Molecular and Cytological Characterization of Centromeric Retrotransposons in a Wild Relative of Rice, Oryza granulata

Dongying Gao, Zhiyun Gong, Rod A Wing, Jiming Jiang, Scott A. Jackson

Research output: Contribution to journalArticle

2 Citations (Scopus)

Abstract

Centromeric retrotransposons (CRs) are important component of the functional centromeres of rice chromosomes. To track the evolution of the CR elements in genus Oryza, we sequenced the orthologous region of the rice centromere 8 (Cen8) in O. granulata and analyzed transposons in this region. A total of 12 bacterial artificial chromosomes (BACs) that span the centromeric region in O. granulata were sequenced. The O. granulate centromeric sequences are composed of as much as 85% of transposons, higher than any other reported eukaryotic centromeres. Ten novel LTR retrotransposon families were identified but a single retrotransposon, Gran3, constitutes nearly 43% of the centromeric sequences. Integration times of complete LTR retrotransposons indicate that the centromeric region had a massive insertion of LTR retrotransposons within 4.5 million year (Myr), which indicates a recent expansion of the centromere in O. granulata after the radiation of the Oryza genus. Two retrotransposon families, OGRetro7 and OGRetro9, show sequence similarity with the canonical CRs from rice and maize. Both OGRetro7 and OGRetro9 are highly concentrated in the centromeres of O. granulata chromosomes. Furthermore, strong hybridization signals were detected in all Oryza species but in O. brachyantha with the OGRetro7 and OGRetro9 probes. Characterization of the centromeric retrotransposons in O. granulata confirms the conservation of the CRs in the Oryza genus and provides a resource for comparative analysis of centromeres and centromere evolution among the Oryza genus and other genomes.

Original languageEnglish (US)
Pages (from-to)217-227
Number of pages11
JournalTropical Plant Biology
Volume4
Issue number3-4
DOIs
StatePublished - Dec 2011

Fingerprint

Retroelements
Oryza
wild relatives
retrotransposons
Centromere
centromeres
rice
transposons
Oryza brachyantha
Chromosomes
chromosomes
Bacterial Artificial Chromosomes
bacterial artificial chromosomes
Zea mays
hybridization
Genome
Radiation

Keywords

  • Centromere 8
  • Centromeric retrotransposon
  • Comparative genomics
  • Evolution
  • Oryza granulata

ASJC Scopus subject areas

  • Plant Science
  • Genetics

Cite this

Molecular and Cytological Characterization of Centromeric Retrotransposons in a Wild Relative of Rice, Oryza granulata. / Gao, Dongying; Gong, Zhiyun; Wing, Rod A; Jiang, Jiming; Jackson, Scott A.

In: Tropical Plant Biology, Vol. 4, No. 3-4, 12.2011, p. 217-227.

Research output: Contribution to journalArticle

Gao, Dongying ; Gong, Zhiyun ; Wing, Rod A ; Jiang, Jiming ; Jackson, Scott A. / Molecular and Cytological Characterization of Centromeric Retrotransposons in a Wild Relative of Rice, Oryza granulata. In: Tropical Plant Biology. 2011 ; Vol. 4, No. 3-4. pp. 217-227.
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