Isolation and characterization of novel Ty 1- copia -like retrotransposons from lily1

Sung Il Lee, Kyong Cheul Park, Jae Han Son, Youn Jung Hwang, Ki Byung Lim, Ye Su Song, Jong Hwa Kim, Nam Soo Kim

Research output: Contribution to journalArticlepeer-review

14 Scopus citations

Abstract

Species of the genus Lilium are well known for their large genomes. Although expansion of noncoding repeated DNA is believed to account for this genome size, retroelement del Ty3-gypsy is the only one described so far in the genus Lilium. We isolated Ty1-copia elements from Lilium longiflorum and named them LIREs (lily retrotransposons). The long terminal repeats, primer binding site, and polypurine tract sequences are highly similar among the LIRE elements, indicating that they are in the same lineage. Although the protein-coding regions were highly decayed, the sequence motifs of the integrase, reverse transcriptase, and RNase H domains were identifiable as belonging to the order of Ty1-copia elements. Phylogenetic analysis and primer binding site sequences revealed that these elements belonged to the Ale lineage among the six lineages of plant Ty1-copia elements. Base substitutions in the long terminal repeats estimated that the integration times of the LIRE Ty1-copia elements were between 0.7 and 5.5 mya. In situ hybridization showed that the LIRE elements were present in all the chromosomes of L. longiflorum and L. lancifolium, but absent in centromeres, telomeres, and 45S rRNA sites in both species. The LIRE elements were present very abundantly in species of the genus Lilium, but absent in other genera of the family Liliaceae, implying that the LIRE elements might have contributed to the expansion of the genome in the genus Lilium.

Original languageEnglish
Pages (from-to)495-503
Number of pages9
JournalGenome
Volume56
Issue number9
DOIs
StatePublished - Sep 2013

Keywords

  • C-value
  • Chromosome
  • Genome
  • Genus Lilium
  • Ty1- copia retroelements

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