Multilab EcoFAB study shows highly reproducible physiology and depletion of soil metabolites by a model grass
Abstract
There is a dynamic reciprocity between plants and their environment: soil physiochemical properties influence plant morphology and metabolism, and root morphology and exudates shape the environment surrounding roots. Here, we investigate the reproducibility of plant trait changes in response to three growth environments. We utilized fabricated ecosystem (EcoFAB) devices to grow the model grass Brachypodium distachyon in three distinct media across four laboratories: phosphate-sufficient and -deficient mineral media allowed assessment of the effects of phosphate starvation, and a complex, sterile soil extract represented a more natural environment with yet uncharacterized effects on plant growth and metabolism. Tissue weight and phosphate content, total root length, and root tissue and exudate metabolic profiles were consistent across laboratories and distinct between experimental treatments. Plants grown in soil extract were morphologically and metabolically distinct, with root hairs four times longer than with other growth conditions. Further, plants depleted half of the metabolites investigated from the soil extract. To interact with their environment, plants not only adapt morphology and release complex metabolite mixtures, but also selectively deplete a range of soil-derived metabolites. The EcoFABs utilized here generated high interlaboratory reproducibility, demonstrating their value in standardized investigations of plant traits.
- Authors:
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- Lawrence Berkeley National Laboratory 1 Cyclotron Road Berkeley CA 94720 USA, Joint Genome Institute 2800 Mitchell Drive Walnut Creek CA 94598 USA
- Institut für Bio‐ &, Geowissenschaften Forschungszentrum Jülich Wilhelm‐Johnen‐Straße 52428 Jülich Germany
- Department of Biology Howard Hughes Medical Institute University of North Carolina Chapel Hill 250 Bell Tower Drive Chapel Hill NC 27599 USA
- Institute of Molecular Plant Biology ETH Zürich Universitätsstrasse 2 8092 Zürich Switzerland
- Lawrence Berkeley National Laboratory 1 Cyclotron Road Berkeley CA 94720 USA, Joint Genome Institute 2800 Mitchell Drive Walnut Creek CA 94598 USA, School of Natural Sciences University of California Merced CA 95343 USA
- Publication Date:
- Research Org.:
- Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER)
- OSTI Identifier:
- 1491958
- Alternate Identifier(s):
- OSTI ID: 1491959; OSTI ID: 1506394
- Grant/Contract Number:
- AC02‐05CH11231; SC0014079; SC0014395; AC02-05CH11231
- Resource Type:
- Published Article
- Journal Name:
- New Phytologist
- Additional Journal Information:
- Journal Name: New Phytologist Journal Volume: 222 Journal Issue: 2; Journal ID: ISSN 0028-646X
- Publisher:
- Wiley
- Country of Publication:
- United Kingdom
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; Brachypodium distachyon; metabolomics; model ecosystem; reproducibility study; rhizosphere processes; root exudates; root morphology; soil extract
Citation Formats
Sasse, Joelle, Kant, Josefine, Cole, Benjamin J., Klein, Andrew P., Arsova, Borjana, Schlaepfer, Pascal, Gao, Jian, Lewald, Kyle, Zhalnina, Kateryna, Kosina, Suzanne, Bowen, Benjamin P., Treen, Daniel, Vogel, John, Visel, Axel, Watt, Michelle, Dangl, Jeffery L., and Northen, Trent R. Multilab EcoFAB study shows highly reproducible physiology and depletion of soil metabolites by a model grass. United Kingdom: N. p., 2019.
Web. doi:10.1111/nph.15662.
Sasse, Joelle, Kant, Josefine, Cole, Benjamin J., Klein, Andrew P., Arsova, Borjana, Schlaepfer, Pascal, Gao, Jian, Lewald, Kyle, Zhalnina, Kateryna, Kosina, Suzanne, Bowen, Benjamin P., Treen, Daniel, Vogel, John, Visel, Axel, Watt, Michelle, Dangl, Jeffery L., & Northen, Trent R. Multilab EcoFAB study shows highly reproducible physiology and depletion of soil metabolites by a model grass. United Kingdom. https://doi.org/10.1111/nph.15662
Sasse, Joelle, Kant, Josefine, Cole, Benjamin J., Klein, Andrew P., Arsova, Borjana, Schlaepfer, Pascal, Gao, Jian, Lewald, Kyle, Zhalnina, Kateryna, Kosina, Suzanne, Bowen, Benjamin P., Treen, Daniel, Vogel, John, Visel, Axel, Watt, Michelle, Dangl, Jeffery L., and Northen, Trent R. Thu .
"Multilab EcoFAB study shows highly reproducible physiology and depletion of soil metabolites by a model grass". United Kingdom. https://doi.org/10.1111/nph.15662.
@article{osti_1491958,
title = {Multilab EcoFAB study shows highly reproducible physiology and depletion of soil metabolites by a model grass},
author = {Sasse, Joelle and Kant, Josefine and Cole, Benjamin J. and Klein, Andrew P. and Arsova, Borjana and Schlaepfer, Pascal and Gao, Jian and Lewald, Kyle and Zhalnina, Kateryna and Kosina, Suzanne and Bowen, Benjamin P. and Treen, Daniel and Vogel, John and Visel, Axel and Watt, Michelle and Dangl, Jeffery L. and Northen, Trent R.},
abstractNote = {There is a dynamic reciprocity between plants and their environment: soil physiochemical properties influence plant morphology and metabolism, and root morphology and exudates shape the environment surrounding roots. Here, we investigate the reproducibility of plant trait changes in response to three growth environments. We utilized fabricated ecosystem (EcoFAB) devices to grow the model grass Brachypodium distachyon in three distinct media across four laboratories: phosphate-sufficient and -deficient mineral media allowed assessment of the effects of phosphate starvation, and a complex, sterile soil extract represented a more natural environment with yet uncharacterized effects on plant growth and metabolism. Tissue weight and phosphate content, total root length, and root tissue and exudate metabolic profiles were consistent across laboratories and distinct between experimental treatments. Plants grown in soil extract were morphologically and metabolically distinct, with root hairs four times longer than with other growth conditions. Further, plants depleted half of the metabolites investigated from the soil extract. To interact with their environment, plants not only adapt morphology and release complex metabolite mixtures, but also selectively deplete a range of soil-derived metabolites. The EcoFABs utilized here generated high interlaboratory reproducibility, demonstrating their value in standardized investigations of plant traits.},
doi = {10.1111/nph.15662},
journal = {New Phytologist},
number = 2,
volume = 222,
place = {United Kingdom},
year = {2019},
month = {1}
}
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Cited by: 30 works
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Figures / Tables:
Figure 1: Experimental setup of the reproducibility experiment. Illustration of the reproducibility experiment: EcoFABs, Brachypodium distachyon seeds, growth media (yellow, 0.59 Murashige & Skoog (MS); red, 0.59 MS-P; blue, soil extract), and light/temperature sensors were distributed to the participating laboratories. Each laboratory germinated the seeds, transferred seedlings to sterilized EcoFABs,more »
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