Genetic determinants of endophytism in the Arabidopsis root mycobiome

Mesny, Fantin; Miyauchi, Shingo; Thiergart, Thorsten; Pickel, Brigitte; Atanasova, Lea; Karlsson, Magnus; Hüttel, Bruno; Barry, Kerrie W.; Haridas, Sajeet; Chen, Cindy; Bauer, Diane; Andreopoulos, William; Pangilinan, Jasmyn; LaButti, Kurt; Riley, Robert; Lipzen, Anna; Clum, Alicia; Drula, Elodie; Henrissat, Bernard; Kohler, Annegret; Grigoriev, Igor V.; Martin, Francis M.; Hacquard, Stéphane

doi:10.1038/s41467-021-27479-y

Genetic determinants of endophytism in the Arabidopsis root mycobiome

Journal Article · Thu Dec 09 23:00:00 EST 2021 · Nature Communications

DOI:https://doi.org/10.1038/s41467-021-27479-y· OSTI ID:1854844

^[1]; ^[2]; Thiergart, Thorsten ^[1]; Pickel, Brigitte ^[1]; ^[3]; ^[4]; ^[4]; Barry, Kerrie W. ^[5]; ^[5]; Chen, Cindy ^[5]; Bauer, Diane ^[5]; Andreopoulos, William ^[5]; Pangilinan, Jasmyn ^[5]; ^[5]; Riley, Robert ^[5]; Lipzen, Anna ^[5]; Clum, Alicia ^[5]; Drula, Elodie ^[6]; Henrissat, Bernard ^[7]; Kohler, Annegret ^[8] more »

Max Planck Institute for Plant Breeding Research, Cologne (Germany)
Max Planck Institute for Plant Breeding Research, Cologne (Germany); Universite de Lorraine, Champenoux (France)
Vienna Univ. of Technology (Austria); Univ. of Natural Resources and Life Sciences, Vienna (Austria)
Swedish Univ. of Agricultural Sciences, Uppsala (Sweden)
USDOE Joint Genome Institute (JGI), Berkeley, CA (United States)
Aix-Marseille Univ., Marseille (France). INRAE, Architecture et Fonction des Macromolécules Biologiques
King Abdulaziz Univ., Jeddah (Saudi Arabia)
Universite de Lorraine, Champenoux (France)
USDOE Joint Genome Institute (JGI), Berkeley, CA (United States); Univ. of California, Berkeley, CA (United States)
Universite de Lorraine, Champenoux (France); Beijing Forestry Univ. (China)

The roots of Arabidopsis thaliana host diverse fungal communities that affect plant health and disease states. Here, we sequence the genomes of 41 fungal isolates representative of the A. thaliana root mycobiota for comparative analysis with other 79 plant-associated fungi. Our analyses indicate that root mycobiota members evolved from ancestors with diverse lifestyles and retain large repertoires of plant cell wall-degrading enzymes (PCWDEs) and effector-like small secreted proteins. We identify a set of 84 gene families associated with endophytism, including genes encoding PCWDEs acting on xylan (family GH10) and cellulose (family AA9). Transcripts encoding these enzymes are also part of a conserved transcriptional program activated by phylogenetically-distant mycobiota members upon host contact. Recolonization experiments with individual fungi indicate that strains with detrimental effects in mono-association with the host colonize roots more aggressively than those with beneficial activities, and dominate in natural root samples. Furthermore, we show that the pectin-degrading enzyme family PL1_7 links aggressiveness of endophytic colonization to plant health.

View Accepted Manuscript (DOE)

Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1854844

Journal Information:: Nature Communications, Journal Name: Nature Communications Journal Issue: 1 Vol. 12; ISSN 2041-1723

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: English

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