Molecular analysis of repetitive DNA elements from Entamoeba histolytica, which encode small RNAs and contain matrix/scaffold attachment recognition sequences

Sulagna Banerjee, Anuradha Lohia

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13 Scopus citations


We have isolated two DNA elements-Eh MRS1 and Eh MRS2-from Entamoeba histolytica, which contain the eukaryotic consensus Scaffold/Matrix Attachment Region (S/MAR) bipartite recognition sequences. Both these sequences bind to high salt extractable nuclear proteins and insoluble nuclear matrix proteins in E. histolytica HM1:IMSS, suggesting that the predicted S/MAR recognition sequences may indeed function as scaffold attachment regions in E. histolytica. Sequence analysis shows that Eh MRS1 and Eh MRS2 contain internal tandem repeats ranging from units of 8-11bp and are themselves present as independent arrays of tandemly repeating units of approximately 1100bp each. Eh MRS1 and Eh MRS2 are localised on different chromosomes in E. histolytica HM1:IMSS. Both Eh MRS1 and Eh MRS2 also code for small molecular weight RNAs of unknown function. Thus, two unique sequences-Eh MRS1 and Eh MRS2-demonstrate very similar properties, suggesting that they belong to a superfamily of genomic elements, which may function as scaffold or matrix attachment sites in Entamoeba.

Original languageEnglish (US)
Pages (from-to)35-42
Number of pages8
JournalMolecular and Biochemical Parasitology
Issue number1
StatePublished - Jan 1 2003



  • Clustered repeats
  • Entamoeba
  • Nuclear matrix proteins
  • Repetitive DNA
  • Scaffold or matrix attachment regions
  • Small molecular weight RNA

ASJC Scopus subject areas

  • Parasitology
  • Molecular Biology

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