Czech J. Genet. Plant Breed., 2004, 40(2):45-50 | DOI: 10.17221/3699-CJGPB
Differences Between South American H Haplome Diploids and I Haplome Diploids from the Perspective of the 5S rDNA Gene in the Genus Hordeum
- 1 Agriculture & Agri-Food Canada, Eastern Cereal and Oilseed Centre, Ottawa, Ontario, Canada
- 2 University of Ottawa, Department of Biology, Ottawa, Ontario, Canada
Twelve South American diploid Hordeum species belonging to the H genome and three diploid species belonging to the I genome (including cultivated barley) were investigated for their 5S rDNA sequence diversity. The 374 sequenced clones were assigned to classes called "unit classes" which were further assigned to haplomes. Two unit classes were found to be present in each haplome. These were labelled to reflect the haplomes, viz. the long H1 and short I1 unit classes for the I haplome diploids, and the long H2 and long Y2 unit classes for the South American H genome diploids. The aligned sequences were subjected to a series of Maximum Likelihood analyses and various tests, including molecular clock, which are presented and discussed. The divergences among the unit classes suggest that the genus Hordeum might be of paleopolyploid origin.
Keywords: 5S DNA gene; molecular clock; paleopolyploid
Published: June 30, 2004 Show citation
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References
- A S.F., G W., M W., M E.W., L D.J. (1990): Basic local alignment search tool. J. Mol. Biol., 215: 403-410.
Go to original source...
Go to PubMed...
- B B.R., B L.G. (1997): The molecular diversity of the 5S rRNA gene in Kengyilia alatavica (Drobov) J. L. Yang, Yen & Baum (Poaceae: Triticeae): potential genomic assignment of different rDNA units. Genome, 40: 215-228.
Go to original source...
Go to PubMed...
- B B.R., B L.G. (2000): The 5S rDNA units in Kengyilia (Poaceae: Triticeae): diversity of the nontranscribed spacer and genomic relationships. Can. J. Bot., 78: 1571-1579.
Go to original source...
- B B.R., B L.G. (2001): The 5S rRNA gene sequence variation in wheats and some polyploid wheat progenitors (Poaceae: Triticeae). Genet. Res. Crop Evol., 48: 35-51.
- B B.R., J D.A. (1994): The molecular diversity of the 5S rRNA gene in barley (Hordeum vulgare). Genome, 37: 992-998.
Go to original source...
Go to PubMed...
- B B.R., J D.A. (1996): The 5S rRNA gene units in ancestral two-row barley (Hordeum spontaneum C. Koch) and bulbous barley (H. bulbosum L.): sequence analysis and phylogenetic relationships with the 5S rDNA units in cultivated barley (H. vulgare L.). Genome, 39: 140-149.
Go to original source...
Go to PubMed...
- B B.R., J D.A. (1998): The 5S rRNA gene in sea barley (Hordeum marinum Hudson sensu lato): sequence variation among repeat units and relationship to the X haplome in barley (Hordeum). Genome, 41: 652-661.
Go to original source...
Go to PubMed...
- B B.R., J D.A. (1999): The 5S rRNA gene in wall barley (Hordeum murinum L. sensu lato): sequence variation among repeat units and relationship to the Y haplome in the genus Hordeum (Poaceae: Triticeae). Genome, 42: 854-866.
Go to original source...
Go to PubMed...
- B B.R., J D.A. (2000): The 5S rRNA gene units in the native New World annual Hordeum species (Triticeae: Poaceae). Can. J. Bot., 78: 1590-1602.
Go to original source...
- B B.R., J D.A. (2002): A comparison of the 5S rDNA diversity in the Hordeum brachyantherum-californicum complex with those of the eastern Asiatic Hordeum roshevitzii and the South American Hordeum cordobense (Triticeae: Poaceae). Can. J. Bot., 80: 752-762.
Go to original source...
- B B.R., J D.A. (2003): The South African Hordeum capense is more closely related to some American Hordeum species than to the European Hordeum secalinum: a perspective based on the 5S DNA units (Triticeae: Poaceae). Can. J. Bot., 81: 1-11.
Go to original source...
- B B.R., J D.A., B L.G. (2001): Defining orthologous groups among multicopy genes prior to inferring phylogeny, with special emphasis on the Triticeae (Poaceae). Hereditas, 135: 123-138.
Go to original source...
Go to PubMed...
- B B.R., B L.G., J D.A., A A.V. (2003): Molecular diversity of the 5S rDNA units in the Elymus dahuricus complex (Poaceae: Triticeae) supports the genomic constitution of St, Y, and H haplomes. Can. J. Bot., 81: 1091-1103.
Go to original source...
- B R., J N. (1991): Interspecific hybrids within the genus Hordeum. In: G P.K., T T. (eds): Chromosome Engineering in Plants: Genetics, Breeding, Evolution, Part A. Elsevier, Amsterdam, the Netherlands: 411-431.
Go to original source...
- B R., J N., B C., J R.B., L -L I. (1991): An ecogeographical study of the genus Hordeum. Studies on Crop Genepools 7. International Board for Plant Genetic Resources, Rome.
- F J. (1993): PHYLIP (Phylogeny Inference Package) version 3.5c. Distributed by the author. Department of Genetics, University of Washington, Sea le.
- G B.S. (2002): Evolutionary dynamics of grass genomes. New Phytol., 154: 15-28.
Go to original source...
- J G. (2003): TREEFINDER version December 2003. Munich, Germany. Distributed by the author at www. treefinder.de
- K H., H M. (1989): Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea. J. Mol. Evol., 29: 170-179.
Go to original source...
Go to PubMed...
- L A.A, F M. (2002): The impact of polyploidy on grass genome evolution. Plant Physiol., 130: 1587-1593.
Go to original source...
Go to PubMed...
- N K.B., N H.B. Jr. (1997): GeneDoc©: a tool for editing and annotating multiple sequence alignments. Distributed by the authors.
- P D., C K.A. (1998): Modeltest: Testing the model of DNA substitution. Bioinformatics, 14: 817-818.
Go to original source...
Go to PubMed...
- S H., H M. (1999): Multiple comparisons of log-likelihoods with applications to phylogenetic inference. Mol. Biol. Evol., 16: 1114-1116.
Go to original source...
- S D.L. (1998): PAUP*. Phylogenetic Analysis Using Parsimony (and Other Methods). Version 4. Sinauer Associates, Sunderland. Massachuse s.
- T J.D., H D.G., G T.J. (1994): CLUSTALW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res., 22: 4673-4680.
Go to original source...
Go to PubMed...
- Y -P C., V J., M J. (1985): Improved M13 phage cloning vectors and host strains: nucleotide sequence of M13mp18 and pUC19 vectors. Gene, 33: 103-119.
Go to original source...
Go to PubMed...
- W K.H., G M., Y Y.W., S P.M., L W.H. (1989): Date of the monocot-dicot divergence estimated from chloroplast DNA sequence data. Proc. Natl. Acad. Sci. U.S.A. 86: 6201-6205.
Go to original source...
Go to PubMed...
- Z L., V T.J., G V.S. (2002): Patterns of nucleotide substitution among simultaneously duplicated gene pairs in Arabidopsis thaliana. Mol. Biol. Evol., 19: 1464-1473.
Go to original source...
Go to PubMed...
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