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Multi-lab EcoFAB study shows highly reproducible physiology and depletion of soil metabolites by a model grass

View ORCID ProfileJoelle Sasse, Josefine Kant, Benjamin J. Cole, Andrew P. Klein, Borjana Arsova, Pascal Schlaepfer, Jian Gao, Kyle Lewald, Kateryna Zhalnina, Suzanne Kosina, Benjamin P. Bowen, Daniel Treen, John Vogel, Axel Visel, Michelle Watt, Jeffery L. Dangl, Trent R. Northen
doi: https://doi.org/10.1101/435818
Joelle Sasse
1Lawrence Berkeley National Laboratory, 1 Cyclotron Rd, Berkeley, CA 94720, USA;
2Joint 10 Genome Institute, 2800 Mitchell Dr, Walnut Creek, CA 94598, USA;
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  • ORCID record for Joelle Sasse
Josefine Kant
3Institut für Bio-& Geowissenschaften, Forschungszentrum Jülich, Wilhelm-Johnen-Straße, 52428 Jülich, Germany;
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Benjamin J. Cole
1Lawrence Berkeley National Laboratory, 1 Cyclotron Rd, Berkeley, CA 94720, USA;
2Joint 10 Genome Institute, 2800 Mitchell Dr, Walnut Creek, CA 94598, USA;
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Andrew P. Klein
4Howard Hughes Medical Institute and Dept. of Biology, University of North Carolina Chapel Hill, 250 Bell Tower Drive, Chapel Hill, NC 27599, USA;
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Borjana Arsova
3Institut für Bio-& Geowissenschaften, Forschungszentrum Jülich, Wilhelm-Johnen-Straße, 52428 Jülich, Germany;
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Pascal Schlaepfer
5Institute of Molecular Plant Biology, ETH Zürich, Universitätsstrasse 2, 8092 Zürich, Switzerland,
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Jian Gao
1Lawrence Berkeley National Laboratory, 1 Cyclotron Rd, Berkeley, CA 94720, USA;
2Joint 10 Genome Institute, 2800 Mitchell Dr, Walnut Creek, CA 94598, USA;
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Kyle Lewald
1Lawrence Berkeley National Laboratory, 1 Cyclotron Rd, Berkeley, CA 94720, USA;
2Joint 10 Genome Institute, 2800 Mitchell Dr, Walnut Creek, CA 94598, USA;
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Kateryna Zhalnina
1Lawrence Berkeley National Laboratory, 1 Cyclotron Rd, Berkeley, CA 94720, USA;
2Joint 10 Genome Institute, 2800 Mitchell Dr, Walnut Creek, CA 94598, USA;
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Suzanne Kosina
1Lawrence Berkeley National Laboratory, 1 Cyclotron Rd, Berkeley, CA 94720, USA;
2Joint 10 Genome Institute, 2800 Mitchell Dr, Walnut Creek, CA 94598, USA;
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Benjamin P. Bowen
1Lawrence Berkeley National Laboratory, 1 Cyclotron Rd, Berkeley, CA 94720, USA;
2Joint 10 Genome Institute, 2800 Mitchell Dr, Walnut Creek, CA 94598, USA;
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Daniel Treen
1Lawrence Berkeley National Laboratory, 1 Cyclotron Rd, Berkeley, CA 94720, USA;
2Joint 10 Genome Institute, 2800 Mitchell Dr, Walnut Creek, CA 94598, USA;
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John Vogel
1Lawrence Berkeley National Laboratory, 1 Cyclotron Rd, Berkeley, CA 94720, USA;
2Joint 10 Genome Institute, 2800 Mitchell Dr, Walnut Creek, CA 94598, USA;
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Axel Visel
1Lawrence Berkeley National Laboratory, 1 Cyclotron Rd, Berkeley, CA 94720, USA;
2Joint 10 Genome Institute, 2800 Mitchell Dr, Walnut Creek, CA 94598, USA;
6School of Natural Sciences, University of California, Merced, CA 95343, USA
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Michelle Watt
3Institut für Bio-& Geowissenschaften, Forschungszentrum Jülich, Wilhelm-Johnen-Straße, 52428 Jülich, Germany;
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Jeffery L. Dangl
4Howard Hughes Medical Institute and Dept. of Biology, University of North Carolina Chapel Hill, 250 Bell Tower Drive, Chapel Hill, NC 27599, USA;
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Trent R. Northen
1Lawrence Berkeley National Laboratory, 1 Cyclotron Rd, Berkeley, CA 94720, USA;
2Joint 10 Genome Institute, 2800 Mitchell Dr, Walnut Creek, CA 94598, USA;
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Summary

  • There is a dynamic reciprocity between plants and their environment: On one hand, the physiochemical properties of soil influence plant morphology and metabolism, while on the other, root morphology and exudates shape the environment surrounding roots. Here, we investigate both of these aspects as well as the reproducibility of these responses across laboratories.

  • The model grass Brachypodium distachyon was grown in phosphate-sufficient and phosphate-deficient mineral media, as well as in sterile soil extract, within fabricated ecosystem (EcoFAB) devices across four laboratories.

  • Tissue weight and phosphate content, total root length, root tissue and exudate metabolic profiles were found to be consistent across laboratories and distinct between experimental treatments. Plants grown in soil extract were morphologically and metabolically distinct in all laboratories, with root hairs four times longer compared to other growth conditions. Further, plants depleted half of the investigated metabolites from the soil extract.

  • To interact with their environment, plants not only adapt morphology and release complex metabolite mixtures; they also selectively deplete a range of soil-derived metabolites. The EcoFABs utilized here generated high inter-laboratory reproducibility, demonstrating that their value in standardized investigations of plant traits.

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Posted October 05, 2018.
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Multi-lab EcoFAB study shows highly reproducible physiology and depletion of soil metabolites by a model grass
Joelle Sasse, Josefine Kant, Benjamin J. Cole, Andrew P. Klein, Borjana Arsova, Pascal Schlaepfer, Jian Gao, Kyle Lewald, Kateryna Zhalnina, Suzanne Kosina, Benjamin P. Bowen, Daniel Treen, John Vogel, Axel Visel, Michelle Watt, Jeffery L. Dangl, Trent R. Northen
bioRxiv 435818; doi: https://doi.org/10.1101/435818
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Multi-lab EcoFAB study shows highly reproducible physiology and depletion of soil metabolites by a model grass
Joelle Sasse, Josefine Kant, Benjamin J. Cole, Andrew P. Klein, Borjana Arsova, Pascal Schlaepfer, Jian Gao, Kyle Lewald, Kateryna Zhalnina, Suzanne Kosina, Benjamin P. Bowen, Daniel Treen, John Vogel, Axel Visel, Michelle Watt, Jeffery L. Dangl, Trent R. Northen
bioRxiv 435818; doi: https://doi.org/10.1101/435818

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