Dasheng

A recently amplified nonautonomous long terminal repeat element that is a major component of pericentromeric regions in rice

Ning Jiang, Zhirong Bao, Svedana Temnykh, Zhukuan Cheng, Jiming Jiang, Rod A Wing, Susan R. McCouch, Susan R. Wessier

Research output: Contribution to journalArticle

69 Citations (Scopus)

Abstract

A new and unusual family of LTR elements, Dasheng, has been discovered in the genome of Oryza sativa following database searches of ∼100 Mb of rice genomic sequence and 78 Mb of BAC-end sequence information. With all of the cis-elements but none of the coding domains normally associated with retrotransposons (e.g., gag, pol), Dasheng is a novel nonautonomous LTR element with high copy number. Over half of the ∼1000 Dasheng elements in the rice genome are full length (5.6-8.6 kb), and 60% are estimated to have amplified in the past 500,000 years. Using a modified AFLP technique called transposon display, 215 elements were mapped to all 12 rice chromosomes. Interestingly, more than half of the mapped elements are clustered in the heterochromatic regions around centromeres. The distribution pattern was further confirmed by FISH analysis. Despite clustering in heterochromatin, Dasheng elements are not nested, suggesting their potential value as molecular markers for these marker-poor regions. Taken together, Dasheng is one of the highest-copy-number LTR elements and one of the most recent elements to amplify in the rice genome.

Original languageEnglish (US)
Pages (from-to)1293-1305
Number of pages13
JournalGenetics
Volume161
Issue number3
StatePublished - 2002
Externally publishedYes

Fingerprint

Terminal Repeat Sequences
Genome
Chromosomes, Human, Pair 12
Retroelements
Heterochromatin
Centromere
Cluster Analysis
Oryza
Databases

ASJC Scopus subject areas

  • Genetics
  • Genetics(clinical)

Cite this

Jiang, N., Bao, Z., Temnykh, S., Cheng, Z., Jiang, J., Wing, R. A., ... Wessier, S. R. (2002). Dasheng: A recently amplified nonautonomous long terminal repeat element that is a major component of pericentromeric regions in rice. Genetics, 161(3), 1293-1305.

Dasheng : A recently amplified nonautonomous long terminal repeat element that is a major component of pericentromeric regions in rice. / Jiang, Ning; Bao, Zhirong; Temnykh, Svedana; Cheng, Zhukuan; Jiang, Jiming; Wing, Rod A; McCouch, Susan R.; Wessier, Susan R.

In: Genetics, Vol. 161, No. 3, 2002, p. 1293-1305.

Research output: Contribution to journalArticle

Jiang, N, Bao, Z, Temnykh, S, Cheng, Z, Jiang, J, Wing, RA, McCouch, SR & Wessier, SR 2002, 'Dasheng: A recently amplified nonautonomous long terminal repeat element that is a major component of pericentromeric regions in rice', Genetics, vol. 161, no. 3, pp. 1293-1305.
Jiang, Ning ; Bao, Zhirong ; Temnykh, Svedana ; Cheng, Zhukuan ; Jiang, Jiming ; Wing, Rod A ; McCouch, Susan R. ; Wessier, Susan R. / Dasheng : A recently amplified nonautonomous long terminal repeat element that is a major component of pericentromeric regions in rice. In: Genetics. 2002 ; Vol. 161, No. 3. pp. 1293-1305.
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