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Genetic determinants of endophytism in the Arabidopsis root mycobiome

Mesny, Fantin and Miyauchi, Shingo and Thiergart, Thorsten and Pickel, Brigitte and Atanasova, Lea and Karlsson, Magnus and Huettel, Bruno and Barry, Kerrie W. and Bauer, Diane and Haridas, Sajeet and Chen, Cindy and Andreopoulos, William and Pangilinan, Jasmyn and LaButti, Kurt and Riley, Robert and Lipzen, Anna and Clum, Alicia and Drula, Elodie and Henrissat, Bernard and Kohler, Annegret and Grigoriev, Igor and Martin, Francis M. and Hacquard, Stephane (2021). Genetic determinants of endophytism in the Arabidopsis root mycobiome. Nature Communications. 12 , 7227
[Research article]

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Abstract

Plant roots host diverse fungal communities that affect plant health. Here, Mesny et al. use comparative genomics and transcriptomics of fungal isolates from the Arabidopsis thaliana root mycobiota, together with root colonization assays, to identify genetic determinants of endophytism.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.

Authors/Creators:Mesny, Fantin and Miyauchi, Shingo and Thiergart, Thorsten and Pickel, Brigitte and Atanasova, Lea and Karlsson, Magnus and Huettel, Bruno and Barry, Kerrie W. and Bauer, Diane and Haridas, Sajeet and Chen, Cindy and Andreopoulos, William and Pangilinan, Jasmyn and LaButti, Kurt and Riley, Robert and Lipzen, Anna and Clum, Alicia and Drula, Elodie and Henrissat, Bernard and Kohler, Annegret and Grigoriev, Igor and Martin, Francis M. and Hacquard, Stephane
Title:Genetic determinants of endophytism in the Arabidopsis root mycobiome
Series Name/Journal:Nature Communications
Year of publishing :2021
Volume:12
Article number:7227
Number of Pages:15
Publisher:NATURE PORTFOLIO
ISSN:2041-1723
Language:English
Publication Type:Research article
Article category:Scientific peer reviewed
Version:Published version
Copyright:Creative Commons: Attribution 4.0
Full Text Status:Public
Subjects:(A) Swedish standard research categories 2011 > 1 Natural sciences > 106 Biological Sciences (Medical to be 3 and Agricultural to be 4) > Botany
(A) Swedish standard research categories 2011 > 1 Natural sciences > 106 Biological Sciences (Medical to be 3 and Agricultural to be 4) > Genetics (medical genetics to be 30107 and agricultural genetics to be 40402)
URN:NBN:urn:nbn:se:slu:epsilon-p-115068
Permanent URL:
http://urn.kb.se/resolve?urn=urn:nbn:se:slu:epsilon-p-115068
Additional ID:
Type of IDID
DOI10.1038/s41467-021-27479-y
Web of Science (WoS)000729179400025
ID Code:26635
Faculty:NJ - Fakulteten för naturresurser och jordbruksvetenskap
Department:(NL, NJ) > Dept. of Forest Mycology and Plant Pathology
(S) > Dept. of Forest Mycology and Plant Pathology
Deposited By: SLUpub Connector
Deposited On:28 Dec 2021 09:25
Metadata Last Modified:28 Dec 2021 09:31

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