- THIS ARTICLE
- Full Text
- Full Text (PDF)
-
All Versions of this Article:
genetics.105.040915v1
170/3/1209 most recent - Alert me when this article is cited
- Alert me if a correction is posted
- SERVICES
- Similar articles in this journal
- Similar articles in PubMed
- Alert me to new issues of the journal
- Download to citation manager
- Reprints & Permissions
- CITING ARTICLES
- Citing Articles via HighWire
- Citing Articles via Google Scholar
- GOOGLE SCHOLAR
- Articles by Ma, J.
- Articles by Bennetzen, J. L.
- Search for Related Content
- PUBMED
- PubMed Citation
- Articles by Ma, J.
- Articles by Bennetzen, J. L.
Originally published as Genetics Published Articles Ahead of Print on April 16, 2005.
Genetics, Vol. 170, 1209-1220, July 2005, Copyright © 2005
doi:10.1534/genetics.105.040915
DNA Rearrangement in Orthologous Orp Regions of the Maize, Rice and Sorghum Genomes
Jianxin Ma*,
,
Phillip SanMiguel
,
Jinsheng Lai
,
Joachim Messing and
Jeffrey L. Bennetzen*,,1
* Department of Genetics, University of Georgia, Athens, Georgia 30602
Department of Biological Sciences, Purdue University, West Lafayette, Indiana 47907
Genomics Core Facility, Purdue University, West Lafayette, Indiana 47907
Waksman Institute, Rutgers, The State University of New Jersey, Piscataway, New Jersey 08854
1 Corresponding author: Department of Genetics, University of Georgia, Athens, GA 30602.
E-mail: maize{at}uga.edu
The homeologous Orp1 and Orp2 regions of maize and the orthologous regions in sorghum and rice were compared by generating sequence data for >486 kb of genomic DNA. At least three genic rearrangements differentiate the maize Orp1 and Orp2 segments, including an insertion of a single gene and two deletions that removed one gene each, while no genic rearrangements were detected in the maize Orp2 region relative to sorghum. Extended comparison of the orthologous Orp regions of sorghum and japonica rice uncovered numerous genic rearrangements and the presence of a transposon-rich region in rice. Only 11 of 27 genes (40%) are arranged in the same order and orientation between sorghum and rice. Of the 8 genes that are uniquely present in the sorghum region, 4 were found to have single-copy homologs in both rice and Arabidopsis, but none of these genes are located near each other, indicating frequent gene movement. Further comparison of the Orp segments from two rice subspecies, japonica and indica, revealed that the transposon-rich region is both an ancient and current hotspot for retrotransposon accumulation and genic rearrangement. We also identify unequal gene conversion as a mechanism for maize retrotransposon rearrangement.
This article has been cited by other articles:
 |
|
 |
|
  A. Doust Architectural Evolution and its Implications for Domestication in Grasses Ann. Bot., October 1, 2007; 100(5): 941 - 950. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 R. Liu, C. Vitte, J. Ma, A. A. Mahama, T. Dhliwayo, M. Lee, and J. L. Bennetzen A GeneTrek analysis of the maize genome PNAS, July 10, 2007; 104(28): 11844 - 11849. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. Vitte and J. L. Bennetzen Eukaryotic Transposable Elements and Genome Evolution Special Feature: Analysis of retrotransposon structural diversity uncovers properties and propensities in angiosperm genome evolution PNAS, November 21, 2006; 103(47): 17638 - 17643. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 W. Odland, A. Baumgarten, and R. Phillips Ancestral Rice Blocks Define Multiple Related Regions in the Maize Genome Crop Sci., November 1, 2006; 46(Supplement_1): S-41 - S-48. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 B. Piegu, R. Guyot, N. Picault, A. Roulin, A. Saniyal, H. Kim, K. Collura, D. S. Brar, S. Jackson, R. A. Wing, et al. Doubling genome size without polyploidization: Dynamics of retrotransposition-driven genomic expansions in Oryza australiensis, a wild relative of rice Genome Res., October 1, 2006; 16(10): 1262 - 1269. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J. A. Schlueter, B. E. Scheffler, S. D. Schlueter, and R. C. Shoemaker Sequence Conservation of Homeologous Bacterial Artificial Chromosomes and Transcription of Homeologous Genes in Soybean (Glycine max L. Merr.) Genetics, October 1, 2006; 174(2): 1017 - 1028. [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]
|
|
|
|
|
|
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]
|
|
|
|
|
|
K. M. Devos, J. Ma, A. C. Pontaroli, L. H. Pratt, and J. L. Bennetzen Analysis and mapping of randomly chosen bacterial artificial chromosome clones from hexaploid bread wheat PNAS, December 27, 2005; 102(52): 19243 - 19248. [Abstract] [Full Text] [PDF]
|
|