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| Content Provider | World Health Organization (WHO)-Global Index Medicus |
|---|---|
| Author | Hu, C. Y. Lin, S. F. Kung, T. L. Yang, Y. C. |
| Description | Country affiliation: China Author Affiliation: Yang YC ( Department of Agronomy, National Taiwan University, Taipei, Taiwan, Republic of China.); Kung TL ( Department of Agronomy, National Taiwan University, Taipei, Taiwan, Republic of China.); Hu CY ( Wenshan Branch, Tea Research and Extension Station, Taipei, Taiwan, Republic of China.); Lin SF ( Department of Agronomy, National Taiwan University, Taipei, Taiwan, Republic of China.) |
| Abstract | Variation in the chloroplast DNA sequence is useful for plant phylogenetic studies. However, the number of variable sequences provided by chloroplast DNA for suggested genes or genomic regions in plant phylogenetic analyses is often inadequate. To identify conserved regions that can be used to design primers and amplify variable sequences for use in plant phylogenetic studies, the complete chloroplast genomic sequences of six plant species (including Oryza sativa, Arabidopsis thaliana, Glycine max, Lotus japonicus, Medicago truncatula, and Phaseolus vulgaris), searched from the taxonomy database of NCBI were investigated. A total of 93 conserved regions, 32 in large single copy and 61 in inverted repeat regions, were identified. A set of five primer pairs were designed according to the conserved sequences located in the psbA~trnK, psbB~psbH, rpl23~trnI, trnR~trnN, and trnY~trnD regions to amplify variable DNA fragments. An additional 18 plant accessions from 14 species were used to validate their utility. Each of the tested species could be distinguished by length polymorphisms of fragments amplified with the five primer pairs. trnR~trnN and rpl23~trnI amplified fragments specific to monocot and legume species, respectively. Three primer pairs located in the psbA~trnK, psbB~psbH, and trnR~trnN regions were applied to amplify variable DNA sequences for phylogenetic analysis using the maximum parsimony method. The consistent result between taxonomy and phylogenetic analysis on the variable sequences amplified with these three primer pairs was revealed. The five newly developed primer pairs are recommended as tools for use in the identification of plant species and in phylogenetic studies. |
| e-ISSN | 16765680 |
| Journal | Genetics and Molecular Research |
| Issue Number | 4 |
| Volume Number | 14 |
| Language | English |
| Publisher | Fundação de Pesquisas Científicas de Ribeirão Preto |
| Publisher Date | 2015-11-23 |
| Publisher Place | Brazil |
| Access Restriction | Open |
| Subject Keyword | Dna Primers Genetics Dna, Chloroplast Genome, Chloroplast Phylogeny Arabidopsis Genetic Variation Genome, Plant Oryza Sativa Discipline Genetics Discipline Molecular Biology Discipline Bioinformatics |
| Content Type | Text |
| Resource Type | Article |
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