Analysis of genetic diversity and population structure in Asparagus species using SSR markers
Abstract Background Various Asparagus species constitute the significant vegetable and medicinal genetic resource throughout the world. Asparagus species serve as important commodity of food and pharmaceutical industries in India. A diverse collection of Asparagus species from different localities o...
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| Format: | Article |
| Language: | English |
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Elsevier
2020-09-01
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| Series: | Journal of Genetic Engineering and Biotechnology |
| Subjects: | |
| Online Access: | http://link.springer.com/article/10.1186/s43141-020-00065-3 |
| _version_ | 1797204809803104256 |
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| author | Manish Kapoor Pooja Mawal Vikas Sharma Raghbir Chand Gupta |
| author_facet | Manish Kapoor Pooja Mawal Vikas Sharma Raghbir Chand Gupta |
| author_sort | Manish Kapoor |
| collection | DOAJ |
| description | Abstract Background Various Asparagus species constitute the significant vegetable and medicinal genetic resource throughout the world. Asparagus species serve as important commodity of food and pharmaceutical industries in India. A diverse collection of Asparagus species from different localities of Northwest India was investigated for its genetic diversity using simple sequence repeat (SSR) markers. Results Polymorphic SSR markers revealed high genetic diversity. Primer SSR-15 amplified maximum of 8 fragments while 3 primers, namely, SSR-43, SSR-63, and AGA1 amplified minimum of 3 fragments. Collectively, 122 alleles were amplified in a range between 3 and 8 with an average of 5 alleles per marker. The size of the amplified alleles ranged between 90 and 680 base pairs. Polymorphism information content (PIC) value varied from a highest value of 0.499 in primer AGA1 to a lowest value of 0.231 in primer SSR-63 with a mean value of 0.376 showing considerable SSR polymorphism. Dendrogram developed on the basis of Jaccard’s similarity coefficient and neighbor-joining tree segregated all the studied Asparagus species into two discrete groups. Structure analysis based on Bayesian clustering allocated different accessions to two independent clusters and exhibited low level of individual admixture. Conclusions The genetic diversity analysis showed a conservative genetic background for maximum species of asparagus. Only Accessions of Asparagus adscendens were split into two diverse clusters suggesting a wide genetic base of this species as compared to other species. Overall genetic diversity was high, and this germplasm of Asparagus can be used in future improvement programs. The findings of current research on Asparagus germplasm can make a momentous contribution to initiatives of interbreeding, conservation, and improvement of Asparagus in future. |
| first_indexed | 2024-04-24T08:41:08Z |
| format | Article |
| id | doaj.art-718d09dd92414447b294aa5c9ac4dec3 |
| institution | Directory Open Access Journal |
| issn | 2090-5920 |
| language | English |
| last_indexed | 2024-04-24T08:41:08Z |
| publishDate | 2020-09-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Journal of Genetic Engineering and Biotechnology |
| spelling | doaj.art-718d09dd92414447b294aa5c9ac4dec32024-04-16T16:06:34ZengElsevierJournal of Genetic Engineering and Biotechnology2090-59202020-09-0118111010.1186/s43141-020-00065-3Analysis of genetic diversity and population structure in Asparagus species using SSR markersManish Kapoor0Pooja Mawal1Vikas Sharma2Raghbir Chand Gupta3Department of Botany, Punjabi University PatialaDepartment of Botany, Punjabi University PatialaDepartment of Botany, Sant Baba Bhag Singh UniversityDepartment of Botany, Punjabi University PatialaAbstract Background Various Asparagus species constitute the significant vegetable and medicinal genetic resource throughout the world. Asparagus species serve as important commodity of food and pharmaceutical industries in India. A diverse collection of Asparagus species from different localities of Northwest India was investigated for its genetic diversity using simple sequence repeat (SSR) markers. Results Polymorphic SSR markers revealed high genetic diversity. Primer SSR-15 amplified maximum of 8 fragments while 3 primers, namely, SSR-43, SSR-63, and AGA1 amplified minimum of 3 fragments. Collectively, 122 alleles were amplified in a range between 3 and 8 with an average of 5 alleles per marker. The size of the amplified alleles ranged between 90 and 680 base pairs. Polymorphism information content (PIC) value varied from a highest value of 0.499 in primer AGA1 to a lowest value of 0.231 in primer SSR-63 with a mean value of 0.376 showing considerable SSR polymorphism. Dendrogram developed on the basis of Jaccard’s similarity coefficient and neighbor-joining tree segregated all the studied Asparagus species into two discrete groups. Structure analysis based on Bayesian clustering allocated different accessions to two independent clusters and exhibited low level of individual admixture. Conclusions The genetic diversity analysis showed a conservative genetic background for maximum species of asparagus. Only Accessions of Asparagus adscendens were split into two diverse clusters suggesting a wide genetic base of this species as compared to other species. Overall genetic diversity was high, and this germplasm of Asparagus can be used in future improvement programs. The findings of current research on Asparagus germplasm can make a momentous contribution to initiatives of interbreeding, conservation, and improvement of Asparagus in future.http://link.springer.com/article/10.1186/s43141-020-00065-3AsparagusSimple sequence repeat (SSR)Genetic diversityPhylogenetic relationship |
| spellingShingle | Manish Kapoor Pooja Mawal Vikas Sharma Raghbir Chand Gupta Analysis of genetic diversity and population structure in Asparagus species using SSR markers Journal of Genetic Engineering and Biotechnology Asparagus Simple sequence repeat (SSR) Genetic diversity Phylogenetic relationship |
| title | Analysis of genetic diversity and population structure in Asparagus species using SSR markers |
| title_full | Analysis of genetic diversity and population structure in Asparagus species using SSR markers |
| title_fullStr | Analysis of genetic diversity and population structure in Asparagus species using SSR markers |
| title_full_unstemmed | Analysis of genetic diversity and population structure in Asparagus species using SSR markers |
| title_short | Analysis of genetic diversity and population structure in Asparagus species using SSR markers |
| title_sort | analysis of genetic diversity and population structure in asparagus species using ssr markers |
| topic | Asparagus Simple sequence repeat (SSR) Genetic diversity Phylogenetic relationship |
| url | http://link.springer.com/article/10.1186/s43141-020-00065-3 |
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