Chromatin immunoprecipitation cloning reveals rapid evolutionary patterns of centromeric DNA in Oryza species. 2005

Hye-Ran Lee, and Wenli Zhang, and Tim Langdon, and Weiwei Jin, and Huihuang Yan, and Zhukuan Cheng, and Jiming Jiang
Department of Horticulture, University of Wisconsin-Madison, Madison, WI 53706, USA.

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.

UI MeSH Term Description Entries
D008969 Molecular Sequence Data Descriptions of specific amino acid, carbohydrate, or nucleotide sequences which have appeared in the published literature and/or are deposited in and maintained by databanks such as GENBANK, European Molecular Biology Laboratory (EMBL), National Biomedical Research Foundation (NBRF), or other sequence repositories. Sequence Data, Molecular,Molecular Sequencing Data,Data, Molecular Sequence,Data, Molecular Sequencing,Sequencing Data, Molecular
D002503 Centromere The clear constricted portion of the chromosome at which the chromatids are joined and by which the chromosome is attached to the spindle during cell division. Centromeres
D003001 Cloning, Molecular The insertion of recombinant DNA molecules from prokaryotic and/or eukaryotic sources into a replicating vehicle, such as a plasmid or virus vector, and the introduction of the resultant hybrid molecules into recipient cells without altering the viability of those cells. Molecular Cloning
D001483 Base Sequence The sequence of PURINES and PYRIMIDINES in nucleic acids and polynucleotides. It is also called nucleotide sequence. DNA Sequence,Nucleotide Sequence,RNA Sequence,DNA Sequences,Base Sequences,Nucleotide Sequences,RNA Sequences,Sequence, Base,Sequence, DNA,Sequence, Nucleotide,Sequence, RNA,Sequences, Base,Sequences, DNA,Sequences, Nucleotide,Sequences, RNA
D012275 Oryza A genus of grass family (Poaceae) that include several rice species. Oryza sativa,Rice,Rices
D013997 Time Factors Elements of limited time intervals, contributing to particular results or situations. Time Series,Factor, Time,Time Factor
D017404 In Situ Hybridization, Fluorescence A type of IN SITU HYBRIDIZATION in which target sequences are stained with fluorescent dye so their location and size can be determined using fluorescence microscopy. This staining is sufficiently distinct that the hybridization signal can be seen both in metaphase spreads and in interphase nuclei. FISH Technique,Fluorescent in Situ Hybridization,Hybridization in Situ, Fluorescence,FISH Technic,Hybridization in Situ, Fluorescent,In Situ Hybridization, Fluorescent,FISH Technics,FISH Techniques,Technic, FISH,Technics, FISH,Technique, FISH,Techniques, FISH
D047369 Chromatin Immunoprecipitation A technique for identifying specific DNA sequences that are bound, in vivo, to proteins of interest. It involves formaldehyde fixation of CHROMATIN to crosslink the DNA-BINDING PROTEINS to the DNA. After shearing the DNA into small fragments, specific DNA-protein complexes are isolated by immunoprecipitation with protein-specific ANTIBODIES. Then, the DNA isolated from the complex can be identified by PCR amplification and sequencing. Immunoprecipitation, Chromatin
D018744 DNA, Plant Deoxyribonucleic acid that makes up the genetic material of plants. Plant DNA
D018745 Genome, Plant The genetic complement of a plant (PLANTS) as represented in its DNA. Plant Genome,Genomes, Plant,Plant Genomes

Related Publications

Hye-Ran Lee, and Wenli Zhang, and Tim Langdon, and Weiwei Jin, and Huihuang Yan, and Zhukuan Cheng, and Jiming Jiang
November 2019, Scientific reports,
Hye-Ran Lee, and Wenli Zhang, and Tim Langdon, and Weiwei Jin, and Huihuang Yan, and Zhukuan Cheng, and Jiming Jiang
January 2017, Cold Spring Harbor symposia on quantitative biology,
Hye-Ran Lee, and Wenli Zhang, and Tim Langdon, and Weiwei Jin, and Huihuang Yan, and Zhukuan Cheng, and Jiming Jiang
September 2006, Analytical biochemistry,
Hye-Ran Lee, and Wenli Zhang, and Tim Langdon, and Weiwei Jin, and Huihuang Yan, and Zhukuan Cheng, and Jiming Jiang
January 2008, Nature protocols,
Hye-Ran Lee, and Wenli Zhang, and Tim Langdon, and Weiwei Jin, and Huihuang Yan, and Zhukuan Cheng, and Jiming Jiang
July 1998, Proceedings of the National Academy of Sciences of the United States of America,
Hye-Ran Lee, and Wenli Zhang, and Tim Langdon, and Weiwei Jin, and Huihuang Yan, and Zhukuan Cheng, and Jiming Jiang
June 2022, Cells,
Hye-Ran Lee, and Wenli Zhang, and Tim Langdon, and Weiwei Jin, and Huihuang Yan, and Zhukuan Cheng, and Jiming Jiang
January 2016, Molecular biology of the cell,
Hye-Ran Lee, and Wenli Zhang, and Tim Langdon, and Weiwei Jin, and Huihuang Yan, and Zhukuan Cheng, and Jiming Jiang
December 1995, Shi yan sheng wu xue bao,
Hye-Ran Lee, and Wenli Zhang, and Tim Langdon, and Weiwei Jin, and Huihuang Yan, and Zhukuan Cheng, and Jiming Jiang
April 2009, Analytical chemistry,
Hye-Ran Lee, and Wenli Zhang, and Tim Langdon, and Weiwei Jin, and Huihuang Yan, and Zhukuan Cheng, and Jiming Jiang
May 2006, Molecular genetics and genomics : MGG,
Copied contents to your clipboard!