Fingerprinting, structure, and genetic relationships among selected accessions of blue honeysuckle (Lonicera caerulea L.) from European collections
Due to its value and economic importance, the genome of Lonicera caerulea L. has been widely studied in various fields of science. In this study the genetic structure and relationships between 24 accessions of L. caerulea of different origins were assessed. A total of 692, 814, and 258 loci were amp...
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| Format: | Article |
| Language: | English |
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Elsevier
2022-06-01
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| Series: | Biotechnology Reports |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2215017X22000212 |
| _version_ | 1818007581712449536 |
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| author | Miłosz Smolik Ireneusz Ochmian Aleksandra Bobrowska-Chwat Gerard Chwat Liina Arus Piotr Banaszczak Jan Bocianowski Paweł Milczarski Krystyna Ostrowska |
| author_facet | Miłosz Smolik Ireneusz Ochmian Aleksandra Bobrowska-Chwat Gerard Chwat Liina Arus Piotr Banaszczak Jan Bocianowski Paweł Milczarski Krystyna Ostrowska |
| author_sort | Miłosz Smolik |
| collection | DOAJ |
| description | Due to its value and economic importance, the genome of Lonicera caerulea L. has been widely studied in various fields of science. In this study the genetic structure and relationships between 24 accessions of L. caerulea of different origins were assessed. A total of 692, 814, and 258 loci were amplified using 43 RAPD (random amplified polymorphic DNA), 40 ISSR (intersimple sequence repeat), and 20 R-ISSR (RAPD+ISSR) primers, respectively. Among the amplified loci, 66–78% were polymorphic and 12–20% were private. Selected R-ISSR sequences were detected in Lonicera japonica transcripts. Cluster and STRUCTURE analyses performed for each of the techniques revealed the existing differences and unknown similarities between the genotypes. The r-factor values calculated in the Mantel test indicated highly significant positive correlations between the Nei distance matrices, similar to the FST values (FST_RAPD = 0.223, FST_ISSR = 0.279, FST_R-ISSR = 0.363) determined in the analysis of molecular variance. It was found that 78%, 72%, and 64% of the genetic variations were related to the differences observed within the populations, which suggest that the variations are mainly reflected in the differences among the genotypes. The principal coordinate analysis showed greater differences between the mean distances of the Lonicera genotype pair and the actual distances of the same pairs on the Nei matrix compared to multidimensional scaling. These differences were 45%, 56%, and 42% higher for RAPD, ISSR and R-ISSR, respectively. |
| first_indexed | 2024-04-14T05:18:25Z |
| format | Article |
| id | doaj.art-66bff982d3084216b7b3eef82dd6fb43 |
| institution | Directory Open Access Journal |
| issn | 2215-017X |
| language | English |
| last_indexed | 2024-04-14T05:18:25Z |
| publishDate | 2022-06-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Biotechnology Reports |
| spelling | doaj.art-66bff982d3084216b7b3eef82dd6fb432022-12-22T02:10:18ZengElsevierBiotechnology Reports2215-017X2022-06-0134e00721Fingerprinting, structure, and genetic relationships among selected accessions of blue honeysuckle (Lonicera caerulea L.) from European collectionsMiłosz Smolik0Ireneusz Ochmian1Aleksandra Bobrowska-Chwat2Gerard Chwat3Liina Arus4Piotr Banaszczak5Jan Bocianowski6Paweł Milczarski7Krystyna Ostrowska8Department of Plant Genetics, Breeding and Biotechnology, West Pomeranian University of Technology in Szczecin, Słowackiego 17, 71-434 Szczecin, Poland; Corresponding author.Department of Horticulture, West Pomeranian University of Technology in Szczecin, Słowackiego 17, 71-434 Szczecin, PolandDepartment of Plant Genetics, Breeding and Biotechnology, West Pomeranian University of Technology in Szczecin, Słowackiego 17, 71-434 Szczecin, PolandDepartment of