Assembly and ecological function of the root microbiome across angiosperm plant species

Fitzpatrick, Connor R.; Copeland, John W.; Wang, Pauline W.; Guttman, David S.; Kotanen, Peter M.; Johnson, Marc T. J.

doi:10.1073/pnas.1717617115

Cited by 831 publications

(713 citation statements)

References 67 publications

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“…Our findings support recent studies showing that microbial communities are sensitive to phylogenetic distance among host plants (Bouffaud et al 2014, Naylor et al 2017) and plant species exhibit phylogenetic signal in the structure of soil microbial communities (Fitzpatrick et al 2018), at least with regard to organisms inhabiting the root ecto-and endosphere. Our findings support recent studies showing that microbial communities are sensitive to phylogenetic distance among host plants (Bouffaud et al 2014, Naylor et al 2017) and plant species exhibit phylogenetic signal in the structure of soil microbial communities (Fitzpatrick et al 2018), at least with regard to organisms inhabiting the root ecto-and endosphere.…”

Section: Discussionsupporting

confidence: 91%

Phylogenetic trait conservatism predicts patterns of plant‐soil feedback

et al. 2018

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Plant-soil feedbacks (PSFs) are important drivers of plant community structure and diversity, with species varying in the way they both condition soils and respond to them. While plant phylogenetic relationships alone can predict this variation in some instances, trait conservatism across phylogenies may provide more reliable predictions. Using integrated common garden and glasshouse inoculation experiments including 13 Eucalyptus species across two subgenera, we specifically investigated soil microbial conditioning and root chemical traits as underlying drivers of phylogenetic differences in PSF. We found that eucalypt species responded variably to soils conditioned by closely related species, depending on their phylogenetic lineage, which was further related to root terpene concentrations and the presence/absence of specific fungal taxa in conditioned soils. Overall, these findings show that trait conservatism in root chemical traits and the subsequent conditioning of soil microbial communities can explain whether or not plants show phylogenetic patterns in PSF.

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Section: Discussionsupporting

confidence: 91%

Phylogenetic trait conservatism predicts patterns of plant‐soil feedback

et al. 2018

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“…Plant functional traits, such as SRL, root N concentration and aboveground biomass explained microbial community composition in various studies (Legay et al 2014;Legay et al 2016;PerezJaramillo et al 2017;Fitzpatrick et al 2018), but not in Leff et al (2017) and Leff et al (2018).…”

Section: Plant Functional-traits Explain Rhizosphere Microbiomesmentioning

confidence: 95%

“…Other studies, likewise, found that variation in microbial community composition can be explained by plant functional traits (Cantarel et al 2015;Perez-Jaramillo et al 2017;Fitzpatrick et al 2018). However, it remains to be tested how results obtained in individual plants grown in controlled conditions translate into effects in plant communities, as results on plant community level are contradictory.…”

Section: Rhizosphere Microbial Community Assemblymentioning

confidence: 99%

“…Root C concentration was not significant in any of the cases. Fitzpatrick et al (2018) discussed that bacterial communities co-vary with plant productivity traits, such as SRL and aboveground biomass. SRL and root N concentration were found to reflect the root economic spectrum (Roumet et al 2016).…”

Section: Plant Functional-traits Explain Rhizosphere Microbiomesmentioning

confidence: 99%

“…The microbial community associated with plant roots can influence plant performance positively and negatively (Berendsen, Pieterse & Bakker 2012), and thereby can mediate plant-soil feedback interactions and resulting vegetation dynamics (Bever 1994;Fitzpatrick et al 2018). Rhizosphereassociated microbial communities are not mirror images of those in the bulk soil, but rather are plant-controlled subsets from this environmental species pool (Lundberg et al 2012;Bulgarelli et al 2013).…”

Section: Introductionmentioning

confidence: 99%

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A plant’s inheritance : Soil legacy effects of crops and wild relatives in relation to plant functional traits

Barel¹

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During crop domestication plant characteristics have been artificially selected for, with potential unwanted side-effects as some characteristics might have been altered unintentionally. Since productivity in agriculture relies on the interactions between plant and soil, it is a necessity to study the relationship between plant traits, decomposition, microbial community composition and the possible effects on future plant growth.This thesis presents results from several experiments studying how plants influence the soil, through decomposition of plant residues, the soil microbial community assemblage, and its possible consequence for subsequent plant growth. In a crop rotation experiment plant-soil feedback effects have been studied at field scale, with legacy effects of winter cover crops as the primary focus. Influences of plant traits on litter decomposition and microbial community were studied both in a field context and under controlled greenhouse conditions. By comparing the legacy effects of crops with close-relatives from natural grasslands the effects of domestication on litter decomposition and rhizosphere microbial community composition were explored.In the field experiment, it was observed that mixtures of cover crops can perform better than the sum of their parts when the plants in the mixture complemented each other during their growth. Productivity and quality of cover crops was found to promote growth of subsequent main crops, in part through stimulation of soil fungal biomass and feedback effects of decomposing litter. In the greenhouse, growing plants were observed to suppress decomposition of root and shoot litter to varying extent depending on which plant was present and on the quality of the decomposing litter. The results also indicate that domestication has affected plant functional traits in a variety of ways, rather than having predictable effects across a range of crops. Plant functional traits are a useful approach to study legacy effects, as they predict decomposability of plant residues and partially explain the microbial community composition in the rhizosphere. Significance of plant traits as predictors varied with environmental conditions, thus interpretation of the results should be related to its context. This thesis contributes to the understanding of plant-soil interactions, with emphasis on differences and similarities of agricultural and natural ecosystems.

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Phytobiomes, the Reason Why Microbiologists and Botanists Should Work Together

Snoeijenbos

Cárdenas

Guevara‐Suarez

et al. 2019

Annual Plant Reviews Online

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Phytobiomes consist of plants, their environment, and their associated communities of macro and microorganisms. Within the phytobiome, the microbiome consists of the microorganisms associated with the plants comprising the endophytes and epiphytes. Endophytes are microorganisms, mainly consisting of bacteria and fungi, which colonise internal plant tissues without causing any disease symptom or tissue damage in different hosts. All these organisms associated to the plant contribute to its fitness. In this article, we revised a total of 103 studies containing the terms phytobiomes and microbiomes and endophytes, with the aims of reviewing: (i) the evolution of the term endophyte and the evolution of the endophyte condition; (ii) the current literature on studies considering the endophyte community within phytobiomes; and (iii) the literature on the bacteria living in fungal endophytes. In our analyses, we highlighted the biases that have been introduced in the phytobiomes' studies. For example, the presence of endohyphal bacteria could have contributed to overestimating the number of bacterial endophytes in the scientific literature. This is the first article that includes studies that evaluate endophytes that are not considered alone but belonging to a complex interacting community, the phytobiome.

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Assembly and ecological function of the root microbiome across angiosperm plant species

Cited by 831 publications

References 67 publications

Phylogenetic trait conservatism predicts patterns of plant‐soil feedback

Phylogenetic trait conservatism predicts patterns of plant‐soil feedback

A plant’s inheritance : Soil legacy effects of crops and wild relatives in relation to plant functional traits

Phytobiomes, the Reason Why Microbiologists and Botanists Should Work Together

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