The novel EHEC gene asa overlaps the TEGT transporter gene in antisense and is regulated by NaCl and growth phase

Sci Rep. 2018 Dec 14;8(1):17875. doi: 10.1038/s41598-018-35756-y.

Abstract

Only a few overlapping gene pairs are known in the best-analyzed bacterial model organism Escherichia coli. Automatic annotation programs usually annotate only one out of six reading frames at a locus, allowing only small overlaps between protein-coding sequences. However, both RNAseq and RIBOseq show signals corresponding to non-trivially overlapping reading frames in antisense to annotated genes, which may constitute protein-coding genes. The transcription and translation of the novel 264 nt gene asa, which overlaps in antisense to a putative TEGT (Testis-Enhanced Gene Transfer) transporter gene is detected in pathogenic E. coli, but not in two apathogenic E. coli strains. The gene in E. coli O157:H7 (EHEC) was further analyzed. An overexpression phenotype was identified in two stress conditions, i.e. excess in salt or arginine. For this, EHEC overexpressing asa was grown competitively against EHEC with a translationally arrested asa mutant gene. RT-qPCR revealed conditional expression dependent on growth phase, sodium chloride, and arginine. Two potential promoters were computationally identified and experimentally verified by reporter gene expression and determination of the transcription start site. The protein Asa was verified by Western blot. Close homologues of asa have not been found in protein databases, but bioinformatic analyses showed that it may be membrane associated, having a largely disordered structure.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Arginine / metabolism
  • Blotting, Western
  • Escherichia coli O157 / genetics*
  • Escherichia coli O157 / growth & development
  • Escherichia coli O157 / metabolism
  • Escherichia coli Proteins / biosynthesis*
  • Escherichia coli Proteins / genetics
  • Gene Expression Profiling
  • Gene Expression Regulation, Bacterial*
  • Membrane Proteins / biosynthesis*
  • Membrane Proteins / genetics
  • Promoter Regions, Genetic
  • Real-Time Polymerase Chain Reaction
  • Reverse Transcriptase Polymerase Chain Reaction
  • Sodium Chloride / metabolism*
  • Transcription Initiation Site

Substances

  • Escherichia coli Proteins
  • Membrane Proteins
  • YccA protein, E coli
  • Sodium Chloride
  • Arginine