Plant Protection, West Pomeranian University of Technology in Szczecin, Słowackiego 17, 71-434 Szczecin, PolandPolli Horticultural Research Centre, Institute of Agricultural and Environmental Sciences, Estonian University of Life Sciences, Kreutzwaldi 1a, 51006 Tartu, EstoniaArboretum SGGW, Rogów Forestry Experimental Station, Warsaw University of Life Science – SGGW, Leśna 5b, 95-063 Rogów, PolandDepartment of Mathematical and Statistical Methods, Poznan University of Life Sciences, Wojska Polskiego 28, 60-637 Poznań, PolandDepartment of Plant Genetics, Breeding and Biotechnology, West Pomeranian University of Technology in Szczecin, Słowackiego 17, 71-434 Szczecin, PolandDepartment of Horticulture, West Pomeranian University of Technology in Szczecin, Słowackiego 17, 71-434 Szczecin, PolandDue to its value and economic importance, the genome of Lonicera caerulea L. has been widely studied in various fields of science. In this study the genetic structure and relationships between 24 accessions of L. caerulea of different origins were assessed. A total of 692, 814, and 258 loci were amplified using 43 RAPD (random amplified polymorphic DNA), 40 ISSR (intersimple sequence repeat), and 20 R-ISSR (RAPD+ISSR) primers, respectively. Among the amplified loci, 66–78% were polymorphic and 12–20% were private. Selected R-ISSR sequences were detected in Lonicera japonica transcripts. Cluster and STRUCTURE analyses performed for each of the techniques revealed the existing differences and unknown similarities between the genotypes. The r-factor values calculated in the Mantel test indicated highly significant positive correlations between the Nei distance matrices, similar to the FST values (FST_RAPD = 0.223, FST_ISSR = 0.279, FST_R-ISSR = 0.363) determined in the analysis of molecular variance. It was found that 78%, 72%, and 64% of the genetic variations were related to the differences observed within the populations, which suggest that the variations are mainly reflected in the differences among the genotypes. The principal coordinate analysis showed greater differences between the mean distances of the Lonicera genotype pair and the actual distances of the same pairs on the Nei matrix compared to multidimensional scaling. These differences were 45%, 56%, and 42% higher for RAPD, ISSR and R-ISSR, respectively.http://www.sciencedirect.com/science/article/pii/S2215017X22000212LoniceraR-ISSRNew molecular markersSTRUCTUREMDSPCoA |
| spellingShingle | Miłosz Smolik Ireneusz Ochmian Aleksandra Bobrowska-Chwat Gerard Chwat Liina Arus Piotr Banaszczak Jan Bocianowski Paweł Milczarski Krystyna Ostrowska Fingerprinting, structure, and genetic relationships among selected accessions of blue honeysuckle (Lonicera caerulea L.) from European collections Biotechnology Reports Lonicera R-ISSR New molecular markers STRUCTURE MDS PCoA |
| title | Fingerprinting, structure, and genetic relationships among selected accessions of blue honeysuckle (Lonicera caerulea L.) from European collections |
| title_full | Fingerprinting, structure, and genetic relationships among selected accessions of blue honeysuckle (Lonicera caerulea L.) from European collections |
| title_fullStr | Fingerprinting, structure, and genetic relationships among selected accessions of blue honeysuckle (Lonicera caerulea L.) from European collections |
| title_full_unstemmed | Fingerprinting, structure, and genetic relationships among selected accessions of blue honeysuckle (Lonicera caerulea L.) from European collections |
| title_short | Fingerprinting, structure, and genetic relationships among selected accessions of blue honeysuckle (Lonicera caerulea L.) from European collections |
| title_sort | fingerprinting structure and genetic relationships among selected accessions of blue honeysuckle lonicera caerulea l from european collections |
| topic | Lonicera R-ISSR New molecular markers STRUCTURE MDS PCoA |
| url | http://www.sciencedirect.com/science/article/pii/S2215017X22000212 |
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