An ancient genome duplication contributed to the abundance of metabolic genes in the moss Physcomitrella patens

被引:145
作者
Rensing, Stefan A. [1 ]
Ick, Julia
Fawcett, Jeffrey A.
Lang, Daniel
Zimmer, Andreas
Van de Peer, Yves
Reski, Ralf
机构
[1] Univ Freiburg, Fac Biol, Schaenzlestr 1, D-79104 Freiburg, Germany
[2] VIB, Dept Plant Syst Biol, B-9052 Ghent, Belgium
[3] Univ Ghent VIB, Dept Mol Genet, B-9052 Ghent, Belgium
关键词
D O I
10.1186/1471-2148-7-130
中图分类号
Q [生物科学];
学科分类号
07 ; 0710 ; 09 ;
摘要
Background: Analyses of complete genomes and large collections of gene transcripts have shown that most, if not all seed plants have undergone one or more genome duplications in their evolutionary past. Results: In this study, based on a large collection of EST sequences, we provide evidence that the haploid moss Physcomitrella patens is a paleopolyploid as well. Based on the construction of linearized phylogenetic trees we infer the genome duplication to have occurred between 30 and 60 million years ago. Gene Ontology and pathway association of the duplicated genes in P. patens reveal different biases of gene retention compared with seed plants. Conclusion: Metabolic genes seem to have been retained in excess following the genome duplication in P. patens. This might, at least partly, explain the versatility of metabolism, as described for P. patens and other mosses, in comparison to other land plants.
引用
收藏
页数:10
相关论文
共 72 条
[1]   BRYOLOGY - 1947-1972 [J].
ANDERSON, LE .
ANNALS OF THE MISSOURI BOTANICAL GARDEN, 1974, 61 (01) :56-85
[2]  
[Anonymous], GENOME RES
[3]   CONTROLLING THE FALSE DISCOVERY RATE - A PRACTICAL AND POWERFUL APPROACH TO MULTIPLE TESTING [J].
BENJAMINI, Y ;
HOCHBERG, Y .
JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY, 1995, 57 (01) :289-300
[4]   Detoxification of dissolved SO2 (Bisulfite) by terricolous mosses [J].
Bharali, B ;
Bates, JW .
ANNALS OF BOTANY, 2006, 97 (02) :257-263
[5]   GeneWise and genomewise [J].
Birney, E ;
Clamp, M ;
Durbin, R .
GENOME RESEARCH, 2004, 14 (05) :988-995
[6]   Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution [J].
Blanc, G ;
Wolfe, KH .
PLANT CELL, 2004, 16 (07) :1679-1691
[7]   A recent polyploidy superimposed on older large-scale duplications in the Arabidopsis genome [J].
Blanc, G ;
Hokamp, K ;
Wolfe, KH .
GENOME RESEARCH, 2003, 13 (02) :137-144
[8]   Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events [J].
Bowers, JE ;
Chapman, BA ;
Rong, JK ;
Paterson, AH .
NATURE, 2003, 422 (6930) :433-438
[9]   Dating the monocot-dicot divergence and the origin of core eudicots using whole chloroplast genomes [J].
Chaw, SM ;
Chang, CC ;
Chen, HL ;
Li, WH .
JOURNAL OF MOLECULAR EVOLUTION, 2004, 58 (04) :424-441
[10]   Blast2GO:: a universal tool for annotation, visualization and analysis in functional genomics research [J].
Conesa, A ;
Götz, S ;
García-Gómez, JM ;
Terol, J ;
Talón, M ;
Robles, M .
BIOINFORMATICS, 2005, 21 (18) :3674-3676