Literature DB >> 12777046

The age of the Arabidopsis thaliana genome duplication.

Maria D Ermolaeva1, Martin Wu, Jonathan A Eisen, Steven L Salzberg.   

Abstract

We estimate the timing of the Arabidopsis thaliana whole-genome duplication by means of phylogenetic and statistical analysis, and propose two possible scenarios for the duplication. The first one, based on the assumption that the duplicated segments diverged from an autotetraploid form, places the duplication at about 38 million years ago, after the Arabidopsis lineage diverged from that of soybean (Glycine max) and before it diverged from its sister genus, Brassica. The second scenario assumes that the ancestor was allotetraploid, and suggests that the duplication is younger than 38 million years and may have contributed to the Arabidopsis-Brassica divergence. In each case, our estimate places the age of the genome duplication as significantly younger than previously reported.

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Year:  2003        PMID: 12777046     DOI: 10.1023/a:1023001130337

Source DB:  PubMed          Journal:  Plant Mol Biol        ISSN: 0167-4412            Impact factor:   4.076


  20 in total

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2.  DNA sequence evidence for the segmental allotetraploid origin of maize.

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3.  Basic local alignment search tool.

Authors:  S F Altschul; W Gish; W Miller; E W Myers; D J Lipman
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4.  Using CLUSTAL for multiple sequence alignments.

Authors:  D G Higgins; J D Thompson; T J Gibson
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5.  Molecular evidence for an ancient duplication of the entire yeast genome.

Authors:  K H Wolfe; D C Shields
Journal:  Nature       Date:  1997-06-12       Impact factor: 49.962

6.  Updated map of duplicated regions in the yeast genome.

Authors:  C Seoighe; K H Wolfe
Journal:  Gene       Date:  1999-09-30       Impact factor: 3.688

7.  A simple method for estimating the parameter of substitution rate variation among sites.

Authors:  X Gu; J Zhang
Journal:  Mol Biol Evol       Date:  1997-11       Impact factor: 16.240

8.  An EST-enriched comparative map of Brassica oleracea and Arabidopsis thaliana.

Authors:  T H Lan; T A DelMonte; K P Reischmann; J Hyman; S P Kowalski; J McFerson; S Kresovich; A H Paterson
Journal:  Genome Res       Date:  2000-06       Impact factor: 9.043

9.  Comparative evolutionary analysis of chalcone synthase and alcohol dehydrogenase loci in Arabidopsis, Arabis, and related genera (Brassicaceae).

Authors:  M A Koch; B Haubold; T Mitchell-Olds
Journal:  Mol Biol Evol       Date:  2000-10       Impact factor: 16.240

10.  Assessing the level of collinearity between Arabidopsis thaliana and Brassica napus for A. thaliana chromosome 5.

Authors:  I A P Parkin; D J Lydiate; M Trick
Journal:  Genome       Date:  2002-04       Impact factor: 2.166

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  46 in total

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Authors:  Mark A Beilstein; Nathalie S Nagalingum; Mark D Clements; Steven R Manchester; Sarah Mathews
Journal:  Proc Natl Acad Sci U S A       Date:  2010-10-04       Impact factor: 11.205

2.  Molecular evidence for asymmetric evolution of sister duplicated blocks after cereal polyploidy.

Authors:  Hongbin Wang; Lujun Yu; Fei Lai; Liangshi Liu; Jinfa Wang
Journal:  Plant Mol Biol       Date:  2005-09       Impact factor: 4.076

3.  The evolution of the SEPALLATA subfamily of MADS-box genes: a preangiosperm origin with multiple duplications throughout angiosperm history.

Authors:  Laura M Zahn; Hongzhi Kong; James H Leebens-Mack; Sangtae Kim; Pamela S Soltis; Lena L Landherr; Douglas E Soltis; Claude W Depamphilis; Hong Ma
Journal:  Genetics       Date:  2005-01-31       Impact factor: 4.562

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Authors:  Yuepeng Han; Sornkanok Vimolmangkang; Ruth Elena Soria-Guerra; Sergio Rosales-Mendoza; Danman Zheng; Anatoli V Lygin; Schuyler S Korban
Journal:  Plant Physiol       Date:  2010-03-31       Impact factor: 8.340

5.  Reconciliation with non-binary species trees.

Authors:  Benjamin Vernot; Maureen Stolzer; Aiton Goldman; Dannie Durand
Journal:  J Comput Biol       Date:  2008-10       Impact factor: 1.479

6.  Polyploid evolution of the Brassicaceae during the Cenozoic era.

Authors:  Sateesh Kagale; Stephen J Robinson; John Nixon; Rong Xiao; Terry Huebert; Janet Condie; Dallas Kessler; Wayne E Clarke; Patrick P Edger; Matthew G Links; Andrew G Sharpe; Isobel A P Parkin
Journal:  Plant Cell       Date:  2014-07-17       Impact factor: 11.277

7.  Analysis of the alternative oxidase promoters from soybean.

Authors:  David Thirkettle-Watts; Tulene C McCabe; Rachel Clifton; Carolyn Moore; Patrick M Finnegan; David A Day; James Whelan
Journal:  Plant Physiol       Date:  2003-10-09       Impact factor: 8.340

8.  Paleopolyploidy in the Brassicales: analyses of the Cleome transcriptome elucidate the history of genome duplications in Arabidopsis and other Brassicales.

Authors:  Michael S Barker; Heiko Vogel; M Eric Schranz
Journal:  Genome Biol Evol       Date:  2009-10-05       Impact factor: 3.416

9.  The obesity gene, TMEM18, is of ancient origin, found in majority of neuronal cells in all major brain regions and associated with obesity in severely obese children.

Authors:  Markus Sällman Almén; Josefin A Jacobsson; Jafar H A Shaik; Pawel K Olszewski; Jonathan Cedernaes; Johan Alsiö; Smitha Sreedharan; Allen S Levine; Robert Fredriksson; Claude Marcus; Helgi B Schiöth
Journal:  BMC Med Genet       Date:  2010-04-09       Impact factor: 2.103

10.  Network of Cancer Genes: a web resource to analyze duplicability, orthology and network properties of cancer genes.

Authors:  Adnan S Syed; Matteo D'Antonio; Francesca D Ciccarelli
Journal:  Nucleic Acids Res       Date:  2009-11-11       Impact factor: 16.971

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