Curli functional amyloid systems are phylogenetically widespread and display large diversity in operon and protein structure

PLoS One. 2012;7(12):e51274. doi: 10.1371/journal.pone.0051274. Epub 2012 Dec 12.

Abstract

Escherichia coli and a few other members of the Enterobacteriales can produce functional amyloids known as curli. These extracellular fibrils are involved in biofilm formation and studies have shown that they may act as virulence factors during infections. It is not known whether curli fibrils are restricted to the Enterobacteriales or if they are phylogenetically widespread. The growing number of genome-sequenced bacteria spanning many phylogenetic groups allows a reliable bioinformatic investigation of the phylogenetic diversity of the curli system. Here we show that the curli system is phylogenetically much more widespread than initially assumed, spanning at least four phyla. Curli fibrils may consequently be encountered frequently in environmental as well as pathogenic biofilms, which was supported by identification of curli genes in public metagenomes from a diverse range of habitats. Identification and comparison of curli subunit (CsgA/B) homologs show that these proteins allow a high degree of freedom in their primary protein structure, although a modular structure of tightly spaced repeat regions containing conserved glutamine, asparagine and glycine residues has to be preserved. In addition, a high degree of variability within the operon structure of curli subunits between bacterial taxa suggests that the curli fibrils might have evolved to fulfill specific functions. Variations in the genetic organization of curli genes are also seen among different bacterial genera. This suggests that some genera may utilize alternative regulatory pathways for curli expression. Comparison of phylogenetic trees of Csg proteins and the 16S rRNA genes of the corresponding bacteria showed remarkably similar overall topography, suggesting that horizontal gene transfer is a minor player in the spreading of the curli system.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • Amyloid / chemistry
  • Amyloid / classification*
  • Bacterial Proteins / chemistry
  • Bacterial Proteins / classification
  • Bacterial Proteins / metabolism*
  • Escherichia coli / metabolism*
  • Escherichia coli / pathogenicity
  • Metagenome
  • Molecular Sequence Data
  • Operon*
  • Phylogeny*
  • Protein Conformation*
  • Sequence Homology, Amino Acid
  • Virulence

Substances

  • Amyloid
  • Bacterial Proteins
  • Crl protein, Bacteria

Grants and funding

The authors are grateful to funding from the Villum Kann Rasmussen Foundation (BioNET), the Lundbeck Foundation and Aalborg University. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.