efficiently transmitted to seedlings and can outcompete the phytopathogenic bacterium Xanthomonas campestris pv. (Xcc8004). The type VI secretion system (T6SS), an interference contact-dependent mechanism, critical component of interbacterial competition. involvement T6SS S. in inhibition Xcc8004 growth seed-to-seedling transmission was assessed. cluster nine putative effectors were identified. Deletion two structural genes, hcp tssB, abolished competitive advantage against vitro. population sizes these species monitored after inoculation radish seeds with mixtures either wild-type (wt) strain or isogenic mutant. A significant decrease size observed during confrontation wt comparison T6SS-deletion mutants germinated seedlings. We found that distribution among 835 genomes genus scarce. In contrast, all available genomes, clusters are widespread mainly belong group i4. conclusion, involved antibiosis reduces seedling radish. this complex could make it possible exploit strains as biocontrol agents X. campestris.

Language: Английский

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Single Seed Microbiota: Assembly and Transmission from Parent Plant to Seedling

mBio, Journal Year: 2022, Volume and Issue: 13(6)

Published: Oct. 12, 2022

Seeds are key components of plant fitness and central to the sustainability agri-food system. Both seed quality for food consumption vigor in agricultural settings can be influenced by microbiota.

Language: Английский

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Host genotype, soil composition, and geo-climatic factors shape the fonio seed microbiome

Microbiome, Journal Year: 2024, Volume and Issue: 12(1)

Published: Jan. 17, 2024

Fonio (Digitaria exilis), an orphan millet crop, is the oldest indigenous crop in West Africa. Although yield low due to pre-domestication characteristics, quick maturation time, drought tolerance, and ability thrive on poor soils make fonio a climate-smart crop. Being holobionts, plants evolve close interaction with microbial partners, which crucial for plant phenology fitness. As seeds are bottleneck of vertically transmitting microbiota, we proposed unravel seed microbiome under-domesticated resilient fonio. Our study investigated bacterial endophyte diversity across 126 sequenced accessions from distinct locations We conducted correlation structures functions seed-associated microbiomes native geo-climate soil structure data. also performed Genome-wide association studies (GWAS) identify genetic loci associated diversity.

Language: Английский

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Bacterial Endophytes Contribute to Rice Seedling Establishment Under Submergence

Frontiers in Plant Science, Journal Year: 2022, Volume and Issue: 13

Published: June 29, 2022

Flooding events caused by severe rains and poor soil drainage can interfere with plant germination seedling establishment. Rice is one of the cereal crops that has unique strategies under flooding. One these based on fast coleoptile elongation in order to reach water surface re-establish contact air. Microorganisms contribute health via growth promoters provide protection from abiotic stresses. To characterise community composition microbiome rice submergence, a 16S rRNA gene profiling metagenomic analysis was performed temperate japonica varieties Arborio Lamone seedlings, which showed contrasting responses terms length when submerged. This distinct microbiota seeds are characterised development long coleoptile. examine potential function microbial communities culturable bacteria were isolated, identified tested for growth-promoting activities. A subgroup isolated capacity hydrolyse starch produce indole-related compounds hypoxia. Selected inoculated evaluate their effect showing response dependent genotype. Our findings suggest endophytic possess activities substantially establishment submergence.

Language: Английский

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Evidence of virulence and antibiotic resistance genes from the microbiome mapping in minimally processed vegetables producing facilities

Food Research International, Journal Year: 2022, Volume and Issue: 162, P. 112202 - 112202

Published: Nov. 19, 2022

Daily consumption of fresh vegetables is highly recommended by international health organizations, because their high content nutrients. However, might harbour several pathogenic microorganisms or contribute to spread antibiotic resistance, thus representing a hazard for consumers. In addition, little known about the transmission routes residential microbiome from food handling environment vegetables. Therefore, we collected environmental and samples three manufactures producing estimate relevance built on that finished products. Our results show contact surfaces sampled after routine cleaning disinfection procedures host diverse microbiome, including pathogens such as enterotoxigenic Bacillus cereus sensu stricto. provide evidence presence wide range resistance virulence genes associated with multiple taxa, supporting hypothesis selection resistant taxa occur sanitized surfaces. This study also highlights potential mapping routinely applied in industries monitoring programs ensure safety.

Language: Английский

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Pitting the olive seed microbiome

Environmental Microbiome, Journal Year: 2024, Volume and Issue: 19(1)

Published: March 15, 2024

Abstract Background The complex and co-evolved interplay between plants their microbiota is crucial for the health fitness of plant holobiont. However, seeds still relatively unexplored no studies have been conducted with olive trees so far. In this study, we aimed to characterize bacterial, fungal archaeal communities present in ten genotypes growing same orchard through amplicon sequencing test whether genotype a major driver shaping seed microbial community, identify origin latter. Therefore, developed methodology obtaining samples from seed’s endosphere under sterile conditions. Results A diverse was uncovered seeds, being an important factor influencing structure composition communities. most abundant bacterial phylum Actinobacteria , accounting average relative abundance 41%. At genus level, Streptomyces stood out because its potential influence on community structure. Within Basidiomycota Ascomycota were phyla, including genera Malassezia Cladosporium Mycosphaerella . shared microbiome composed four ( Stenotrophomonas Promicromonospora Acidipropionibacterium ) three genera. Furthermore, comparison findings obtained here earlier results root indicated that such as both compartments. Conclusions This study provides first insights into microbiota. highly reflect unique signature clearly shaped although found. We identified may translocate roots they organs trees. These set stage future research vertical transmission endophytes role specific taxa germination, development, seedling survival.

Language: Английский

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