Root Secretion of Phytochemicals in Arabidopsis is Predominantly Not Influenced by Diurnal Rhythms

Dayakar,; Badri,; Victor, ..; Loyola-Vargas,; Corey,; Broeckling,; Jorge,; Vivanco,

doi:10.1016/j.molp.2015.01.009

Cited by 3 publications

(4 citation statements)

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“…For instance, inconsistencies in RNA quality causes widespread changes in RNA sequencing based gene expression levels ( Romero et al, 2014). Sample collection timing is another important factor for the analysis of activities, which follow diurnal rhythms, such as root gene expression ( Covington et al, 2008) and rhizosphere microbiome structure and function ( Hubbard et al, 2018), albeit not significant for others, such as root exudation ( Badri et al, 2010).…”

Section: Resultsmentioning

confidence: 99%

Experimental platforms for the investigation of spatiotemporal patterns in the rhizosphere—Laboratory and field scale

Vetterlein

Lippold

Schreiter

et al. 2020

J. Plant Nutr. Soil Sci.

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The numerous feedback loops between roots, microorganisms, soil chemical and physical properties, and environmental variables result in spatial parameter patterns which are highly dynamic in time. In order to improve our understanding of the related rhizosphere processes and their relevance at the soil–plant system scale, experimental platforms are required. Those platforms should enable (1) to relate small scale observations (nm to dm) to system behaviour, (2) the integration of physical, chemical and biological sampling approaches within the same experiment, and (3) sampling at different time points during the life cycle of the system in question. Here we describe what requirements have to be met and to what extent this has been achieved in practice by the experimental platforms which were set up within the framework of DFG priority programme 2089 “Rhizosphere Spatiotemporal Organisation—a key to rhizosphere functions”. It is discussed to what extent theoretical considerations could be accommodated, in particular for the comparison across scales, i.e., from laboratory to field scale. The latter scale is of utmost importance to overcome the trade‐off between fraction of life cycle covered and the avoidance of unrealistic root length densities.

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Section: Resultsmentioning

confidence: 99%

Experimental platforms for the investigation of spatiotemporal patterns in the rhizosphere—Laboratory and field scale

Vetterlein

Lippold

Schreiter

et al. 2020

J. Plant Nutr. Soil Sci.

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“…Hubbard et al (2018) 56 found that a malfunctioning circadian clock has a strongly impact on the A. thaliana rhizosphere microbiome, particularly the rare taxa, but the study does not reveal the key factors for rhizosphere microbiota change. To test the potential factors involved in the diurnal rhythms driving root-associated community shifts, root exudates are measured according to the pattern of the biological clock, and part of them are verified within a diurnal secretion pattern, 57 whereas the composition of organic matter significantly differs between light and dark cycle samples in the rhizosphere. 58 Furthermore, the bacterial communities were significantly different across the light to dark cycle in A. thaliana, and a 13% relative abundance of family level communities was found to show a circadian rhythm.…”

Section: Determinants Of the Microbial Community Assembly In The Rhiz...mentioning

confidence: 99%

Rhizosphere Microbiome Assembly and Its Impact on Plant Growth

Zhang

Peijnenburg

et al. 2020

J. Agric. Food Chem.

256

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Microorganisms colonizing the plant rhizosphere provide a number of beneficial functions for their host. Although an increasing number of investigations clarified the great functional capabilities of rhizosphere microbial communities, the understanding of the precise mechanisms underlying the impact of rhizosphere microbiome assemblies is still limited. Also, not much is known about the various beneficial functions of the rhizosphere microbiome. In this review, we summarize the current knowledge of biotic and abiotic factors that shape the rhizosphere microbiome as well as the rhizosphere microbiome traits that are beneficial to plants growth and disease-resistance. We give particular emphasis on the impact of plant root metabolites on rhizosphere microbiome assemblies and on how the microbiome contributes to plant growth, yield, and disease-resistance. Finally, we introduce a new perspective and a novel method showing how a synthetic microbial community construction provides an effective approach to unravel the plant–microbes and microbes–microbes interplays.

