Assessing the Potential for Genome-Assisted Breeding in Red Perilla Using Quantitative Trait Locus Analysis and Genomic Prediction
Red perilla is an important medicinal plant used in Kampo medicine. The development of elite varieties of this species is urgently required. Medicinal compounds are generally considered target traits in medicinal plant breeding; however, selection based on compound phenotypes (i.e., conventional sel...
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| Format: | Article |
| Language: | English |
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MDPI AG
2023-11-01
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| Series: | Genes |
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| Online Access: | https://www.mdpi.com/2073-4425/14/12/2137 |
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| author | Sei Kinoshita Kengo Sakurai Kosuke Hamazaki Takahiro Tsusaka Miki Sakurai Terue Kurosawa Youichi Aoki Kenta Shirasawa Sachiko Isobe Hiroyoshi Iwata |
| author_facet | Sei Kinoshita Kengo Sakurai Kosuke Hamazaki Takahiro Tsusaka Miki Sakurai Terue Kurosawa Youichi Aoki Kenta Shirasawa Sachiko Isobe Hiroyoshi Iwata |
| author_sort | Sei Kinoshita |
| collection | DOAJ |
| description | Red perilla is an important medicinal plant used in Kampo medicine. The development of elite varieties of this species is urgently required. Medicinal compounds are generally considered target traits in medicinal plant breeding; however, selection based on compound phenotypes (i.e., conventional selection) is expensive and time consuming. Here, we propose genomic selection (GS) and marker-assisted selection (MAS), which use marker information for selection, as suitable selection methods for medicinal plants, and we evaluate the effectiveness of these methods in perilla breeding. Three breeding populations generated from crosses between one red and three green perilla genotypes were used to elucidate the genetic mechanisms underlying the production of major medicinal compounds using quantitative trait locus analysis and evaluating the accuracy of genomic prediction (GP). We found that GP had a sufficiently high accuracy for all traits, confirming that GS is an effective method for perilla breeding. Moreover, the three populations showed varying degrees of segregation, suggesting that using these populations in breeding may simultaneously enhance multiple target traits. This study contributes to research on the genetic mechanisms of the major medicinal compounds of red perilla, as well as the breeding efficiency of this medicinal plant. |
| first_indexed | 2024-03-08T20:44:49Z |
| format | Article |
| id | doaj.art-74cae9fada9f499d84d0cbe1011ecbf1 |
| institution | Directory Open Access Journal |
| issn | 2073-4425 |
| language | English |
| last_indexed | 2024-03-08T20:44:49Z |
| publishDate | 2023-11-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Genes |
| spelling | doaj.art-74cae9fada9f499d84d0cbe1011ecbf12023-12-22T14:11:03ZengMDPI AGGenes2073-44252023-11-011412213710.3390/genes14122137Assessing the Potential for Genome-Assisted Breeding in Red Perilla Using Quantitative Trait Locus Analysis and Genomic PredictionSei Kinoshita0Kengo Sakurai1Kosuke Hamazaki2Takahiro Tsusaka3Miki Sakurai4Terue Kurosawa5Youichi Aoki6Kenta Shirasawa7Sachiko Isobe8Hiroyoshi Iwata9Graduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo, Tokyo 113-8657, JapanGraduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo, Tokyo 113-8657, JapanRIKEN Center for Advanced Intelligence Project, Kashiwa, Chiba 227-0871, JapanTSUMURA & CO., Ami, Ibaraki 300-1155, JapanTSUMURA & CO., Ami, Ibaraki 300-1155, JapanTSUMURA & CO., Ami, Ibaraki 300-1155, JapanTSUMURA & CO., Ami, Ibaraki 300-1155, JapanKazusa DNA Research Institute, Kisarazu, Chiba 292-0818, JapanKazusa DNA Research Institute, Kisarazu, Chiba 292-0818, JapanGraduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo, Tokyo 113-8657, JapanRed perilla is an important medicinal plant used in Kampo medicine. The development of elite varieties of this species is urgently required. Medicinal compounds are generally considered target traits in medicinal plant breeding; however, selection based on compound phenotypes (i.e., conventional selection) is expensive and time consuming. Here, we propose genomic selection (GS) and marker-assisted selection (MAS), which use marker information for selection, as suitable selection methods for medicinal plants, and we evaluate the effectiveness of these methods in perilla breeding. Three breeding populations generated from crosses between one red and three green perilla genotypes were used to elucidate the genetic mechanisms underlying the production of major medicinal compounds using quantitative trait locus analysis and evaluating the accuracy of genomic prediction (GP). We found that GP had a sufficiently high accuracy for all traits, confirming that GS is an effective method for perilla breeding. Moreover, the three populations showed varying degrees of segregation, suggesting that using these populations in breeding may simultaneously enhance multiple target traits. This study contributes to research on the genetic mechanisms of the major medicinal compounds of red perilla, as well as the breeding efficiency of this medicinal plant.https://www.mdpi.com/2073-4425/14/12/2137breedinggenomic selectionmedicinal plantsquantitative trait locus analysisred perilla |
| spellingShingle | Sei Kinoshita Kengo Sakurai Kosuke Hamazaki Takahiro Tsusaka Miki Sakurai Terue Kurosawa Youichi Aoki Kenta Shirasawa Sachiko Isobe Hiroyoshi Iwata Assessing the Potential for Genome-Assisted Breeding in Red Perilla Using Quantitative Trait Locus Analysis and Genomic Prediction Genes breeding genomic selection medicinal plants quantitative trait locus analysis red perilla |
| title | Assessing the Potential for Genome-Assisted Breeding in Red Perilla Using Quantitative Trait Locus Analysis and Genomic Prediction |
| title_full | Assessing the Potential for Genome-Assisted Breeding in Red Perilla Using Quantitative Trait Locus Analysis and Genomic Prediction |
| title_fullStr | Assessing the Potential for Genome-Assisted Breeding in Red Perilla Using Quantitative Trait Locus Analysis and Genomic Prediction |
| title_full_unstemmed | Assessing the Potential for Genome-Assisted Breeding in Red Perilla Using Quantitative Trait Locus Analysis and Genomic Prediction |
| title_short | Assessing the Potential for Genome-Assisted Breeding in Red Perilla Using Quantitative Trait Locus Analysis and Genomic Prediction |
| title_sort | assessing the potential for genome assisted breeding in red perilla using quantitative trait locus analysis and genomic prediction |
| topic | breeding genomic selection medicinal plants quantitative trait locus analysis red perilla |
| url | https://www.mdpi.com/2073-4425/14/12/2137 |
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