A complex immune response to flagellin epitope variation in commensal communities

Colaianni, Nicholas R.; Parys, Katarzyna; Lee, Hoseok; Conway, Jonathan M.; Kim, Nak Hyun; Edelbacher, Natalie; Mucyn, Tatiana S.; Madalinski, Mathias; Law, Theresa F.; Jones, Corbin D.; Belkhadir, Youssef; Dangl, Jeffery L.

doi:10.1016/j.chom.2021.02.006

Cited by 82 publications

(84 citation statements)

References 73 publications

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“…In response, these rhizosphere microbes have evolved mechanisms to suppress host defense responses. For instance, the pathogenic fungus Magnaporthe oryzae can produce effectors that target the host jasmonic acid (JA) signaling pathway [38] , while commensal and beneficial microbes may evade recognition by programming diverse peptide derivatives of flagellin (flg22) [39] . In addition to MAMP perception, the reactive oxygen species (ROS) burst is a critical step of innate immune activation in plants.…”

Section: Factors Driving the Assembly Of The Rhizosphere Microbiomementioning

confidence: 99%

Rhizosphere microbiome: Functional compensatory assembly for plant fitness

Xun

Shao

Shen

et al. 2021

Computational and Structural Biotechnology Journal

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Environmental pressure to reduce our reliance on agrochemicals and the necessity to increase crop production in a sustainable way have made the rhizosphere microbiome an untapped resource for combating challenges to agricultural sustainability. In recent years, substantial efforts to characterize the structural and functional diversity of rhizosphere microbiomes of the model plant Arabidopsis thaliana and various crops have demonstrated their importance for plant fitness. However, the plant benefiting mechanisms of the rhizosphere microbiome as a whole community rather than as an individual rhizobacterium have only been revealed in recent years. The underlying principle dominating the assembly of the rhizosphere microbiome remains to be elucidated, and we are still struggling to harness the rhizosphere microbiome for agricultural sustainability. In this review, we summarize the recent progress of the driving factors shaping the rhizosphere microbiome and provide community-level mechanistic insights into the benefits that the rhizosphere microbiome has for plant fitness. We then propose the functional compensatory principle underlying rhizosphere microbiome assembly. Finally, we suggest future research efforts to explore the rhizosphere microbiome for agricultural sustainability.

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Section: Factors Driving the Assembly Of The Rhizosphere Microbiomementioning

confidence: 99%

Rhizosphere microbiome: Functional compensatory assembly for plant fitness

Xun

Shao

Shen

et al. 2021

Computational and Structural Biotechnology Journal

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“…Plants interact with a vast diversity of microorganisms both above- and belowground, and the outcomes of those interactions may be either beneficial or detrimental to the plant. Essentially, the plant employs a range of strategies such as the action of constitutive and/or induced chemical compounds in combination with the plant innate immune system to assemble its associated microbiota [ 1 ]. The plant secondary metabolites glucosinolates (GLS) and flavonoids (FLVs) have been widely studied for several microbiota-mediating and plant protective functions [ 2 ].…”

Section: Introductionmentioning

confidence: 99%

“…Phytohormones serve as signalling molecules in regulating the innate immune network, and salicylic acid (SA), jasmonic acid (JA), ethylene (ET) and abscisic acid (ABA) act as molecular switches in stimulating inducible defense against biotic and abiotic stresses [ 7 , 8 ]. Owing to its robust and overarching activation of defense repertoires, the immune system is perceived to affect microbial community structures [ 1 , 9 , 10 ].…”

Section: Introductionmentioning

confidence: 99%

Arabidopsis assemble distinct root-associated microbiomes through the synthesis of an array of defense metabolites

2021

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Plant associated microbiomes are known to confer fitness advantages to the host. Understanding how plant factors including biochemical traits influence host associated microbiome assembly could facilitate the development of microbiome-mediated solutions for sustainable plant production. Here, we examined microbial community structures of a set of well-characterized Arabidopsis thaliana mutants disrupted in metabolic pathways for the production of glucosinolates, flavonoids, or a number of defense signalling molecules. A. thaliana lines were grown in a natural soil and maintained under greenhouse conditions for 4 weeks before collection of roots for bacterial and fungal community profiling. We found distinct relative abundances and diversities of bacterial and fungal communities assembled in the individual A. thaliana mutants compared to their parental lines. Bacterial and fungal genera were mostly enriched than depleted in secondary metabolite and defense signaling mutants, except for flavonoid mutations on fungi communities. Bacterial genera Azospirillum and Flavobacterium were significantly enriched in most of the glucosinolate, flavonoid and signalling mutants while the fungal taxa Sporobolomyces and Emericellopsis were enriched in several glucosinolates and signalling mutants. Whilst the present study revealed marked differences in microbiomes of Arabidopsis mutants and their parental lines, it is suggestive that unknown enzymatic and pleiotropic activities of the mutated genes could contribute to the identified host-associated microbiomes. Notwithstanding, this study revealed interesting gene-microbiota links, and thus represents valuable resource data for selecting candidate A. thaliana mutants for analyzing the links between host genetics and the associated microbiome.

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“…Mutations that disrupted the biosynthesis and downstream targets of salicylic acid-a critical phytohormone that regulates the plant immune response-selectively altered rates of colonization by microbes from particular families, mostly in the Actinobacteria or Proteobacteria (Lebeis et al, 2015). Plant-commensal microbes feature a high diversity of MAMPs that vary in their ability to trigger immune responses, suggesting that precise modification of host genomes to regulate particular organisms might one day be possible (Colaianni et al, 2021).…”

Section: Maintenance and Regulation Of The Microbiomementioning

confidence: 99%

Plant Genetics as a Tool for Manipulating Crop Microbiomes: Opportunities and Challenges

Clouse

Wagner

2021

Front. Bioeng. Biotechnol.

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Growing human population size and the ongoing climate crisis create an urgent need for new tools for sustainable agriculture. Because microbiomes have profound effects on host health, interest in methods of manipulating agricultural microbiomes is growing rapidly. Currently, the most common method of microbiome manipulation is inoculation of beneficial organisms or engineered communities; however, these methods have been met with limited success due to the difficulty of establishment in complex farm environments. Here we propose genetic manipulation of the host plant as another avenue through which microbiomes could be manipulated. We discuss how domestication and modern breeding have shaped crop microbiomes, as well as the potential for improving plant-microbiome interactions through conventional breeding or genetic engineering. We summarize the current state of knowledge on host genetic control of plant microbiomes, as well as the key challenges that remain.

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A complex immune response to flagellin epitope variation in commensal communities

Cited by 82 publications

References 73 publications

Rhizosphere microbiome: Functional compensatory assembly for plant fitness

Rhizosphere microbiome: Functional compensatory assembly for plant fitness

Arabidopsis assemble distinct root-associated microbiomes through the synthesis of an array of defense metabolites

Plant Genetics as a Tool for Manipulating Crop Microbiomes: Opportunities and Challenges

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