Chromatin immunoprecipitation cloning reveals rapid evolutionary patterns of centromeric DNA in Oryza species

The functional centromeres of rice (Oryza sativa, AA genome) chromosomes contain two key DNA components: the CRR centromeric retrotransposons and a 155-bp satellite repeat, CentO. However, several wild Oryza species lack the CentO repeat. We developed a chromatin immunoprecipitation-based technique...

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Bibliographic Details
Published in:Proceedings of the National Academy of Sciences - PNAS 2005-08, Vol.102 (33), p.11793-11798
Main Authors: Lee, H.R, Zhang, W, Langdon, T, Jin, W, Yan, H, Cheng, Z, Jiang, J
Format: Article
Language:English
Subjects:
Artificial satellites
Base Sequence
Biological Sciences
Centromere - genetics
Centromeres
Chromatin
Chromatin Immunoprecipitation
Chromosomes
Cloning
Cloning, Molecular
Datasets
DNA
DNA, Plant - genetics
Evolution
Evolution, Molecular
Fish
Genetic hybridization
Genetics
Genome, Plant
Genomes
In Situ Hybridization, Fluorescence
Molecular Sequence Data
nucleotide sequences
Oryza
Oryza - genetics
Oryza sativa
precipitin tests
repetitive sequences
Rice
Time Factors
wild relatives
Zea mays
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Summary:The functional centromeres of rice (Oryza sativa, AA genome) chromosomes contain two key DNA components: the CRR centromeric retrotransposons and a 155-bp satellite repeat, CentO. However, several wild Oryza species lack the CentO repeat. We developed a chromatin immunoprecipitation-based technique to clone DNA fragments derived from chromatin containing the centromeric histone H3 variant CenH3. Chromatin immunoprecipitation cloning was carried out in the CentO-less species Oryza rhizomatis (CC genome) and Oryza brachyantha (FF genome). Three previously uncharacterized genome-specific satellite repeats, CentO-C1, CentO-C2, and CentO-F, were discovered in the centromeres of these two species. An 80-bp DNA region was found to be conserved in CentO-C1, CentO, and centromeric satellite repeats from maize and pearl millet, species which diverged from rice many millions of years ago. In contrast, the CentO-F repeat shows no sequence similarity to other centromeric repeats but has almost completely replaced other centromeric sequences in O. brachyantha, including the CRR-related sequences that normally constitute a significant fraction of the centromeric DNA in grass species.
ISSN:0027-8424
1091-6490
DOI:10.1073/pnas.0503863102