Title

The development of an Arabidopsis model system for genome-wide analysis of polyploidy effects

Authors

Andreas Madlung, University of Puget SoundFollow
Z. Jeffery Chen, Intercollegiate Program in Genetics and Department of Soil and Crop Sciences, Texas A&M University, College Station, TX 77843–2474, USA
Jianlin Wang, Intercollegiate Program in Genetics and Department of Soil and Crop Sciences, Texas A&M University, College Station, TX 77843–2474, USA
Lu Tian, Intercollegiate Program in Genetics and Department of Soil and Crop Sciences, Texas A&M University, College Station, TX 77843–2474, USA
Hyeon-Se Lee, Intercollegiate Program in Genetics and Department of Soil and Crop Sciences, Texas A&M University, College Station, TX 77843–2474, USA
Jiyuan J. Wang, Intercollegiate Program in Genetics and Department of Soil and Crop Sciences, Texas A&M University, College Station, TX 77843–2474, USA
Meng Chen, Intercollegiate Program in Genetics and Department of Soil and Crop Sciences, Texas A&M University, College Station, TX 77843–2474, USA
Jinsuk J. Lee, Intercollegiate Program in Genetics and Department of Soil and Crop Sciences, Texas A&M University, College Station, TX 77843–2474, USA
Caroline Josefsson, Department of Botany, University of Washington, Seattle, WA 98195, USA
Brian Watson, Department of Botany, University of Washington, Seattle, WA 98195, USA
Zach Lippman, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA
Matt Vaughn, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA
J. Chris Pires, Department of Agronomy, University of Wisconsin, Madison, WI 53706, USA
Vincent Colot, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA
R. W. Doerge, Departments of Statistics, Agronomy, and Computational Genomics, Purdue University, West Lafayette, IN 47907, USA
Robert A. Martienssen, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA
Luca Comai, Department of Botany, University of Washington, Seattle, WA 98195, USA
Thomas C. Osborn, Department of Agronomy, University of Wisconsin, Madison, WI 53706, USA

Document Type

Article

Publication Date

8-2004

Publication Title

Biological Journal of the Linnean Society

Department

Biology

Abstract

Arabidopsis is a model system not only for studying numerous aspects of plant biology, but also for understanding mechanisms of the rapid evolutionary process associated with genome duplication and polyploidization. Although in animals interspecific hybrids are often sterile and aneuploids are related to disease syndromes, both Arabidopsis autopolyploids and allopolyploids occur in nature and can be readily formed in the laboratory, providing an attractive system for comparing changes in gene expression and genome structure among relatively ‘young’ and ‘established’ or ‘ancient’ polyploids. Powerful reverse and forward genetics in Arabidopsis offer an exceptional means by which regulatory mechanisms of gene and genome duplication may be revealed. Moreover, the Arabidopsis genome is completely sequenced; both coding and non-coding sequences are available. We have developed spotted oligo-gene and chromosome microarrays using the complete Arabidopsis genome sequence. The oligo-gene microarray consists of ?26 000 70-mer oligonucleotides that are designed from all annotated genes in Arabidopsis, and the chromosome microarray contains 1 kb genomic tiling fragments amplified from a chromosomal region or the complete sequence of chromosome 4. We have demonstrated the utility of microarrays for genome-wide analysis of changes in gene expression, genome organization and chromatin structure in Arabidopsis polyploids and related species. © 2004 The Linnean Society of London, Biological Journal of the Linnean Society, 2004, 82, 689–700.

ISSN

0024-4066