Evolutionary analysis of KED-rich proteins in plants

PLoS One. 2023 Mar 8;18(3):e0279772. doi: 10.1371/journal.pone.0279772. eCollection 2023.

Abstract

During the course of evolution, organisms have developed genetic mechanisms in response to various environmental stresses including wounding from mechanical damage or herbivory-caused injury. A previous study of wounding response in the plant tobacco identified a unique wound-induced gene, aptly named KED due to its coding for a protein that has an unusually high content of amino acids lysine (K), glutamic acid (E) and aspartic acid (D). However, by far little is known about this intriguing gene. In this study, we investigated the evolutionary aspects of the KED-rich coding genes. We found that a consistent pattern of wound-induced KED gene expression is maintained across representative species of angiosperm and gymnosperm. KED genes can be identified in species from all groups of land plants (Embryophyta). All the KED proteins from vascular plants (Tracheophyta) including angiosperm, gymnosperm, fern and lycophyte share a conserved 19-amino acid domain near the C-terminus, whereas bryophytes (moss, liverwort and hornwort) possess KED-rich, multi-direct-repeat sequences that are distinct from the vascular plant KEDs. We detected KED-rich sequences in Charophyta species but not in Chlorophyta wherever genome sequences are available. Our studies suggest diverse and complex evolution pathways for land plant KED genes. Vascular plant KEDs exhibit high evolutionary conservation, implicating their shared function in response to wounding stress. The extraordinary enrichment of amino acids K, E and D in these groups of distinct and widely distributed proteins may reflect the structural and functional requirement for these three residues during some 600 million years of land plant evolution.

Publication types

  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Amino Acids / genetics
  • Cycadopsida / genetics
  • Embryophyta* / genetics
  • Evolution, Molecular
  • Genes, Plant
  • Phylogeny
  • Plant Proteins / metabolism
  • Plants* / genetics
  • Plants* / metabolism

Substances

  • Plant Proteins
  • Amino Acids

Grants and funding

The work was supported in part by a U.S. Department of Education grant (award P031C160143, STEM EngInE) to Miami Dade College School of Science STEM Summer Research Program and Florida Atlantic University. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.