Evaluation of variations in plastid DNA non-coding regions in selected species of the genus Solanum
Vladimíra Sedláková, Petr Sedlák, Dukagjin Zeka, Jaroslava Domkářová, Petr Doležal, Pavel Vejlhttps://doi.org/10.17221/76/2015-CJGPBCitation:Sedláková V., Sedlák P., Zeka D., Domkářová J., Doležal P., Vejl P. (2017): Evaluation of variations in plastid DNA non-coding regions in selected species of the genus Solanum. Czech J. Genet. Plant Breed., 53: 127-131.
The diversity of three non-coding plastid DNA loci (trnL/trnF spacer, trnV/16SrRNA spacer, trnL/trnL intron) was assessed in 16 Solanum L. species (135 individuals). Polymorphisms were detected by denaturing gradient gel electrophoresis (DGGE) and verified by direct sequencing. No intraspecific diversity and only poor interspecific diversity was detected. Unique S. mochiquense Ochoa specific length polymorphism at the trnL/trnL locus represented by duplication of an 18 bp segment was discovered. The detected DGGE interspecific trnL/trnF locus polymorphism did not specifically associate with single point mutations in the sequence confirmed by sequencing. The DGGE method was found to be a simple and cheap pre-exploring tool for mutation detection in compared DNA regions. Some identified polymorphisms can be used in the management of genetic resources.Keywords:
DGGE; DNA sequencing; genetic diversity; point mutations; potato genetic resourcesReferences:
Al-Janabi S.M., McClelland M., Petersen C., Sobral B.W.S. (1994): Phylogenetic analysis of organellar DNA sequences in the Andropogoneae: Saccharinae. Theoretical and Applied Genetics, 88, - https://doi.org/10.1007/BF00220799Bradshaw J.E., Mackay G.R. (1994): Potato Genetics. Cambridge, CAB International.Liu Bo, Lowes Frank (2013): Multiple Divergent ITS1 Copies Were Identified in Single Tomato Genome Using DGGE Analysis. Plant Molecular Biology Reporter, 31, 272-279 https://doi.org/10.1007/s11105-012-0500-0Olmstead Richard G., Palmer Jeffrey D. (1997): Implications for the Phylogeny, Classification, and Biogeography of Solanum from cpDNA Restriction Site Variation. Systematic Botany, 22, 19- https://doi.org/10.2307/2419675Scowcroft W. R. (1979): Nucleotide polymorphism in chloroplast dna of Nicotiana debneyi. Theoretical and Applied Genetics, 55, 133-137 https://doi.org/10.1007/BF00295439Spooner David M., Sytsma Kenneth J. (1992): Reexamination of Series Relationships of Mexican and Central American Wild Potatoes (Solanum sect. Petota): Evidence from Chloroplast DNA Restriction Site Variation. Systematic Botany, 17, 432- https://doi.org/10.2307/2419483Spooner David M., T. Raul Castillo (1997): Reexamination of Series Relationships of South American Wild Potatoes (Solanaceae: Solanum sect. Petota): Evidence from Chloroplast DNA Restriction Site Variation. American Journal of Botany, 84, 671- https://doi.org/10.2307/2445904Spooner David M., Fajardo Diego, Bryan Glenn J. (2007): Species Limits of Solanum berthaultii Hawkes and S. tarijense Hawkes and the Implications for Species Boundaries in Solanum Sect. Petota. Taxon, 56, 987- https://doi.org/10.2307/25065899Spooner David M., Rodríguez Flor, Polgár Zsolt, Ballard Harvey E., Jansky Shelley H. (2008): Genomic Origins of Potato Polyploids: GBSSI Gene Sequencing Data. Crop Science, 48, S-27- https://doi.org/10.2135/cropsci2007.09.0504tpgTaberlet Pierre, Gielly Ludovic, Pautou Guy, Bouvet Jean (1991): Universal primers for amplification of three non-coding regions of chloroplast DNA. Plant Molecular Biology, 17, 1105-1109 https://doi.org/10.1007/BF00037152Wakasugi T., Sugita M., Tsudzuki T., Sugiura M. (1998): Updated gene map of tobacco chloroplast DNA. Plant Molecular Biology Reporter, 16: 231–241.https://doi.org/10.1023/A:1007564209282von Wettstein D., Poulsen C., Holder A. A. (1978): Ribulose-1,5-bisphosphate carboxylase as a nuclear and chloroplast marker. Theoretical and Applied Genetics, 53, 193-197 https://doi.org/10.1007/BF00277367