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“…Therefore, although hydroponic culture is an artificial system in which absolute concentrations of root exudates are expected to differ from soil‐grown plants, it is widely accepted that stress responses detected in hydroponically grown plants can be extrapolated to real‐world soil conditions ( Tyler and Ström , 1995; Neumann and Römheld , 1999; Broeckling et al, 2008; Carvalhais et al, 2011; Chaparro et al, 2013). Similarly, given that hydroponically grown and soil‐grown plants are expected to differ in the absolute amounts of root exudates released, we report relative metabolite levels ( i.e ., normalized GC‐MS peak areas) rather than absolute concentrations, still allowing for comparison of shifts in metabolite levels across treatments irrespective of their absolute concentrations ( Suzuki et al, 2009; Badri et al, 2010, 2012; Chaparro et al, 2013). Thus, our experimental approach allowed us to leverage the strengths of both hydroponics and GC‐MS as comparative tools for the initial assessment of responses of a wild species to novel treatment conditions.…”

Section: Discussionmentioning

confidence: 99%

“…The utility of GC‐MS as a platform for rapid screening of variation in physiological behavior has been demonstrated through its ability to distinguish single‐gene mutants, as well as similar genotypes grown under a variety of conditions ( Fiehn et al, 2000; Roessner et al, 2000, 2001; Kaplan et al, 2004; Harding et al, 2005, 2014; Xue et al, 2013). GC‐MS has also been used in comparative studies of root exudate composition for broad assessment of genotype and treatment effects on relative metabolite levels ( Suzuki et al, 2009; Badri et al, 2010, 2012; Chaparro et al, 2013). Using this platform, we hypothesized that under low‐nutrient supply, H. annuus would exhibit relatively higher exudation of organic acids and sugars (compounds known to affect soil nutrient bioavailability and plant–microbe associations), as well as lower exudation of amino acids, reflecting conservation of nitrogenous compounds.…”

Section: Introductionmentioning

confidence: 99%

Analysis of wild sunflower (Helianthus annuus L.) root exudates using gas chromatography‐mass spectrometry

Bowsher

Ali

Tsai

et al. 2015

J. Plant Nutr. Soil Sci.

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Plant root systems mediate ecological processes in the rhizosphere through the exudation of organic compounds. Although exudate composition is thought to depend strongly on plant nutrient status, little is known about the influence of multi‐nutrient stresses. In this study, we examined responses to short‐term (3 d) nutrient limitation in Helianthus annuus (common sunflower), and root exudates were collected for 2, 4, or 6 h with the trap‐solution method. Root exudates, analyzed by means of gas chromatography‐mass spectrometry, consisted of over 60 sugars, sugar alcohols, amino acids, organic acids, and phosphates, with sugars and organic acids generally detected in the highest quantities. Twenty‐five of the detected metabolites, including half of the organic acids, sugars, and sugar alcohols, differed in relative abundance among the three sampling intervals, exhibiting higher abundance in sampling intervals greater than 2 h. Similarly, 24 of the detected metabolites, including half of the amino acids, phosphates, and sugar alcohols, were affected by nutrient supply, with 20 exhibiting higher abundance in the high‐nutrient treatment. Fumaric acid, quinic acid, and glucose were detected at significantly higher levels in the low‐nutrient treatment, potentially representing an adaptive response to nutrient limitation in sunflower. However, as sampling interval exerted a strong influence on the apparent effects of nutrient supply, future studies should consider the potential impacts of sampling‐interval length in comparative analyses of genotypes or treatments.

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Root Secretion of Phytochemicals in Arabidopsis is Predominantly Not Influenced by Diurnal Rhythms

Cited by 3 publications

References 0 publications

Experimental platforms for the investigation of spatiotemporal patterns in the rhizosphere—Laboratory and field scale

Experimental platforms for the investigation of spatiotemporal patterns in the rhizosphere—Laboratory and field scale

Rhizosphere Microbiome Assembly and Its Impact on Plant Growth

Analysis of wild sunflower (Helianthus annuus L.) root exudates using gas chromatography‐mass spectrometry

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