In silico analysis of Simple Sequence Repeats from chloroplast genomes of Solanaceae species
| Autor: | Simone Guidetti Gonzalez, Joice Bissoloti Brigati, Keim Dressano, Andre Luis Barbosa, Danila Montewka Melotto-Passarin, Helaine Carrer, Evandro Vagner Tambarussi, Frederico Almeida de Jesus |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2009 |
| Předmět: |
Genetics
biology Phylogenetic tree nucleotide polymorphism lcsh:Biotechnology cpSSR lcsh:Plant culture biology.organism_classification plastome Genome Maximum parsimony Intergenic region Chloroplast DNA Phylogenetics Atropa belladonna lcsh:TP248.13-248.65 Solanum bulbocastanum General Earth and Planetary Sciences molecular marker lcsh:SB1-1110 phylogenetic General Environmental Science |
| Zdroj: | Crop Breeding and Applied Biotechnology, Vol 9, Iss 4, Pp 344-352 (2009) ResearcherID |
| ISSN: | 1984-7033 1518-7853 |
| Popis: | The availability of chloroplast genome (cpDNA) sequences of Atropa belladonna, Nicotiana sylvestris, N. tabacum, N. tomentosiformis, Solanum bulbocastanum, S. lycopersicum and S. tuberosum, which are Solanaceae species, allowed us to analyze the organization of cpSSRs in their genic and intergenic regions. In general, the number of cpSSRs in cpDNA ranged from 161 in S. tuberosum to 226 in N. tabacum, and the number of intergenic cpSSRs was higher than genic cpSSRs. The mononucleotide repeats were the most frequent in studied species, but we also identified di-, tri-, tetra-, penta- and hexanucleotide repeats. Multiple alignments of all cpSSRs sequences from Solanaceae species made the identification of nucleotide variability possible and the phylogeny was estimated by maximum parsimony. Our study showed that the plastome database can be exploited for phylogenetic analysis and biotechnological approaches. |
| Databáze: | OpenAIRE |
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