Rhizosphere Microbiome: The Emerging Barrier in Plant-Pathogen Interactions

Frontiers in Microbiology, Год журнала: 2021, Номер 12

Опубликована: Окт. 29, 2021

In the ecosystem, microbiome widely exists in soil, animals, and plants. With rapid development of computational biology, sequencing technology omics analysis, important role soil beneficial microbial community is being revealed. this review, we mainly summarized roles rhizosphere microbiome, revealing its complex pervasive nature contributing to largely invisible interaction with The manipulated microorganisms function as an indirect layer plant immune system by acting a barrier pathogen invasion or inducing systemic resistance. Specifically, could change recruit communities through root-type-specific metabolic properties, positively shape their response invasion. Meanwhile, plants microbes exhibit abilities avoid excessive responses for reciprocal symbiosis. Substantial lines evidence show pathogens might utilize secreting proteins/effectors overcome emerging peripheral advantage turn. Overall, are involved plant–pathogen interactions, power potential explored explained aim effectively increase growth productivity.

Язык: Английский

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Bacillus for Plant Growth Promotion and Stress Resilience: What Have We Learned?

Plants, Год журнала: 2022, Номер 11(19), С. 2482 - 2482

Опубликована: Сен. 22, 2022

The rhizosphere is a thin film of soil that surrounds plant roots and the primary location nutrient uptake, where important physiological, chemical, biological activities are occurring. Many microbes invade have capacity to promote growth health.

Язык: Английский

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Rhizobiome engineering: Unveiling complex rhizosphere interactions to enhance plant growth and health

Microbiological Research, Год журнала: 2022, Номер 263, С. 127137 - 127137

Опубликована: Июль 16, 2022

Язык: Английский

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Breeding toward improved ecological plant–microbiome interactions

Trends in Plant Science, Год журнала: 2022, Номер 27(11), С. 1134 - 1143

Опубликована: Июль 6, 2022

Язык: Английский

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Survey on Multi-omics, and Multi-omics Data Analysis, Integration and Application

Current Pharmaceutical Analysis, Год журнала: 2023, Номер 19(4), С. 267 - 281

Опубликована: Апрель 11, 2023

Abstract: Multi-omics approaches have developed as a profitable technique for plant systems, popular method in medical and biological sciences underlining the necessity to outline new integrative technology functions facilitate multi-scale depiction of systems. Understanding system through various omics layers reveals supplementary sources variability probably inferring sequence cases leading definitive process. Manuscripts reviews were searched on PubMed with keywords multi-omics, data analysis, omics, integration, deep learning multi-omics integration. Articles that published after 2010 prioritized. The authors focused mainly publications developing approaches. Omics reveal interesting tools produce behavioral interactions microbial communities, integrating details into risk assessment will an impact food safety, also relevant spoilage control procedures. datasets, comprehensively characterizing at molecular level, are continually increasing both dimensionality complexity. analysis is appropriate treatment optimization, testing disease prognosis, achieve mechanistic understandings diseases. New effective solutions together well-designed components recommended many trials. goal this mini-review article introduce technologies considering different analyses.

Язык: Английский

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The coral microbiome: towards an understanding of the molecular mechanisms of coral–microbiota interactions

FEMS Microbiology Reviews, Год журнала: 2023, Номер 47(2)

Опубликована: Март 1, 2023

Corals live in a complex, multipartite symbiosis with diverse microbes across kingdoms, some of which are implicated vital functions, such as those related to resilience against climate change. However, knowledge gaps and technical challenges limit our understanding the nature functional significance complex symbiotic relationships within corals. Here, we provide an overview complexity coral microbiome focusing on taxonomic diversity functions well-studied cryptic microbes. Mining literature indicate that while corals collectively harbour third all marine bacterial phyla, known symbionts antagonists represent minute fraction this these taxa cluster into select genera, suggesting selective evolutionary mechanisms enabled bacteria gain niche holobiont. Recent advances research aimed at leveraging manipulation increase coral's fitness help mitigate heat stress-related mortality discussed. Then, insights potential through microbiota can communicate modify host responses examined by describing recognition patterns, microbially derived epigenome effector proteins gene regulation. Finally, power omics tools used study highlighted emphasis integrated host-microbiota multiomics framework understand underlying during change-driven dysbiosis.

