Different age distribution patterns of human, nematode, and Arabidopsis duplicate genes

Gene

Volumn 342, Issue 2, 2004, Pages 263-268

  Zhang, Peng ^a   Min, Wanli ^a   Li, Wen Hsiung ^a  

^a UNIVERSITY OF CHICAGO   (United States)

Author keywords

Age distribution; Duplicate genes; Eukaryotic genomes; Functional divergence; Loss rate; Nonparametic tests

Indexed keywords

AGE DISTRIBUTION; ARABIDOPSIS; ARTICLE; CAENORHABDITIS ELEGANS; CONTROLLED STUDY; DROSOPHILA MELANOGASTER; GENE DUPLICATION; GENE LOSS; GENE STRUCTURE; GENETIC VARIABILITY; HUMAN; HUMAN VERSUS ANIMAL COMPARISON; HYPOTHESIS; NONHUMAN; PARAMETER; PRIORITY JOURNAL; TIME;

ALGORITHMS; ANIMALS; ARABIDOPSIS; CAENORHABDITIS ELEGANS; DATABASES, NUCLEIC ACID; DROSOPHILA MELANOGASTER; GENES, DUPLICATE; GENOME; HUMANS; MODELS, GENETIC; TIME FACTORS; VARIATION (GENETICS);

ARABIDOPSIS; ARABIDOPSIS THALIANA; CAENORHABDITIS; CAENORHABDITIS ELEGANS; DROSOPHILA MELANOGASTER; EUKARYOTA; MELANOGASTER;

EID: 7544242277     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.gene.2004.08.001     Document Type: Article

References (26)

1. G. Blanc, and K.H. Wolfe Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes Plant Cell 16 7 2004 1667 1678
2. G. Blanc, A. Barakat, R. Guyot, R. Cooke, and M. Delseny Extensive duplication and reshuffling in the Arabidopsis genome Plant Cell 12 2000 1093 1101
3. J.E. Bowers, B.A. Chapman, J. Rong, and A.H. Paterson Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events Nature 422 6930 2003 433 438
4. A.R. Cavalcanti, R. Ferreira, Z. Gu, and W.H. Li Patterns of gene duplication in Saccharomyces cerevisiae and Caenorhabditis elegans J. Mol. Evol. 56 1 2003 28 37
5. E.E. Eichler Recent duplication, domain accretion and the dynamic mutation of the human genome Trends Genet. 17 11 2001 661 669
6. J. Felsenstein PHYLIP-Phylogeny Inference Package (Version 3.2) Cladistics 5 1989 164 166
7. D. Grant, P. Cregan, and R.C. Shoemaker Genome organization in dicots: genome duplication in Arabidopsis and synteny between soybean and Arabidopsis Proc. Natl. Acad. Sci. U. S. A. 97 8 2000 4168 4173
8. X. Gu, Y. Wang, and J. Gu Age distribution of human gene families shows significant roles of both large- and small-scale duplications in vertebrate evolution Nat. Genet. 31 2 2002 205 209
9. Z. Gu, A. Cavalcanti, F.C. Chen, P. Bouman, and W.H. Li Extent of gene duplication in the genomes of Drosophila, nematode, and yeast Mol. Biol. Evol. 19 3 2002 256 262
10. J. Jurka Repeats in genomic DNA: mining and meaning Curr. Opin. Struct. Biol. 8 1998 333 337
11. J. Jurka Repbase Update: a database and an electronic journal of repetitive elements Trends Genet. 16 2000 418 420
12. H.M. Ku, T. Vision, J. Liu, and S.D. Tanksley Comparing sequenced segments of the tomato and Arabidopsis genomes: large-scale duplication followed by selective gene loss creates a network of synteny Proc. Natl. Acad. Sci. U. S. A. 97 16 2000 9121 9126
13. M. Lynch, and J.S. Conery The evolutionary fate and consequences of duplicate genes Science 290 2000 1151 1155
14. M. Lynch, and J.S. Conery The evolutionary demography of duplicate genes J. Struct. Funct. Genomics 3 1-4 2003 35 44
15. M. Lynch, and J.S. Conery The origins of genome complexity Science 302 2003 1401 1404
16. K.D. Makova, and W.H. Li Divergence in the spatial pattern of gene expression between human duplicate genes Genome Res. 13 7 2003 1638 1645
17. H.G. Mueller, and J.L. Wang Hazard rates estimation under random censoring with carrying kernels and bandwidths Biometrics 50 1994 61 76
18. S. Ohno Evolution by Gene Duplication 1970 Springer-Verlag Heidelberg, Germany
19. A.H. Paterson Comparative genomics of plant chromosomes Plant Cell 12 2000 1523 1539
20. J. Raes, K. Vandepoele, C. Simillion, Y. Saeys, and Y. Van de Peer Investigating ancient duplication events in the Arabidopsis genome J. Struct. Funct. Genomics 3 1-4 2003 117 129
21. C. Simillion, K. Vandepoele, M.C.E. Van Montagu, M. Zabeau, and Y. Van de Peer The hidden duplication past of Arabidopsis thaliana Proc. Natl. Acad. Sci. U. S. A. 99 2002 13627 13632
22. The Arabidopsis Genome Initiative Analysis of the genome sequence of the flowering plant Arabidopsis thaliana Nature 408 2000 796 815
23. T.J. Vision, D.G. Brown, and S.D. Tanksley The origins of genomic duplications in Arabidopsis Science 290 5499 2000 2114 2117
24. Z. Yang PAML: a program package for phylogenetic analysis by maximum likelihood CABIOS 13 1997 555 556
25. L. Zhang, B.S. Gaut, and T.J. Vision Gene duplication and evolution Science 293 2001 1551
26. P. Zhang, Z. Gu, and W.H. Li Different evolutionary patterns between young duplicate genes in the human genome Genome Biol. 4 9 2003 R56