ComQXPA quorum sensing systems may not be unique to Bacillus subtilis: a census in prokaryotic genomes

PLoS One. 2014 May 2;9(5):e96122. doi: 10.1371/journal.pone.0096122. eCollection 2014.

Abstract

The comQXPA locus of Bacillus subtilis encodes a quorum sensing (QS) system typical of Gram positive bacteria. It encodes four proteins, the ComQ isoprenyl transferase, the ComX pre-peptide signal, the ComP histidine kinase, and the ComA response regulator. These are encoded by four adjacent genes all situated on the same chromosome strand. Here we present results of a comprehensive census of comQXPA-like gene arrangements in 2620 complete and 6970 draft prokaryotic genomes (sequenced by the end of 2013). After manually checking the data for false-positive and false-negative hits, we found 39 novel com-like predictions. The census data show that in addition to B. subtilis and close relatives, 20 comQXPA-like loci are predicted to occur outside the B. subtilis clade. These include some species of Clostridiales order, but none outside the phylum Firmicutes. Characteristic gene-overlap patterns were observed in comQXPA loci, which were different for the B. subtilis-like and non-B. subtilis-like clades. Pronounced sequence variability associated with the ComX peptide in B. subtilis clade is evident also in the non-B. subtilis clade suggesting grossly similar evolutionary constraints in the underlying quorum sensing systems.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Acyl-Butyrolactones / metabolism
  • Bacillus subtilis / cytology*
  • Bacillus subtilis / genetics*
  • Consensus Sequence
  • Genetic Loci / genetics*
  • Genetic Variation
  • Genome, Bacterial / genetics*
  • Genomics
  • Quorum Sensing / genetics*

Substances

  • Acyl-Butyrolactones

Grants and funding

ID and IMM were supported by the Slovenian Research Agency grants J4-3631 and JP4-116 awarded to IMM. ZM was supported by a 3 month grant from the Erasmus Placement Program 2012/2013. Work at Pázmány Péter Catholic University, Budapest was partially supported by Hungarian National Innovation Office grants TÉT 10-1-2011-0058, TÁMOP-4.2.1.B-11/2/KMR-2011-0002, and TÁMOP-4.2.2/B-10/1-2010-0014. Funding for open access charge and for the services of a scientific writer/editor was provided by the University of Ljubljana and ICGEB, respectively. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.