Plant Cell Advance Online Publication Published on July 18, 2002; 10.1105/tpc.003079
Received March 13, 2002
Accepted May 6, 2002
Functional Rice Centromeres Are Marked by a Satellite Repeat and a Centromere-Specific
Retrotransposon
Zhukuan Cheng 1, Fenggao Dong 1, Tim Langdon 2, Shu Ouyang 3, C. Robin Buell 3, Minghong Gu 4, Frederick R. Blattner 5, and Jiming Jiang 1*
1
Department of Horticulture, University of Wisconsin-Madison, Madison, Wisconsin 53706
2
Institute of Grassland and Environmental Research, Plas Gogerddan, Aberystwyth SY23
3EB, United Kingdom
3
The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, Maryland
20850
4
Department of Agronomy, Yangzhou University, Yangzhou 225009, People's Republic
of China
5
Department of Genetics, University of Wisconsin-Madison, Madison, Wisconsin 53706
* To whom correspondence should be addressed. E-mail: jjiang1{at}facstaff.wisc.edu.
The centromere of eukaryotic chromosomes is essential for the faithful segregation
and inheritance of genetic information. In the majority of eukaryotic species, centromeres
are associated with highly repetitive DNA, and as a consequence, the boundary for
a functional centromere is difficult to define. In this study, we demonstrate that
the centers of rice centromeres are occupied by a 155-bp satellite repeat, CentO,
and a centromere-specific retrotransposon, CRR. The CentO satellite is located
within the chromosomal regions to which the spindle fibers attach. CentO is quantitatively
variable among the 12 rice centromeres, ranging from 65 kb to 2 Mb, and is interrupted
irregularly by CRR elements. The break points of 14 rice centromere misdivision
events were mapped to the middle of the CentO arrays, suggesting that the CentO satellite
is located within the functional domain of rice centromeres. Our results demonstrate
that the CentO satellite may be a key DNA element for rice centromere function.
This article has been cited by other articles:

