Deletion within the metallothionein locus of cadmium-tolerant Synechococcus PCC 6301 involving a highly iterated palindrome (HIP1)

Mol Microbiol. 1993 Jan;7(2):189-95. doi: 10.1111/j.1365-2958.1993.tb01110.x.


Genomic rearrangements involving amplification of metallothionein (MT) genes have been reported in metal-tolerant eukaryotes. Similarly, we have recently observed amplification and rearrangement of a prokaryotic MT locus, smt, in cells of Synechococcus PCC 6301 selected for Cd tolerance. Following the characterization of this locus, the altered smt region has now been isolated from a Cd-tolerant cell line, C3.2, and its nucleotide sequence determined. This has identified a deletion within smtB, which encodes a trans-acting repressor of smt transcription. Two identical palindromic octanucleotides (5'-GCGATC-GC-3') traverse both borders of the excised element. This palindromic sequence is highly represented in the smt locus (7 occurrences in 1326 nucleotides) and analysis of the GenBank/EMBL/DDBJ DNA Nucleotide Sequence Data Libraries reveals that this is a highly iterated palindrome (HIP1) in other known sequences from Synechococcus strains (estimated to occur at an average frequency of once every c. 664 bp). HIP1 is also abundant in the genomes of other cyanobacteria. The functional significance of smtB deletion and the possible role of HIP1 in genome plasticity and adaptation in cyanobacteria are discussed.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • Bacteria / genetics
  • Bacterial Proteins / genetics*
  • Base Sequence
  • Cadmium / pharmacology
  • Cyanobacteria / drug effects
  • Cyanobacteria / genetics*
  • DNA-Binding Proteins / genetics*
  • Drug Resistance, Microbial
  • Gene Amplification*
  • Genes, Bacterial*
  • Metallothionein / genetics*
  • Models, Genetic
  • Molecular Sequence Data
  • Repetitive Sequences, Nucleic Acid
  • Repressor Proteins / genetics*


  • Bacterial Proteins
  • DNA-Binding Proteins
  • Repressor Proteins
  • smtA protein, Synechococcus
  • Cadmium
  • Metallothionein

Associated data

  • GENBANK/X64585