Journal article
AlphaFold-Multimer predicts cross-kingdom interactions at the plant-pathogen interface
- Abstract:
- Adapted plant pathogens from various microbial kingdoms produce hundreds of unrelated small secreted proteins (SSPs) with elusive roles. Here, we used AlphaFold-Multimer (AFM) to screen 1879 SSPs of seven tomato pathogens for interacting with six defence-related hydrolases of tomato. This screen of 11,274 protein pairs identified 15 non-annotated SSPs that are predicted to obstruct the active site of chitinases and proteases with an intrinsic fold. Four SSPs were experimentally verified to be inhibitors of pathogenesis-related subtilase P69B, including extracellular protein-36 (Ecp36) and secreted-into-xylem-15 (Six15) of the fungal pathogens Cladosporium fulvum and Fusarium oxysporum, respectively. Together with a P69B inhibitor from the bacterial pathogen Xanthomonas perforans and Kazal-like inhibitors of the oomycete pathogen Phytophthora infestans, P69B emerges as an effector hub targeted by different microbial kingdoms, consistent with a diversification of P69B orthologs and paralogs. This study demonstrates the power of artificial intelligence to predict cross-kingdom interactions at the plant-pathogen interface.
- Publication status:
- Published
- Peer review status:
- Peer reviewed
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- Files:
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(Preview, Version of record, pdf, 4.6MB, Terms of use)
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- Publisher copy:
- 10.1038/s41467-023-41721-9
Authors
+ European Research Council
More from this funder
- Funder identifier:
- https://ror.org/0472cxd90
- Funding agency for:
- Huang, J
- van der Hoorn, RAL
- Grant:
- 101019324
- Programme:
- ExtraImmune
+ Biotechnology and Biological Sciences Research Council
More from this funder
- Funder identifier:
- https://ror.org/00cwqg982
- Funding agency for:
- Homma, F
- Grant:
- DDT00060
- Programme:
- Interdisciplinary Doctoral Training Program
- Publisher:
- Springer Nature
- Journal:
- Nature Communications More from this journal
- Volume:
- 14
- Issue:
- 1
- Article number:
- 6040
- Place of publication:
- England
- Publication date:
- 2023-09-27
- Acceptance date:
- 2023-09-14
- DOI:
- EISSN:
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2041-1723
- ISSN:
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2041-1723
- Pmid:
-
37758696
- Language:
-
English
- Keywords:
- Pubs id:
-
1537410
- Local pid:
-
pubs:1537410
- Deposit date:
-
2025-04-29
Terms of use
- Copyright holder:
- Homma et al.
- Copyright date:
- 2023
- Rights statement:
- © 2023 The Author(s). Open Access. This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder.
- Licence:
- CC Attribution (CC BY)
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