Язык: Английский

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‘Multi-omics’ data integration: applications in probiotics studies

npj Science of Food, Год журнала: 2023, Номер 7(1)

Опубликована: Июнь 5, 2023

Abstract The concept of probiotics is witnessing increasing attention due to its benefits in influencing the host microbiome and modulation immunity through strengthening gut barrier stimulation antibodies. These benefits, combined with need for improved nutraceuticals, have resulted extensive characterization leading an outburst data generated using several ‘omics’ technologies. recent development system biology approaches microbial science paving way integrating from different omics techniques understanding flow molecular information one level other clear on regulatory features phenotypes. limitations tendencies a ‘single omics’ application ignore influence processes justify ‘multi-omics’ selections action host. Different techniques, including genomics, transcriptomics, proteomics, metabolomics lipidomics, used studying their are discussed this review. Furthermore, rationale multi-omics integration platforms supporting analyses was also elucidated. This review showed that useful selecting functions microbiome. Hence, recommend approach holistically

Язык: Английский

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Milk and Its Derivatives as Sources of Components and Microorganisms with Health-Promoting Properties: Probiotics and Bioactive Peptides

Foods, Год журнала: 2024, Номер 13(4), С. 601 - 601

Опубликована: Фев. 16, 2024

Milk is a source of many valuable nutrients, including minerals, vitamins and proteins, with an important role in adult health. dairy products naturally containing or added probiotics have healthy functional food properties. Indeed, probiotic microorganisms, which beneficially affect the host by improving intestinal microbial balance, are recognized to immune response other biological functions. In addition macronutrients micronutrients, biologically active peptides (BPAs) been identified within amino acid sequences native milk proteins; hydrolytic reactions, such as those catalyzed digestive enzymes, result their release. BPAs directly influence numerous pathways evoking behavioral, gastrointestinal, hormonal, immunological, neurological, nutritional responses. The application drug development could improve consumer health provide therapeutic strategies for treatment prevention diseases. Herein, we review scientific literature on probiotics, products, special attention from minor species (buffalo, sheep, camel, yak, donkey, etc.); safety assessment will be also taken into consideration. Finally, recent advances foodomics unveil human discover novel peptide provided.

Язык: Английский

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Unraveling host regulation of gut microbiota through the epigenome–microbiome axis

Trends in Microbiology, Год журнала: 2024, Номер 32(12), С. 1229 - 1240

Опубликована: Июнь 5, 2024

Recent studies of dynamic interactions between epigenetic modifications a host organism and the composition or activity its associated gut microbiota suggest an opportunity for to shape microbiome through alterations that lead changes in gene expression noncoding RNA activity. We use insights from microbiota-induced review potential epigenetically regulate microbiome, which bidirectional 'epigenome–microbiome axis' emerges. This axis embeds environmentally induced variation, may influence adaptive evolution host–microbe interactions. furthermore present our perspective on how epigenome–microbiome can be understood investigated within holo-omic framework with applications applied health food sciences.

Язык: Английский

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A comprehensive overview of microbiome data in the light of machine learning applications: categorization, accessibility, and future directions

Frontiers in Microbiology, Год журнала: 2024, Номер 15

Опубликована: Фев. 13, 2024

Metagenomics, Metabolomics, and Metaproteomics have significantly advanced our knowledge of microbial communities by providing culture-independent insights into their composition functional potential. However, a critical challenge in this field is the lack standard comprehensive metadata associated with raw data, hindering ability to perform robust data stratifications consider confounding factors. In review, we categorize publicly available microbiome five types: shotgun sequencing, amplicon metatranscriptomic, metabolomic, metaproteomic data. We explore importance for reuse address challenges collecting standardized metadata. also, assess limitations collection existing public repositories metagenomic This review emphasizes vital role interpreting comparing datasets highlights need protocols fully leverage data's Furthermore, future directions implementation Machine Learning (ML) retrieval, offering promising avenues deeper understanding ecological roles. Leveraging these tools will enhance capabilities dynamics diverse ecosystems. Finally, emphasize crucial ML models development.

Язык: Английский

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