Rhizosphere bacteriome structure and functions

Nature Communications, Journal Year: 2022, Volume and Issue: 13(1)

Published: Feb. 11, 2022

Abstract Microbial composition and functions in the rhizosphere—an important microbial hotspot—are among most fascinating yet elusive topics ecology. We used 557 pairs of published 16S rDNA amplicon sequences from bulk soils rhizosphere different ecosystems around world to generalize bacterial characteristics with respect community diversity, composition, functions. The selects microorganisms soil function as a seed bank, reducing diversity. is enriched Bacteroidetes, Proteobacteria, other copiotrophs. Highly modular but unstable networks (common for r -strategists) reflect interactions adaptations dynamic conditions. Dormancy strategies are dominated by toxin–antitoxin systems, while sporulation common soils. Functional predictions showed that genes involved organic compound conversion, nitrogen fixation, denitrification were strongly (11–182%), nitrification depleted.

Language: Английский

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Soil structure and microbiome functions in agroecosystems

Nature Reviews Earth & Environment, Journal Year: 2022, Volume and Issue: 4(1), P. 4 - 18

Published: Nov. 22, 2022

Language: Английский

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Climate change impacts on plant pathogens, food security and paths forward

Nature Reviews Microbiology, Journal Year: 2023, Volume and Issue: 21(10), P. 640 - 656

Published: May 2, 2023

Language: Английский

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Soil microbiomes and one health

Nature Reviews Microbiology, Journal Year: 2022, Volume and Issue: 21(1), P. 6 - 20

Published: Aug. 23, 2022

Language: Английский

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Plant–microbiome interactions under a changing world: responses, consequences and perspectives

New Phytologist, Journal Year: 2022, Volume and Issue: 234(6), P. 1951 - 1959

Published: Feb. 4, 2022

Summary Climate change is increasing global temperatures and the frequency severity of droughts in many regions. These anthropogenic stresses pose a significant threat to plant performance crop production. The plant‐associated microbiome modulates impacts biotic abiotic on fitness. However, climate change‐induced alteration composition activities microbiomes can affect host functions. Here, we highlight recent advancements our understanding impact (warming drought) plant–microbiome interactions their ecological functions from genome ecosystem scales. We identify knowledge gaps, propose new concepts make recommendations for future research directions. It proposed that short term (years decades), adaptation plants mainly driven by microbiome, whereas long (century millennia), will be equally eco‐evolutionary between its host. A better response ways which mitigate negative inform predictions primary productivity aid developing management policy tools improve resilience systems.

Language: Английский

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Priority effects in microbiome assembly

Nature Reviews Microbiology, Journal Year: 2021, Volume and Issue: 20(2), P. 109 - 121

Published: Aug. 27, 2021

Language: Английский

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Disease-induced changes in plant microbiome assembly and functional adaptation

Microbiome, Journal Year: 2021, Volume and Issue: 9(1)

Published: Sept. 15, 2021

The plant microbiome is an integral part of the host and increasingly recognized as playing fundamental roles in growth health. Increasing evidence indicates that rhizosphere recruits beneficial microbes to suppress soil-borne pathogens. However, ecological processes govern assembly functions below- aboveground compartments under pathogen invasion are not fully understood. Here, we studied bacterial fungal communities associated with 12 (e.g., soils, roots, stems, fruits) chili pepper (Capsicum annuum L.) using amplicons (16S ITS) metagenomics approaches at main production sites China investigated how Fusarium wilt disease (FWD) affects assembly, co-occurrence patterns, plant-associated microbiomes.The amplicon data analyses revealed FWD affected less on reproductive organs (fruit) than vegetative (root stem), strongest impact upper stem epidermis. Fungal intra-kingdom networks were stable their more sensitive communities. analysis microbial interkingdom network further indicated destabilized induced importance taxa. Although diseased plants susceptible colonization by other pathogenic fungi, can also recruit potential bacteria. Some taxa enriched identified core for microbiomes hub networks. On hand, metagenomic significant enrichment several functional genes involved detoxification, biofilm formation, plant-microbiome signaling pathways (i.e., chemotaxis) plants.Together, demonstrate a could bacteria mitigate changes organ facilitate or its offspring survival. may attract through modulation pathways. These findings significantly advance our understanding interactions provide important harnessing sustainable agriculture. Video abstract.

Language: Английский

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Plant developmental stage drives the differentiation in ecological role of the maize microbiome

Microbiome, Journal Year: 2021, Volume and Issue: 9(1)

Published: Aug. 13, 2021

Abstract Background Plants live with diverse microbial communities which profoundly affect multiple facets of host performance, but if and how development impacts the assembly, functions interactions crop microbiomes are poorly understood. Here we examined both bacterial fungal across soils, epiphytic endophytic niches leaf root, plastic fake plant (representing environment-originating microbes) at three developmental stages maize two contrasting sites, further explored potential function phylloplane based on metagenomics. Results Our results suggested that stage had a much stronger influence diversity, composition interkingdom networks in compartments than strongest effect phylloplane. Phylloplane were co-shaped by growth seasonal environmental factors, air (represented plants) as its important source. Further, found more strongly driven deterministic processes early similar pattern was for late stage. Moreover, taxa played role network yield prediction stage, while did so Metagenomic analyses indicated possessed higher functional diversity genes related to nutrient provision enriched N assimilation C degradation Coincidently, abundant beneficial like Actinobacteria, Burkholderiaceae Rhizobiaceae observed saprophytic fungi Conclusions suggest influences microbiome assembly functions, take differentiated ecological different development. This study provides empirical evidence exerting strong selection during These findings have implications future tools manipulate sustainable increase primary productivity.

Language: Английский

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AI for life: Trends in artificial intelligence for biotechnology

New Biotechnology, Journal Year: 2023, Volume and Issue: 74, P. 16 - 24

Published: Feb. 6, 2023

Due to popular successes (e.g., ChatGPT) Artificial Intelligence (AI) is on everyone's lips today. When advances in biotechnology are combined with AI unprecedented new potential solutions become available. This can help many global problems and contribute important Sustainability Development Goals. Current examples include Food Security, Health Well-being, Clean Water, Energy, Responsible Consumption Production, Climate Action, Life below or protect, restore promote sustainable use of terrestrial ecosystems, sustainably manage forests, combat desertification, halt reverse land degradation biodiversity loss. ubiquitous the life sciences Topics a wide range from machine learning Big Data analytics, knowledge discovery data mining, biomedical ontologies, knowledge-based reasoning, natural language processing, decision support reasoning under uncertainty, temporal spatial representation inference, methodological aspects explainable (XAI) applications biotechnology. In this pre-Editorial paper, we provide an overview open research issues challenges for each topics addressed special issue. Potential authors directly as guideline developing their paper.

Language: Английский

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Crop microbiome and sustainable agriculture

Nature Reviews Microbiology, Journal Year: 2020, Volume and Issue: 18(11), P. 601 - 602

Published: Oct. 9, 2020

Language: Английский

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