A New Set of SSR Markers Combined in One Reaction for Efficient Genotyping of the Hexaploid European Plum (<i>Prunus domestica</i> L.)
The European plum (<i>Prunus domestica</i> L.) is a hexaploid species that is grown worldwide for its tasty fruits. Many pomological forms and varieties exist, and thus it is important for genebank curators, breeders, growers, and/or control authorities to distinguish them with certainty...
Saved in:
| Main Authors: | , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2025-07-01
|
| Series: | Plants |
| Subjects: | |
| Online Access: | https://www.mdpi.com/2223-7747/14/15/2281 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1849239499071029248 |
|---|---|
| author | Jana Čmejlová Kamila Pluhařová Boris Krška Radek Čmejla |
| author_facet | Jana Čmejlová Kamila Pluhařová Boris Krška Radek Čmejla |
| author_sort | Jana Čmejlová |
| collection | DOAJ |
| description | The European plum (<i>Prunus domestica</i> L.) is a hexaploid species that is grown worldwide for its tasty fruits. Many pomological forms and varieties exist, and thus it is important for genebank curators, breeders, growers, and/or control authorities to distinguish them with certainty. The purpose of this study was to select and verify a set of simple sequence repeat (SSR) markers for reliable genotyping, and to optimize their use in a one-reaction format for easy routine practice. After testing 78 SSR markers from different diploid <i>Prunus</i> species, 8 SSR markers were selected, multiplexed, and successfully verified as being able to distinguish all 242 unique genotypes tested. The selected markers were relatively easily scored and highly heterogenic, giving more than 35 alleles/genotype on average. The allele atlas was created to become a valuable tool for allele calling that should lead to standardized and reliable genotyping results between laboratories. The population analysis confirmed high diversity of the Czech germplasm collection used. The kit was also successfully tested for diploid “plums” of various origins and interspecies hybrids, as these are sometimes phenotypically indistinguishable from hexaploid European plums. The one-tube approach substantially simplified the plum genotyping laboratory workflow, minimizes errors, and saves labor, time, and money. |
| format | Article |
| id | doaj-art-499a37c7730f42d28bc9dad8d7cd408b |
| institution | Kabale University |
| issn | 2223-7747 |
| language | English |
| publishDate | 2025-07-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Plants |
| spelling | doaj-art-499a37c7730f42d28bc9dad8d7cd408b2025-08-20T04:00:55ZengMDPI AGPlants2223-77472025-07-011415228110.3390/plants14152281A New Set of SSR Markers Combined in One Reaction for Efficient Genotyping of the Hexaploid European Plum (<i>Prunus domestica</i> L.)Jana Čmejlová0Kamila Pluhařová1Boris Krška2Radek Čmejla3Research and Breeding Institute of Pomology Holovousy Ltd., Holovousy 129, 508 01 Holovousy, Czech RepublicResearch and Breeding Institute of Pomology Holovousy Ltd., Holovousy 129, 508 01 Holovousy, Czech RepublicResearch and Breeding Institute of Pomology Holovousy Ltd., Holovousy 129, 508 01 Holovousy, Czech RepublicResearch and Breeding Institute of Pomology Holovousy Ltd., Holovousy 129, 508 01 Holovousy, Czech RepublicThe European plum (<i>Prunus domestica</i> L.) is a hexaploid species that is grown worldwide for its tasty fruits. Many pomological forms and varieties exist, and thus it is important for genebank curators, breeders, growers, and/or control authorities to distinguish them with certainty. The purpose of this study was to select and verify a set of simple sequence repeat (SSR) markers for reliable genotyping, and to optimize their use in a one-reaction format for easy routine practice. After testing 78 SSR markers from different diploid <i>Prunus</i> species, 8 SSR markers were selected, multiplexed, and successfully verified as being able to distinguish all 242 unique genotypes tested. The selected markers were relatively easily scored and highly heterogenic, giving more than 35 alleles/genotype on average. The allele atlas was created to become a valuable tool for allele calling that should lead to standardized and reliable genotyping results between laboratories. The population analysis confirmed high diversity of the Czech germplasm collection used. The kit was also successfully tested for diploid “plums” of various origins and interspecies hybrids, as these are sometimes phenotypically indistinguishable from hexaploid European plums. The one-tube approach substantially simplified the plum genotyping laboratory workflow, minimizes errors, and saves labor, time, and money.https://www.mdpi.com/2223-7747/14/15/2281European plum<i>Prunus domestica</i> L.SSR markergenotypingfragment analysis |
| spellingShingle | Jana Čmejlová Kamila Pluhařová Boris Krška Radek Čmejla A New Set of SSR Markers Combined in One Reaction for Efficient Genotyping of the Hexaploid European Plum (<i>Prunus domestica</i> L.) Plants European plum <i>Prunus domestica</i> L. SSR marker genotyping fragment analysis |
| title | A New Set of SSR Markers Combined in One Reaction for Efficient Genotyping of the Hexaploid European Plum (<i>Prunus domestica</i> L.) |
| title_full | A New Set of SSR Markers Combined in One Reaction for Efficient Genotyping of the Hexaploid European Plum (<i>Prunus domestica</i> L.) |
| title_fullStr | A New Set of SSR Markers Combined in One Reaction for Efficient Genotyping of the Hexaploid European Plum (<i>Prunus domestica</i> L.) |
| title_full_unstemmed | A New Set of SSR Markers Combined in One Reaction for Efficient Genotyping of the Hexaploid European Plum (<i>Prunus domestica</i> L.) |
| title_short | A New Set of SSR Markers Combined in One Reaction for Efficient Genotyping of the Hexaploid European Plum (<i>Prunus domestica</i> L.) |
| title_sort | new set of ssr markers combined in one reaction for efficient genotyping of the hexaploid european plum i prunus domestica i l |
| topic | European plum <i>Prunus domestica</i> L. SSR marker genotyping fragment analysis |
| url | https://www.mdpi.com/2223-7747/14/15/2281 |
| work_keys_str_mv | AT janacmejlova anewsetofssrmarkerscombinedinonereactionforefficientgenotypingofthehexaploideuropeanplumiprunusdomesticail AT kamilapluharova anewsetofssrmarkerscombinedinonereactionforefficientgenotypingofthehexaploideuropeanplumiprunusdomesticail AT boriskrska anewsetofssrmarkerscombinedinonereactionforefficientgenotypingofthehexaploideuropeanplumiprunusdomesticail AT radekcmejla anewsetofssrmarkerscombinedinonereactionforefficientgenotypingofthehexaploideuropeanplumiprunusdomesticail AT janacmejlova newsetofssrmarkerscombinedinonereactionforefficientgenotypingofthehexaploideuropeanplumiprunusdomesticail AT kamilapluharova newsetofssrmarkerscombinedinonereactionforefficientgenotypingofthehexaploideuropeanplumiprunusdomesticail AT boriskrska newsetofssrmarkerscombinedinonereactionforefficientgenotypingofthehexaploideuropeanplumiprunusdomesticail AT radekcmejla newsetofssrmarkerscombinedinonereactionforefficientgenotypingofthehexaploideuropeanplumiprunusdomesticail |