Holo‐omics disentangle drought response and biotic interactions among plant, endophyte and pathogen
2 SYSU - Sun Yat-sen University [Guangzhou]
3 FAFU - Fujian Agriculture and Forestry University
4 Texas A&M University System
5 BUAA - Beihang University
6 UC Berkeley - University of California [Berkeley]
7 HUST - Huazhong University of Science and Technology [Wuhan]
8 TIMC-TrEE - Translational microbial Evolution and Engineering
9 TIMC - Translational Innovation in Medicine and Complexity / Recherche Translationnelle et Innovation en Médecine et Complexité - UMR 5525
10 The DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, California, USA
11 SEU - Nanjing Southeast University
12 Xjtu - Xi'an Jiaotong University
13 LBNL - Lawrence Berkeley National Laboratory [Berkeley]
14 DOE - Department of Energy / Joint Genome Institute
15 Plant - UC Davis - Department of Plant Sciences [Univ California Davis]
16 USDA-ARS : Agricultural Research Service
- Fonction : Auteur
- PersonId : 1635694
- ORCID : 0009-0006-1613-3352
- Fonction : Auteur
- PersonId : 1635695
- ORCID : 0000-0002-3408-2118
- Fonction : Auteur
- PersonId : 1635696
- ORCID : 0000-0002-9311-9398
- Fonction : Auteur
- Fonction : Auteur
- PersonId : 15044
- IdHAL : nelle-varoquaux
- ORCID : 0000-0002-8748-6546
- IdRef : 192799991
- Fonction : Auteur
- PersonId : 1388888
- ORCID : 0000-0001-9652-624X
- Fonction : Auteur
- PersonId : 1635697
- ORCID : 0000-0003-3915-7040
- Fonction : Auteur
- PersonId : 1322456
- ORCID : 0000-0002-8972-7593
- Fonction : Auteur
- Fonction : Auteur
- PersonId : 1635698
- ORCID : 0000-0003-2781-8956
- Fonction : Auteur
- Fonction : Auteur
- PersonId : 774999
- ORCID : 0000-0001-9455-7990
- Fonction : Auteur
- PersonId : 1386220
- ORCID : 0000-0003-1786-2689
- Fonction : Auteur
- Fonction : Auteur
- PersonId : 802614
- ORCID : 0000-0002-6282-1731
- Fonction : Auteur
- PersonId : 757400
- ORCID : 0000-0002-5794-7700
- Fonction : Auteur
- PersonId : 802612
- ORCID : 0000-0003-2522-7909
Résumé
Summary Holo‐omics provide a novel opportunity to study the interactions among fungi from different functional guilds in host plants in field conditions. We address the entangled responses of plant pathogenic and endophytic fungi associated with sorghum when droughted through the assembly of the most abundant fungal, endophyte genome from rhizospheric metagenomic sequences followed by a comparison of its metatranscriptome with the host plant metabolome and transcriptome. The rise in relative abundance of endophytic Acremonium persicinum (operational taxonomic unit 5 (OTU5)) in drought co‐occurs with a rise in fungal membrane dynamics and plant metabolites, led by ethanolamine, a key phospholipid membrane component. The negative association between endophytic A. persicinum (OTU5) and plant pathogenic fungi co‐occurs with a rise in expression of the endophyte's biosynthetic gene clusters coding for secondary compounds. Endophytic A. persicinum (OTU5) and plant pathogenic fungi are negatively associated under preflowering drought but not under postflowering drought, likely a consequence of variation in fungal fitness responses to changes in the availability of water and niche space caused by plant maturation over the growing season. Our findings suggest that the dynamic biotic interactions among host, beneficial and harmful microbiota in a changing environment can be disentangled by a blending of field observation, laboratory validation, holo‐omics and ecological modelling.