Expression Atlas of Selaginella moellendorffii Provides Insights into the Evolution of Vasculature, Secondary Metabolism, and Roots

Plant Cell. 2020 Apr;32(4):853-870. doi: 10.1105/tpc.19.00780. Epub 2020 Jan 27.

Abstract

Selaginella moellendorffii is a representative of the lycophyte lineage that is studied to understand the evolution of land plant traits such as the vasculature, leaves, stems, roots, and secondary metabolism. However, only a few studies have investigated the expression and transcriptional coordination of Selaginella genes, precluding us from understanding the evolution of the transcriptional programs behind these traits. We present a gene expression atlas comprising all major organs, tissue types, and the diurnal gene expression profiles for S. moellendorffii We show that the transcriptional gene module responsible for the biosynthesis of lignocellulose evolved in the ancestor of vascular plants and pinpoint the duplication and subfunctionalization events that generated multiple gene modules involved in the biosynthesis of various cell wall types. We demonstrate how secondary metabolism is transcriptionally coordinated and integrated with other cellular pathways. Finally, we identify root-specific genes and show that the evolution of roots did not coincide with an increased appearance of gene families, suggesting that the development of new organs does not coincide with increased fixation of new gene functions. Our updated database at conekt.plant.tools represents a valuable resource for studying the evolution of genes, gene families, transcriptomes, and functional gene modules in the Archaeplastida kingdom.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Biological Evolution*
  • Biosynthetic Pathways
  • Cell Wall / metabolism
  • Cellulose / biosynthesis
  • Gene Duplication
  • Gene Expression Regulation, Plant*
  • Gene Regulatory Networks
  • Lignin / biosynthesis
  • Organ Specificity
  • Phylogeny
  • Plant Roots / genetics*
  • Plant Vascular Bundle / genetics*
  • Secondary Metabolism / genetics*
  • Selaginellaceae / genetics*
  • Transcriptome / genetics

Substances

  • Cellulose
  • Lignin

Associated data

  • Dryad/10.5061/dryad.1jwstqjr0