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Host genotype and age shape the leaf and root microbiomes of a wild perennial plant

Author

Listed:
  • Maggie R. Wagner

    (Program in Genetics and Genomics, Duke University
    Present address: Department of Plant Pathology, North Carolina State University, Raleigh, North Carolina 27695, USA)

  • Derek S Lundberg

    (Curriculum in Genetics and Molecular Biology, Carolina Center for Genome Sciences, University of North Carolina
    Present address: Max Planck Institute for Developmental Biology, Tübingen D-72076, Germany)

  • Tijana G. del Rio

    (Department of Energy Joint Genome Institute)

  • Susannah G. Tringe

    (Department of Energy Joint Genome Institute)

  • Jeffery L. Dangl

    (Curriculum in Genetics and Molecular Biology, Carolina Center for Genome Sciences, University of North Carolina
    Howard Hughes Medical Institute, University of North Carolina)

  • Thomas Mitchell-Olds

    (Program in Genetics and Genomics, Duke University)

Abstract

Bacteria living on and in leaves and roots influence many aspects of plant health, so the extent of a plant’s genetic control over its microbiota is of great interest to crop breeders and evolutionary biologists. Laboratory-based studies, because they poorly simulate true environmental heterogeneity, may misestimate or totally miss the influence of certain host genes on the microbiome. Here we report a large-scale field experiment to disentangle the effects of genotype, environment, age and year of harvest on bacterial communities associated with leaves and roots of Boechera stricta (Brassicaceae), a perennial wild mustard. Host genetic control of the microbiome is evident in leaves but not roots, and varies substantially among sites. Microbiome composition also shifts as plants age. Furthermore, a large proportion of leaf bacterial groups are shared with roots, suggesting inoculation from soil. Our results demonstrate how genotype-by-environment interactions contribute to the complexity of microbiome assembly in natural environments.

Suggested Citation

  • Maggie R. Wagner & Derek S Lundberg & Tijana G. del Rio & Susannah G. Tringe & Jeffery L. Dangl & Thomas Mitchell-Olds, 2016. "Host genotype and age shape the leaf and root microbiomes of a wild perennial plant," Nature Communications, Nature, vol. 7(1), pages 1-15, November.
    • Handle: RePEc:nat:natcom:v:7:y:2016:i:1:d:10.1038_ncomms12151
    DOI: 10.1038/ncomms12151
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    Cited by:

    1. Eric W. Seabloom & Maria C. Caldeira & Kendi F. Davies & Linda Kinkel & Johannes M. H. Knops & Kimberly J. Komatsu & Andrew S. MacDougall & Georgiana May & Michael Millican & Joslin L. Moore & Luis I., 2023. "Globally consistent response of plant microbiome diversity across hosts and continents to soil nutrients and herbivores," Nature Communications, Nature, vol. 14(1), pages 1-10, December.
    2. Pin Su & Houxiang Kang & Qianze Peng & Wisnu Adi Wicaksono & Gabriele Berg & Zhuoxin Liu & Jiejia Ma & Deyong Zhang & Tomislav Cernava & Yong Liu, 2024. "Microbiome homeostasis on rice leaves is regulated by a precursor molecule of lignin biosynthesis," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
    3. C. E. Dubé & M. Ziegler & A. Mercière & E. Boissin & S. Planes & C. A. -F. Bourmaud & C. R. Voolstra, 2021. "Naturally occurring fire coral clones demonstrate a genetic and environmental basis of microbiome composition," Nature Communications, Nature, vol. 12(1), pages 1-12, December.

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