|
 |

|
 |
 
L. Qi, B. Friebe, P. Zhang, and B. S. Gill
A Molecular-Cytogenetic Method for Locating Genes to Pericentromeric Regions Facilitates a Genomewide Comparison of Synteny Between the Centromeric Regions of Wheat and Rice
Genetics,
December 1, 2009;
183(4):
1235 - 1247.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
C. D. Hirsch, Y. Wu, H. Yan, and J. Jiang
Lineage-Specific Adaptive Evolution of the Centromeric Protein CENH3 in Diploid and Allotetraploid Oryza Species
Mol. Biol. Evol.,
December 1, 2009;
26(12):
2877 - 2885.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
W. Zhang, X. Wang, Q. Yu, R. Ming, and J. Jiang
DNA methylation and heterochromatinization in the male-specific region of the primitive Y chromosome of papaya
Genome Res.,
December 1, 2008;
18(12):
1938 - 1943.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
R. D. Morin, G. Aksay, E. Dolgosheina, H. A. Ebhardt, V. Magrini, E. R. Mardis, S. C. Sahinalp, and P. J. Unrau
Comparative analysis of the small RNA transcriptomes of Pinus contorta and Oryza sativa
Genome Res.,
April 1, 2008;
18(4):
571 - 584.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
X. Gao, Y. Hou, H. Ebina, H. L. Levin, and D. F. Voytas
Chromodomains direct integration of retrotransposons to heterochromatin
Genome Res.,
March 1, 2008;
18(3):
359 - 369.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
J. Ma, R. A. Wing, J. L. Bennetzen, and S. A. Jackson
Evolutionary History and Positional Shift of a Rice Centromere
Genetics,
October 1, 2007;
177(2):
1217 - 1220.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
P. Neumann, H. Yan, and J. Jiang
The Centromeric Retrotransposons of Rice Are Transcribed and Differentially Processed by RNA Interference
Genetics,
June 1, 2007;
176(2):
749 - 761.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
H.-R. Lee, P. Neumann, J. Macas, and J. Jiang
Transcription and Evolutionary Dynamics of the Centromeric Satellite Repeat CentO in Rice
Mol. Biol. Evol.,
December 1, 2006;
23(12):
2505 - 2520.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
H. Yan, H. Ito, K. Nobuta, S. Ouyang, W. Jin, S. Tian, C. Lu, R.C. Venu, G.-l. Wang, P. J. Green, et al.
Genomic and Genetic Characterization of Rice Cen3 Reveals Extensive Transcription and Evolutionary Implications of a Complex Centromere
PLANT CELL,
September 1, 2006;
18(9):
2123 - 2133.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
J. C. Lamb and J. A. Birchler
Retroelement Genome Painting: Cytological Visualization of Retroelement Expansions in the Genera Zea and Tripsacum
Genetics,
June 1, 2006;
173(2):
1007 - 1021.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
Y. Wang, X. Tang, Z. Cheng, L. Mueller, J. Giovannoni, and S. D. Tanksley
Euchromatin and Pericentromeric Heterochromatin: Comparative Composition in the Tomato Genome
Genetics,
April 1, 2006;
172(4):
2529 - 2540.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
J. Ma and S. A. Jackson
Retrotransposon accumulation and satellite amplification mediated by segmental duplication facilitate centromere expansion in rice
Genome Res.,
February 1, 2006;
16(2):
251 - 259.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
K.-I. Nonomura, M. Nakano, M. Eiguchi, T. Suzuki, and N. Kurata
PAIR2 is essential for homologous chromosome synapsis in rice meiosis I
J. Cell Sci.,
January 15, 2006;
119(2):
217 - 225.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
J. Ma and J. L. Bennetzen
Recombination, rearrangement, reshuffling, and divergence in a centromeric region of rice
PNAS,
January 10, 2006;
103(2):
383 - 388.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
H. Mizuno, K. Ito, J. Wu, T. Tanaka, H. Kanamori, Y. Katayose, T. Sasaki, and T. Matsumoto
Identification and Mapping of Expressed Genes, Simple Sequence Repeats and Transposable Elements in Centromeric Regions of Rice Chromosomes
DNA Res,
January 1, 2006;
13(6):
267 - 274.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
H. Yan, W. Jin, K. Nagaki, S. Tian, S. Ouyang, C. R. Buell, P. B. Talbert, S. Henikoff, and J. Jiang
Transcription and Histone Modifications in the Recombination-Free Region Spanning a Rice Centromere
PLANT CELL,
December 1, 2005;
17(12):
3227 - 3238.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
The Rice Chromosome 3 Sequencing Consortium
Sequence, annotation, and analysis of synteny between rice chromosome 3 and diverged grass species
Genome Res.,
September 1, 2005;
15(9):
1284 - 1291.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
W. Zhang, C. Yi, W. Bao, B. Liu, J. Cui, H. Yu, X. Cao, M. Gu, M. Liu, and Z. Cheng
The Transcribed 165-bp CentO Satellite Is the Major Functional Centromeric Element in the Wild Rice Species Oryza punctata
Plant Physiology,
September 1, 2005;
139(1):
306 - 315.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
H.-R. Lee, W. Zhang, T. Langdon, W. Jin, H. Yan, Z. Cheng, and J. Jiang
