An improved assembly of the Albugo candida Ac2V genome reveals the expansion of the "CCG" class of effectors

Furzer, Oliver J., Cevik, Volkan, Fairhead, Sebastian, Bailey, Kate, Redkar, Amey, Schudoma, Christian, MacLean, Dan, Holub, Eric B. and Jones, Jonathan D. G. (2022) An improved assembly of the Albugo candida Ac2V genome reveals the expansion of the "CCG" class of effectors. Molecular plant-microbe interactions : MPMI, 35 (1). pp. 39-48. ISSN 0894-0282

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Albugo candida is an obligate oomycete pathogen that infects many plants in the Brassicaceae family. We resequenced the genome of isolate Ac2V using PacBio long reads and constructed an assembly augmented by Illumina reads. The Ac2VPB genome assembly is 10% larger and more contiguous compared with a previous version. Our annotation of the new assembly, aided by RNA-sequencing information, revealed a 175% expansion (40 to 110) in the CHxC effector class, which we redefined as "CCG" based on motif analysis. This class of effectors consist of arrays of phylogenetically related paralogs residing in gene sparse regions, and shows signatures of positive selection and presence/absence polymorphism. This work provides a resource that allows the dissection of the genomic components underlying A. candida adaptation and, particularly, the role of CCG effectors in virulence and avirulence on different hosts.[Formula: see text]

Item Type: Article
Additional Information: Funding Information: Funding: Support was provided by the Biotechnology and Biological Sciences Research Council (grant BB/L011646/1 to V. Cevik and grant BB/M003809/1 to O. J. Furzer), European Molecular Biology Organization (long-term fellowship ALTF-842-2015 to A. Redkar), and H2020 European Research Council (grant 233376 to K. Bailey and J. D. G. Jones). The Sainsbury Laboratory is supported by the Gatsby Charitable Foundation.
Uncontrolled Keywords: albugo candida,biotrophy,effectors,genome,genomics,oomycete,oomycete–plant interactions,pacbio,population biology,physiology,agronomy and crop science ,/dk/atira/pure/subjectarea/asjc/1300/1314
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Depositing User: LivePure Connector
Date Deposited: 16 Feb 2022 16:30
Last Modified: 24 Oct 2022 06:47
DOI: 10.1094/MPMI-04-21-0075-R

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