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The genome of stress tolerant crop wild relative Paspalum vaginatum leads to increased biomass productivity in the crop Zea mays

View ORCID ProfileGuangchao Sun, Nishikant Wase, Shengqiang Shu, Jerry Jenkins, Bangjun Zhou, Cindy Chen, Laura Sandor, Chris Plott, Yuko Yoshinga, Christopher Daum, Peng Qi, Kerrie Barry, Anna Lipzen, Luke Berry, Thomas Gottilla, Ashley Foltz, Huihui Yu, Ronan O’Malley, Chi Zhang, Katrien M. Devos, Brandi Sigmon, Bin Yu, View ORCID ProfileToshihiro Obata, Jeremy Schmutz, View ORCID ProfileJames C. Schnable
doi: https://doi.org/10.1101/2021.08.18.456832
Guangchao Sun
1Quantitative Life Sciences Initiative, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
2Center for Plant Science Innovation, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
3Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
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  • ORCID record for Guangchao Sun
Nishikant Wase
2Center for Plant Science Innovation, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
4Department of Biochemistry, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
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Shengqiang Shu
5Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, CA 94598, USA.
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Jerry Jenkins
6HudsonAlpha Institute for Biotechnology, Huntsville, AL 35806, USA
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Bangjun Zhou
2Center for Plant Science Innovation, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
7School of Biological Sciences, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
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Cindy Chen
5Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, CA 94598, USA.
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Laura Sandor
5Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, CA 94598, USA.
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Chris Plott
6HudsonAlpha Institute for Biotechnology, Huntsville, AL 35806, USA
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Yuko Yoshinga
5Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, CA 94598, USA.
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Christopher Daum
5Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, CA 94598, USA.
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Peng Qi
8Institute of Plant Breeding, Genetics and Genomics, Department of Crop and Soil Sciences, University of Georgia, Athens, GA 30602, USA
9Department of Crop and Soil Sciences, University of Georgia, Athens, GA 30602, USA
10Department of Plant Biology, University of Georgia, Athens, GA 30602, USA
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Kerrie Barry
5Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, CA 94598, USA.
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Anna Lipzen
5Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, CA 94598, USA.
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Luke Berry
2Center for Plant Science Innovation, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
4Department of Biochemistry, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
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Thomas Gottilla
8Institute of Plant Breeding, Genetics and Genomics, Department of Crop and Soil Sciences, University of Georgia, Athens, GA 30602, USA
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Ashley Foltz
1Quantitative Life Sciences Initiative, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
2Center for Plant Science Innovation, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
3Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
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Huihui Yu
2Center for Plant Science Innovation, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
7School of Biological Sciences, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
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Ronan O’Malley
5Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, CA 94598, USA.
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Chi Zhang
2Center for Plant Science Innovation, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
7School of Biological Sciences, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
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Katrien M. Devos
8Institute of Plant Breeding, Genetics and Genomics, Department of Crop and Soil Sciences, University of Georgia, Athens, GA 30602, USA
9Department of Crop and Soil Sciences, University of Georgia, Athens, GA 30602, USA
10Department of Plant Biology, University of Georgia, Athens, GA 30602, USA
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Brandi Sigmon
11Department of Plant Pathology, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
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Bin Yu
2Center for Plant Science Innovation, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
7School of Biological Sciences, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
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Toshihiro Obata
2Center for Plant Science Innovation, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
4Department of Biochemistry, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
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Jeremy Schmutz
5Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, CA 94598, USA.
6HudsonAlpha Institute for Biotechnology, Huntsville, AL 35806, USA
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  • For correspondence: jschmutz@hudsonalpha.org schnable@unl.edu
James C. Schnable
1Quantitative Life Sciences Initiative, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
2Center for Plant Science Innovation, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
3Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE, 68588 USA
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  • For correspondence: jschmutz@hudsonalpha.org schnable@unl.edu
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ABSTRACT

A number of crop wild relatives can tolerate extreme stressed to a degree outside the range observed in their domesticated relatives. However, it is unclear whether or how the molecular mechanisms employed by these species can be translated to domesticated crops. Paspalum Paspalum vaginatum is a self-incompatible and multiply stress-tolerant wild relative of maize and sorghum. Here we describe the sequencing and pseudomolecule level assembly of a vegetatively propagated accession of P. vaginatum. Phylogenetic analysis based on 6,151 single-copy syntenic orthologous conserved in 6 related grass species placed paspalum as an outgroup of the maize-sorghum clade demonstrating paspalum as their closest sequenced wild relative. In parallel metabolic experiments, paspalum, but neither maize nor sorghum, exhibited significant increases in trehalose when grown under nutrient-deficit conditions. Inducing trehalose accumulation in maize, imitating the metabolic phenotype of paspalum, resulting in autophagy dependent increases in biomass accumulation.

Competing Interest Statement

James C. Schnable has equity interests in Data2Bio, LLC; Dryland Genetics LLC; and EnGeniousAg LLC. He is a member of the scientific advisory board of GeneSeek and currently serves as a guest editor for The Plant Cell.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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The genome of stress tolerant crop wild relative Paspalum vaginatum leads to increased biomass productivity in the crop Zea mays
Guangchao Sun, Nishikant Wase, Shengqiang Shu, Jerry Jenkins, Bangjun Zhou, Cindy Chen, Laura Sandor, Chris Plott, Yuko Yoshinga, Christopher Daum, Peng Qi, Kerrie Barry, Anna Lipzen, Luke Berry, Thomas Gottilla, Ashley Foltz, Huihui Yu, Ronan O’Malley, Chi Zhang, Katrien M. Devos, Brandi Sigmon, Bin Yu, Toshihiro Obata, Jeremy Schmutz, James C. Schnable
bioRxiv 2021.08.18.456832; doi: https://doi.org/10.1101/2021.08.18.456832
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The genome of stress tolerant crop wild relative Paspalum vaginatum leads to increased biomass productivity in the crop Zea mays
Guangchao Sun, Nishikant Wase, Shengqiang Shu, Jerry Jenkins, Bangjun Zhou, Cindy Chen, Laura Sandor, Chris Plott, Yuko Yoshinga, Christopher Daum, Peng Qi, Kerrie Barry, Anna Lipzen, Luke Berry, Thomas Gottilla, Ashley Foltz, Huihui Yu, Ronan O’Malley, Chi Zhang, Katrien M. Devos, Brandi Sigmon, Bin Yu, Toshihiro Obata, Jeremy Schmutz, James C. Schnable
bioRxiv 2021.08.18.456832; doi: https://doi.org/10.1101/2021.08.18.456832

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