High allelic diversity in Arabidopsis NLRs is associated with distinct genomic features

Sutherland, Chandler A.; Prigozhin, Daniil M.; Monroe, J. Grey; Krasileva, Ksenia V.

doi:10.1038/s44319-024-00122-9

Title: High allelic diversity in Arabidopsis NLRs is associated with distinct genomic features

Journal Article · 24 March 2024 · EMBO Reports

DOI: https://doi.org/10.1038/s44319-024-00122-9 · OSTI ID:2470735

^[1]; Prigozhin, Daniil M. ^[2];

^[3];

^[1]

University of California, Berkeley, CA (United States)
Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
University of California, Davis, CA (United States)

Plants rely on Nucleotide-binding, Leucine-rich repeat Receptors (NLRs) for pathogen recognition. Highly variable NLRs (hvNLRs) show remarkable intraspecies diversity, while their low-variability paralogs (non-hvNLRs) are conserved between ecotypes. At a population level, hvNLRs provide new pathogen-recognition specificities, but the association between allelic diversity and genomic and epigenomic features has not been established. Our investigation of NLRs in Arabidopsis Col-0 has revealed that hvNLRs show higher expression, less gene body cytosine methylation, and closer proximity to transposable elements than non-hvNLRs. hvNLRs show elevated synonymous and nonsynonymous nucleotide diversity and are in chromatin states associated with an increased probability of mutation. Diversifying selection maintains variability at a subset of codons of hvNLRs, while purifying selection maintains conservation at non-hvNLRs. How these features are established and maintained, and whether they contribute to the observed diversity of hvNLRs is key to understanding the evolution of plant innate immune receptors.

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

Sponsoring Organization:: Gordon and Betty Moore Inventor Fellowship; National Institutes of Health (NIH); USDOE

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 2470735

Journal Information:: EMBO Reports, Journal Name: EMBO Reports Journal Issue: 5 Vol. 25; ISSN 1469-3178

Publisher:: EMBO PressCopyright Statement

Country of Publication:: United States

Language:: English

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Dataset for "High allelic diversity in Arabidopsis NLRs is associated with distinct genomic features" Sutherland, Chandler A.; Prigozhin, Daniil M.; Monroe, J. Grey Zenodo https://doi.org/10.5281/zenodo.10530531	dataset	January 2024
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Nucleotide-binding Leucine-rich-repeat Receptors (NLRs)

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