From The Cover: Chromatin immunoprecipitation cloning reveals rapid evolutionary patterns of centromeric DNA in Oryza species
PNAS,
August 16, 2005;
102(33):
11793 - 11798.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
S. Nasuda, S. Hudakova, I. Schubert, A. Houben, and T. R. Endo
Stable barley chromosomes without centromeric repeats
PNAS,
July 12, 2005;
102(28):
9842 - 9847.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
J.-Y. Lin, B. H. Jacobus, P. SanMiguel, J. G. Walling, Y. Yuan, R. C. Shoemaker, N. D. Young, and S. A. Jackson
Pericentromeric Regions of Soybean (Glycine max L. Merr.) Chromosomes Consist of Retroelements and Tandemly Repeated DNA and Are Structurally and Evolutionarily Labile
Genetics,
July 1, 2005;
170(3):
1221 - 1230.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
K. Nagaki, P. Neumann, D. Zhang, S. Ouyang, C. R. Buell, Z. Cheng, and J. Jiang
Structure, Divergence, and Distribution of the CRR Centromeric Retrotransposon Family in Rice
Mol. Biol. Evol.,
April 1, 2005;
22(4):
845 - 855.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
T. Sasaki, T. Matsumoto, B. A. Antonio, and Y. Nagamura
From Mapping to Sequencing, Post-sequencing and Beyond
Plant Cell Physiol.,
January 15, 2005;
46(1):
3 - 13.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
A. C. Chueh, L. H. Wong, N. Wong, and K.H. A. Choo
Variable and hierarchical size distribution of L1-retroelement-enriched CENP-A clusters within a functional human neocentromere
Hum. Mol. Genet.,
January 1, 2005;
14(1):
85 - 93.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
J. Li, M. Thomson, and S. R. McCouch
Fine Mapping of a Grain-Weight Quantitative Trait Locus in the Pericentromeric Region of Rice Chromosome 3
Genetics,
December 1, 2004;
168(4):
2187 - 2195.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
F. Shibata and M. Murata
Differential localization of the centromere-specific proteins in the major centromeric satellite of Arabidopsis thaliana
J. Cell Sci.,
June 15, 2004;
117(14):
2963 - 2970.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
Y. Zhang, Y. Huang, L. Zhang, Y. Li, T. Lu, Y. Lu, Q. Feng, Q. Zhao, Z. Cheng, Y. Xue, et al.
Structural features of the rice chromosome 4 centromere
Nucleic Acids Res.,
April 2, 2004;
32(6):
2023 - 2030.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
N. A. Eckardt
Journey to the Center of the Genome: Complete Sequence of the Rice Chromosome 8 Centromere
PLANT CELL,
April 1, 2004;
16(4):
789 - 791.
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
J. Wu, H. Yamagata, M. Hayashi-Tsugane, S. Hijishita, M. Fujisawa, M. Shibata, Y. Ito, M. Nakamura, M. Sakaguchi, R. Yoshihara, et al.
Composition and Structure of the Centromeric Region of Rice Chromosome 8
PLANT CELL,
April 1, 2004;
16(4):
967 - 976.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
W. Jin, J. R. Melo, K. Nagaki, P. B. Talbert, S. Henikoff, R. K. Dawe, and J. Jiang
Maize Centromeres: Organization and Functional Adaptation in the Genetic Background of Oat
PLANT CELL,
March 1, 2004;
16(3):
571 - 581.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
R. J. Mroczek and R. K. Dawe
Distribution of Retroelements in Centromeres and Neocentromeres of Maize
Genetics,
October 1, 2003;
165(2):
809 - 819.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
The Rice Chromosome 10 Sequencing Consortium
In-Depth View of Structure, Activity, and Evolution of Rice Chromosome 10
Science,
June 6, 2003;
300(5625):
1566 - 1569.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
Z.-J. Cheng and M. Murata
A Centromeric Tandem Repeat Family Originating From a Part of Ty3/gypsy-Retroelement in Wheat and Its Relatives
Genetics,
June 1, 2003;
164(2):
665 - 672.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
K. Nagaki, P. B. Talbert, C. X. Zhong, R. K. Dawe, S. Henikoff, and J. Jiang
Chromatin Immunoprecipitation Reveals That the 180-bp Satellite Repeat Is the Key Functional DNA Element of Arabidopsis thaliana Centromeres
Genetics,
March 1, 2003;
163(3):
1221 - 1225.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
K. Nagaki, J. Song, R. M. Stupar, A. S. Parokonny, Q. Yuan, S. Ouyang, J. Liu, J. Hsiao, K. M. Jones, R. K. Dawe, et al.
Molecular and Cytological Analyses of Large Tracks of Centromeric DNA Reveal the Structure and Evolutionary Dynamics of Maize Centromeres
Genetics,
February 1, 2003;
163(2):
759 - 770.
[Abstract]
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
R. K. Dawe
RNA Interference, Transposons, and the Centromere
PLANT CELL,
February 1, 2003;
15(2):
297 - 301.
[Full Text]
[PDF]
|
 |
|

|
 |

|
 |
 
C. X. Zhong, J. B. Marshall, C. Topp, R. Mroczek, A. Kato, K. Nagaki, J. A. Birchler, J. Jiang, and R. K. Dawe
Centromeric Retroelements and Satellites Interact with Maize Kinetochore Protein CENH3
PLANT CELL,
November 1, 2002;
14(11):
2825 - 2836.
[Abstract]
[Full Text]
[PDF]
|
 |
|
|
|