Genetic divergence in Tunisian castor bean genotypes based on trap markers
In the present study, the representatives of the genus Ricinus communis collected from 12 different parts of Tunisia were differentiated by the DNA fingerprinting patterns using 30 TRAP primers. The efficacy of the TRAP technique in this study is further supported by the obtained PIC values of the p...
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HACCP Consulting
2020-07-01
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| Series: | Potravinarstvo |
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| Online Access: | https://potravinarstvo.com/journal1/index.php/potravinarstvo/article/view/1292 |
| _version_ | 1818340256829669376 |
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| author | Martin Vivodík Zdenka Gálová Želmíra Balážová |
| author_facet | Martin Vivodík Zdenka Gálová Želmíra Balážová |
| author_sort | Martin Vivodík |
| collection | DOAJ |
| description | In the present study, the representatives of the genus Ricinus communis collected from 12 different parts of Tunisia were differentiated by the DNA fingerprinting patterns using 30 TRAP primers. The efficacy of the TRAP technique in this study is further supported by the obtained PIC values of the primers used in the analysis. PCR amplification of DNA using
30 primers for TRAP analysis produced 490 DNA fragments that could be scored in all 56 genotypes of Tunisian castor. The number of amplified fragments varied from 3 (TRAP 04 x arb 1, TRAP 22 x arb 3 and TRAP 23 x arb 3) to 13 (TRAP 56 x arb 2), and the amplicon size ranged from 100 to 1600 bp. Of the 490 amplified bands, 377 were polymorphic, with an average of 5.71 polymorphic bands per primer. To determine the level of polymorphism in the analysed group of Tunisian castor genotypes polymorphic information content (PIC) was calculated. The lowest values of polymorphic information content were recorded for TRAP 10 x arb 1 (0.555) and the highest PIC values were detected for TRAP 44 x arb 2 (0.961) with an average of 0.770. A dendrogram was constructed from a genetic distance matrix based on profiles of the 30 TRAP primers using the unweighted pair-group method with the arithmetic average (UPGMA). According to analysis, the collection of 56 Tunisian castor genotypes were clustered into five main clusters. Moreover, functional TRAP markers would be efficiently useful in genetic studies for castor genetic improvement. |
| first_indexed | 2024-12-13T15:40:01Z |
| format | Article |
| id | doaj.art-a6ac98f54d334fd5933abe31c8636596 |
| institution | Directory Open Access Journal |
| issn | 1337-0960 |
| language | English |
| last_indexed | 2024-12-13T15:40:01Z |
| publishDate | 2020-07-01 |
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| series | Potravinarstvo |
| spelling | doaj.art-a6ac98f54d334fd5933abe31c86365962022-12-21T23:39:51ZengHACCP ConsultingPotravinarstvo1337-09602020-07-011451051810.5219/1292937Genetic divergence in Tunisian castor bean genotypes based on trap markersMartin Vivodík0https://orcid.org/0000-0001-6265-1616Zdenka Gálová1https://orcid.org/0000-0002-0349-4363Želmíra Balážová2https://orcid.org/0000-0002-6093-3908Slovak University of Agriculture, Faculty of Biotechnology and Food Sciences, Department of Biochemistry and Biotechnology, Tr. A. Hlinku 2, 949 76 Nitra, Slovakia, Tel.: +421 37 641 4269Slovak University of Agriculture, Faculty of Biotechnology and Food Sciences, Department of Biochemistry and Biotechnology, Tr. A. Hlinku 2, 949 76 Nitra, Slovakia, Tel.: +421 37 641 4596Slovak University of Agriculture, Faculty of Biotechnology and Food Sciences, Department of Biochemistry and Biotechnology, Tr. A. Hlinku 2, 949 76 Nitra, Slovakia, Tel.: +421 37 641 4327In the present study, the representatives of the genus Ricinus communis collected from 12 different parts of Tunisia were differentiated by the DNA fingerprinting patterns using 30 TRAP primers. The efficacy of the TRAP technique in this study is further supported by the obtained PIC values of the primers used in the analysis. PCR amplification of DNA using 30 primers for TRAP analysis produced 490 DNA fragments that could be scored in all 56 genotypes of Tunisian castor. The number of amplified fragments varied from 3 (TRAP 04 x arb 1, TRAP 22 x arb 3 and TRAP 23 x arb 3) to 13 (TRAP 56 x arb 2), and the amplicon size ranged from 100 to 1600 bp. Of the 490 amplified bands, 377 were polymorphic, with an average of 5.71 polymorphic bands per primer. To determine the level of polymorphism in the analysed group of Tunisian castor genotypes polymorphic information content (PIC) was calculated. The lowest values of polymorphic information content were recorded for TRAP 10 x arb 1 (0.555) and the highest PIC values were detected for TRAP 44 x arb 2 (0.961) with an average of 0.770. A dendrogram was constructed from a genetic distance matrix based on profiles of the 30 TRAP primers using the unweighted pair-group method with the arithmetic average (UPGMA). According to analysis, the collection of 56 Tunisian castor genotypes were clustered into five main clusters. Moreover, functional TRAP markers would be efficiently useful in genetic studies for castor genetic improvement.https://potravinarstvo.com/journal1/index.php/potravinarstvo/article/view/1292castordnadendrogrampcrpic |
| spellingShingle | Martin Vivodík Zdenka Gálová Želmíra Balážová Genetic divergence in Tunisian castor bean genotypes based on trap markers Potravinarstvo castor dna dendrogram pcr pic |
| title | Genetic divergence in Tunisian castor bean genotypes based on trap markers |
| title_full | Genetic divergence in Tunisian castor bean genotypes based on trap markers |
| title_fullStr | Genetic divergence in Tunisian castor bean genotypes based on trap markers |
| title_full_unstemmed | Genetic divergence in Tunisian castor bean genotypes based on trap markers |
| title_short | Genetic divergence in Tunisian castor bean genotypes based on trap markers |
| title_sort | genetic divergence in tunisian castor bean genotypes based on trap markers |
| topic | castor dna dendrogram pcr pic |
| url | https://potravinarstvo.com/journal1/index.php/potravinarstvo/article/view/1292 |
| work_keys_str_mv | AT martinvivodik geneticdivergenceintunisiancastorbeangenotypesbasedontrapmarkers AT zdenkagalova geneticdivergenceintunisiancastorbeangenotypesbasedontrapmarkers AT zelmirabalazova geneticdivergenceintunisiancastorbeangenotypesbasedontrapmarkers |