The hidden duplication past of Arabidopsis thaliana
(2002)
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA.
99(21).
p.13627-13632
- Author
- Cedric Simillion (UGent) , Klaas Vandepoele (UGent) , Marc Van Montagu (UGent) , Marc Zabeau (UGent) and Yves Van de Peer (UGent)
- Organization
- Abstract
- Analysis of the genome sequence of Arabidopsis thaliana shows that this genome, like that of many other eukaryotic organisms, has undergone large-scale gene duplications or even duplications of the entire genome. However, the high frequency of gene loss after duplication events reduces colinearity and therefore the chance of finding duplicated regions that, at the extreme, no longer share homologous genes. In this study we show that heavily degenerated block duplications that can no longer be recognized by directly comparing two segments because of differential gene loss, can still be detected through indirect comparison with other segments. When these so-called hidden duplications in Arabidopsis are taken into account, many homologous genomic regions can be found in five to eight copies. This finding strongly implies that Arabidopsis has undergone three, but probably no more, rounds of genome duplications. Therefore, adding such hidden blocks to the duplication landscape of Arabidopsis sheds light on the number of polyploidy events that this model plant genome has undergone in its evolutionary past.
- Keywords
- SYNTENY, RATES, SEQUENCE, POLYPLOIDY, GENES, EVOLUTION, GENOME, CHROMOSOMAL DUPLICATION, NONSYNONYMOUS SUBSTITUTION
Downloads
-
(...).pdf
- full text
- |
- UGent only
- |
- |
- 404.53 KB
Citation
Please use this url to cite or link to this publication: http://hdl.handle.net/1854/LU-154053
- MLA
- Simillion, Cedric, et al. “The Hidden Duplication Past of Arabidopsis Thaliana.” PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, vol. 99, no. 21, 2002, pp. 13627–32, doi:10.1073/pnas.212522399.
- APA
- Simillion, C., Vandepoele, K., Van Montagu, M., Zabeau, M., & Van de Peer, Y. (2002). The hidden duplication past of Arabidopsis thaliana. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 99(21), 13627–13632. https://doi.org/10.1073/pnas.212522399
- Chicago author-date
- Simillion, Cedric, Klaas Vandepoele, Marc Van Montagu, Marc Zabeau, and Yves Van de Peer. 2002. “The Hidden Duplication Past of Arabidopsis Thaliana.” PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 99 (21): 13627–32. https://doi.org/10.1073/pnas.212522399.
- Chicago author-date (all authors)
- Simillion, Cedric, Klaas Vandepoele, Marc Van Montagu, Marc Zabeau, and Yves Van de Peer. 2002. “The Hidden Duplication Past of Arabidopsis Thaliana.” PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 99 (21): 13627–13632. doi:10.1073/pnas.212522399.
- Vancouver
- 1.Simillion C, Vandepoele K, Van Montagu M, Zabeau M, Van de Peer Y. The hidden duplication past of Arabidopsis thaliana. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2002;99(21):13627–32.
- IEEE
- [1]C. Simillion, K. Vandepoele, M. Van Montagu, M. Zabeau, and Y. Van de Peer, “The hidden duplication past of Arabidopsis thaliana,” PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, vol. 99, no. 21, pp. 13627–13632, 2002.
@article{154053,
abstract = {{Analysis of the genome sequence of Arabidopsis thaliana shows that this genome, like that of many other eukaryotic organisms, has undergone large-scale gene duplications or even duplications of the entire genome. However, the high frequency of gene loss after duplication events reduces colinearity and therefore the chance of finding duplicated regions that, at the extreme, no longer share homologous genes. In this study we show that heavily degenerated block duplications that can no longer be recognized by directly comparing two segments because of differential gene loss, can still be detected through indirect comparison with other segments. When these so-called hidden duplications in Arabidopsis are taken into account, many homologous genomic regions can be found in five to eight copies. This finding strongly implies that Arabidopsis has undergone three, but probably no more, rounds of genome duplications. Therefore, adding such hidden blocks to the duplication landscape of Arabidopsis sheds light on the number of polyploidy events that this model plant genome has undergone in its evolutionary past.}},
author = {{Simillion, Cedric and Vandepoele, Klaas and Van Montagu, Marc and Zabeau, Marc and Van de Peer, Yves}},
issn = {{0027-8424}},
journal = {{PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA}},
keywords = {{SYNTENY,RATES,SEQUENCE,POLYPLOIDY,GENES,EVOLUTION,GENOME,CHROMOSOMAL DUPLICATION,NONSYNONYMOUS SUBSTITUTION}},
language = {{eng}},
number = {{21}},
pages = {{13627--13632}},
title = {{The hidden duplication past of Arabidopsis thaliana}},
url = {{http://doi.org/10.1073/pnas.212522399}},
volume = {{99}},
year = {{2002}},
}
- Altmetric
- View in Altmetric
- Web of Science
- Times cited: