Structure, functionality, and evolution of the BARE-1 retrotransposon of barley

Carlos M. Vicient, Ruslan Kalendar, Kesara Anamthawat-Jónsson, Annu Suoniemi, Alan H. Schulman

Research output: Contribution to journalArticlepeer-review

49 Citations (Scopus)

Abstract

The BARE-1 retrotransposon is a major, active component of the genome of barley (Hordeum vulgare L.) and other Hordeum species. Copia-like in its organization, it consists of 1.8-kb long terminal repeats bounding an internal domain of 5275 bp which encodes a predicted polyprotein of 1301 residues. The polyprotein contains the key residues, structural motifs, and conserved regions associated with retroviral and retrotransposon GAG, aspartic proteinase, integrase, reverse transcriptase, and RNaseH polypeptides. BARE-1 is actively transcribed and translated. As part of our effort to understand the evolution and function of BARE-1, we have examined its copy number and localization. Full-length members of the BARE-1 family constitute 2.8% of the barley genome. Globally, they are dispersed throughout the genome, excepting the centromeric, telomeric, and NOR regions. Locally, BARE-1 occurs more commonly in repetitive DNA than in coding regions, forming clusters of nested insertions. Both barley and other Hordeum genomes contain a high proportion of BARE-1 solo LTRs. New techniques have been developed which exploit the insertion site polymorphism generated by BARE-1 integration to produce molecular markers for breeding, biodiversity, and mapping applications.

Original languageEnglish
Pages (from-to)53-63
Number of pages11
JournalGenetica
Volume107
Issue number1-3
DOIs
Publication statusPublished - 1999
Externally publishedYes

Keywords

  • BARE-1
  • Barley
  • Copia-like retrotransposon
  • Hordeum
  • Molecular markers

ASJC Scopus subject areas

  • Animal Science and Zoology
  • Genetics
  • Plant Science
  • Insect Science

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