Phylogenetic analysis of Colchicum (Colchicaceae) genus by molecular markers from nuclear and chloroplast genome
We evaluated the patterns of genetic variation of 16 Colchicum species, including 37 different genotypes, using RAPD marker and trnL–trnF chloroplast DNA sequence. A total of 861 polymorphic alleles through RAPDs showed a mean of 33.88 ± 3.80 alleles per primer, while mean major allele frequency w...
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| Format: | Article |
| Language: | English |
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University of Sarajevo, Institute for Genetic Engineering and Biotechnology
2022-06-01
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| Series: | Genetics & Applications |
| Subjects: | |
| Online Access: | https://genapp.ba/editions/index.php/journal/article/view/66 |
| _version_ | 1811185780407664640 |
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| author | Abdurrahman Umut Tüyel Ezgi Çabuk Şahin Funda Şentürk Akfirat Yıldız Aydin Ahu Altınkut Uncuoğlu |
| author_facet | Abdurrahman Umut Tüyel Ezgi Çabuk Şahin Funda Şentürk Akfirat Yıldız Aydin Ahu Altınkut Uncuoğlu |
| author_sort | Abdurrahman Umut Tüyel |
| collection | DOAJ |
| description |
We evaluated the patterns of genetic variation of 16 Colchicum species, including 37 different genotypes, using RAPD marker and trnL–trnF chloroplast DNA sequence. A total of 861 polymorphic alleles through RAPDs showed a mean of 33.88 ± 3.80 alleles per primer, while mean major allele frequency was 0.067 ± 0.05. The sequence length of trnL–trnF ranged from 1022 bp to 1081 bp. The phylogenetic tree was constructed to understand the relationship between Colchicum species and the discrimination power of the nuclear and chloroplast genome for species. The results showed that trnL–trnF gene region grouped Colchicum species well in comparison with RAPD analysis. This data was also supported by haplotype network analysis, structure analysis and PCA (Principle Component Analysis). This study showed that there is a need for a characterization that contains more molecular and morphological methods to correctly distinguish Colchicum species.
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| first_indexed | 2024-04-11T13:36:08Z |
| format | Article |
| id | doaj.art-14d4196bb5ae4b88916d925b0a035d37 |
| institution | Directory Open Access Journal |
| issn | 2566-2937 2566-431X |
| language | English |
| last_indexed | 2024-04-11T13:36:08Z |
| publishDate | 2022-06-01 |
| publisher | University of Sarajevo, Institute for Genetic Engineering and Biotechnology |
| record_format | Article |
| series | Genetics & Applications |
| spelling | doaj.art-14d4196bb5ae4b88916d925b0a035d372022-12-22T04:21:29ZengUniversity of Sarajevo, Institute for Genetic Engineering and BiotechnologyGenetics & Applications2566-29372566-431X2022-06-014110.31383/ga.vol4iss1pp1-11Phylogenetic analysis of Colchicum (Colchicaceae) genus by molecular markers from nuclear and chloroplast genomeAbdurrahman Umut Tüyel0Ezgi Çabuk Şahin1Funda Şentürk Akfirat2Yıldız Aydin3Ahu Altınkut Uncuoğlu4Department of Biomedical Engineering, Beykent University, Istanbul, Turkey; Marmara University, Faculty of Engineering, Department of Bioengineering, Göztepe Campus, 34722, Istanbul, TurkeyMarmara University, Faculty of Science and Art, Department of Biology, 34722, Istanbul, TurkeyGebze Technical University, Faculty of Basic Sciences, Department of Molecular Biology and Genetics, 41400, Gebze, Kocaeli, TurkeyMarmara University, Faculty of Science and Art, Department of Biology, 34722, Istanbul, TurkeyMarmara University, Faculty of Engineering, Department of Bioengineering, Göztepe Campus, 34722, Istanbul, Turkey We evaluated the patterns of genetic variation of 16 Colchicum species, including 37 different genotypes, using RAPD marker and trnL–trnF chloroplast DNA sequence. A total of 861 polymorphic alleles through RAPDs showed a mean of 33.88 ± 3.80 alleles per primer, while mean major allele frequency was 0.067 ± 0.05. The sequence length of trnL–trnF ranged from 1022 bp to 1081 bp. The phylogenetic tree was constructed to understand the relationship between Colchicum species and the discrimination power of the nuclear and chloroplast genome for species. The results showed that trnL–trnF gene region grouped Colchicum species well in comparison with RAPD analysis. This data was also supported by haplotype network analysis, structure analysis and PCA (Principle Component Analysis). This study showed that there is a need for a characterization that contains more molecular and morphological methods to correctly distinguish Colchicum species. https://genapp.ba/editions/index.php/journal/article/view/66Chloroplast genomeColchicum L.genetic diversityRAPD |
| spellingShingle | Abdurrahman Umut Tüyel Ezgi Çabuk Şahin Funda Şentürk Akfirat Yıldız Aydin Ahu Altınkut Uncuoğlu Phylogenetic analysis of Colchicum (Colchicaceae) genus by molecular markers from nuclear and chloroplast genome Genetics & Applications Chloroplast genome Colchicum L. genetic diversity RAPD |
| title | Phylogenetic analysis of Colchicum (Colchicaceae) genus by molecular markers from nuclear and chloroplast genome |
| title_full | Phylogenetic analysis of Colchicum (Colchicaceae) genus by molecular markers from nuclear and chloroplast genome |
| title_fullStr | Phylogenetic analysis of Colchicum (Colchicaceae) genus by molecular markers from nuclear and chloroplast genome |
| title_full_unstemmed | Phylogenetic analysis of Colchicum (Colchicaceae) genus by molecular markers from nuclear and chloroplast genome |
| title_short | Phylogenetic analysis of Colchicum (Colchicaceae) genus by molecular markers from nuclear and chloroplast genome |
| title_sort | phylogenetic analysis of colchicum colchicaceae genus by molecular markers from nuclear and chloroplast genome |
| topic | Chloroplast genome Colchicum L. genetic diversity RAPD |
| url | https://genapp.ba/editions/index.php/journal/article/view/66 |
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