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Phylogenomics reveals multiple losses of nitrogen-fixing root nodule symbiosis

Griesmann, Maximilian, Chang, Yue, Liu, Xin, Song, Yue, Haberer, Georg, Crook, Matthew B., Billault-Penneteau, Benjamin, Lauressergues, Dominique, Keller, Jean, Imanishi, Leandro, Roswanjaya, Yuda Purwana, Kohlen, Wouter, Pujic, Petar, Battenberg, Kai, Alloisio, Nicole, Liang, Yuhu, Hilhorst, Henk, Salgado, Marco G., Hocher, Valerie, Gherbi, Hassen, Svistoonoff, Sergio, Doyle, Jeff J., He, Shixu, Xu, Yan, Xu, Shanyun, Qu, Jing, Gao, Qiang, Fang, Xiaodong, Fu, Yuan, Normand, Philippe, Berry, Alison M., Wall, Luis G., Ané, Jean-Michel, Pawlowski, Katharina, Xu, Xun, Yang, Huanming, Spannagl, Manuel, Mayer, Klaus F. X., Wong, Gane Ka-Shu, Parniske, Martin, Delaux, Pierre-Marc, Cheng, Shifeng·2018·Science
DOI 10.1126/science.aat1743
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Abstract

Genomic traces of symbiosis loss: A symbiosis between certain bacteria and their plant hosts delivers fixed nitrogen to the plants. Griesmann et al. sequenced several plant genomes to analyze why nitrogen-fixing symbiosis is irregularly scattered through the evolutionary tree (see the Perspective by Nagy). Various genomes carried traces of lost pathways that could have supported nitrogen-fixing symbiosis. It seems that this symbiosis, which relies on multiple pathways and complex interorganismal signaling, is susceptible to selection and prone to being lost over evolutionary time. Science , this issue p. eaat1743 ; see also p. 125

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  • If a genetic network controlling a trait has a low pleiotropic constraint or high genetic redundancy, genetic changes in different genetic pathways may create similar trait changes.

    “Alternatively, if a genetic network controlling a trait has a low pleiotropic constraint, or high genetic redundancy, then genetic changes in different genetic pathways may create similar trait changes (Griesmann et al. 2018).”

    From From Trees to Traits: A Review of Advances in PhyloG2P Methods and Future Directions (2025) · cites this paper as Griesmann et al. 2018

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Metadata

Authors
Griesmann, M., Chang, Y., Liu, X., Song, Y., Haberer, G., Crook, M. B., Billault-Penneteau, B., Lauressergues, D., Keller, J., Imanishi, L., Roswanjaya, Y. P., Kohlen, W., Pujic, P., Battenberg, K., Alloisio, N., Liang, Y., Hilhorst, H., Salgado, M. G., Hocher, V., Gherbi, H., Svistoonoff, S., Doyle, J. J., He, S., Xu, Y., Xu, S., Qu, J., Gao, Q., Fang, X., Fu, Y., Normand, P., Berry, A. M., Wall, L. G., Ané, J.-M., Pawlowski, K., Xu, X., Yang, H., Spannagl, M., Mayer, K. F. X., Wong, G. K.-S., Parniske, M., Delaux, P.-M., & Cheng, S.
Affiliations
  • Faculty of Biology, Genetics, LMU Munich, Großhaderner Strasse 2-4, 82152 Martinsried, Germany.
  • BGI-Shenzhen, Shenzhen 518083, China.
  • Plant Genome and Systems Biology (PGSB), Helmholtz Center Munich–German Research Center for Environmental Health, 85764 Neuherberg, Germany.
  • Department of Microbiology, Weber State University, Ogden, UT 84408-2506, USA.
  • Laboratoire de Recherche en Sciences Végétales (LRSV), Université de Toulouse, CNRS, UPS, 24 chemin de Borde Rouge, Auzeville, BP42617, 31326 Castanet Tolosan, France.
  • LBMIBS, Departamento de Ciencia y Tecnología, Universidad Nacional de Quilmes, CONICET, R. Saénz Peña 352, B1876BXD Bernal, Argentina.
  • Laboratory for Molecular Biology, Wageningen University, Droevendaalsesteeg 1, 6708 PB Wageningen, Netherlands.
  • Université Lyon 1, Université de Lyon, CNRS, Ecologie Microbienne, UMR 5557, Villeurbanne, 69622 Cedex, France.
  • Department of Plant Sciences, University of California, Davis, Davis, CA 95616, USA.
  • Laboratory for Plant Physiology, Wageningen University, Droevendaalsesteeg 1, 6708 PB Wageningen, Netherlands.
  • Department of Ecology, Environment and Plant Sciences, Stockholm University, 106 91 Stockholm, Sweden.
  • French National Research Institute for Sustainable Development (IRD), UMR LSTM (IRD–INRA–CIRAD–Université Montpellier–Supagro), Campus International de Baillarguet, TA A-82/J, 34398, Montpellier Cedex 5, France.
  • Section of Plant Breeding and Genetics, School of Integrated Plant Science, Cornell University, Ithaca, NY 14853, USA.
  • Department of Agronomy, University of Wisconsin–Madison, Madison, WI 53706, USA.
ORCID
Venue
Science
Publisher
American Association for the Advancement of Science (AAAS)
Published
2018-07-13
Volume
361
Issue
6398
ISSN
  • 0036-8075
  • 1095-9203
DOI
10.1126/science.aat1743
Cited by
429
References
4
Language
en
Funders
  • National Science Foundation (1237936, 1546742)
  • European Research Council (340904 (EVOLVINGNODULES))
  • Deutsche Forschungsgemeinschaft (SFB924)
  • Agence Nationale de la Recherche (ANR-12-BSV7-0007-02, ANR-10-LABX-41)
  • United States Department of Agriculture (NIFA 2015-67014-22849)
  • ECOS-SUD (A13B03)
  • Shenzhen Municipal Government of China (JCYJ20150529150409546, JCYJ20150831201643396)
  • NWO-VENI (863.15.010)
  • German Ministry of Education and Research grant (031A536)
  • Swedish Research Council Vetenskapsrådet (VR 2012-17840-97281-33)
  • National University of Quilmes (PUNQ 1411/15)
  • Consejo Nacional de Investigaciones Científicas y Técnicas
  • USDA-NIFA590 (CA-D-PLS-2173-H)

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