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A new insight on genetic diversity of sweet oranges: CAPs-SSR and SSR markers
BACKGROUND: Citrus species are among the most important and widely consumed fruit trees in the world and are subjected to increasing global cultivation. Sweet orange (Citrus sinensis L. Osbeck) is one of 30 species of citrus which is cultivated in different regions of Iran. In this study, 80 trees o...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Springer Berlin Heidelberg
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9283602/ https://www.ncbi.nlm.nih.gov/pubmed/35834018 http://dx.doi.org/10.1186/s43141-022-00393-6 |
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author | Shahnazari, Narineh Noormohammadi, Zahra Sheidai, Masoud Koohdar, Fahimeh |
author_facet | Shahnazari, Narineh Noormohammadi, Zahra Sheidai, Masoud Koohdar, Fahimeh |
author_sort | Shahnazari, Narineh |
collection | PubMed |
description | BACKGROUND: Citrus species are among the most important and widely consumed fruit trees in the world and are subjected to increasing global cultivation. Sweet orange (Citrus sinensis L. Osbeck) is one of 30 species of citrus which is cultivated in different regions of Iran. In this study, 80 trees of 13 sweet orange cultivars of Mazandaran province were studied for genetic diversity and fingerprinting by five short simple repeat (SSR) marker. RESULTS: The studied cultivars showed a high degree of genetic variability with an average genetic polymorphism of 98.46%. Behshahr and Jadeh Ghadim2 genotypes had the highest and lowest values in Nei genetic diversity, number of effective alleles, and Shannon index, respectively. Based on k-means clustering, the studied genotypes were divided into two main different groups. The high magnitude of genetic similarity between replicates of different cultivars indicated a potential case of homonymy or synonymy. DAPC analysis showed genetic admixture among some of the cultivars. The heatmap plot illustrated the alleles involved in cultivar differentiation. The CAPs analysis of monomorphic alleles of SSR loci indicated that these alleles differ in their sequences which add up to the genetic variability of citrus germplasm. CONCLUSION: In general, SSR markers, due to their codominant nature and abundance in genome, are a good indicator for cultivar fingerprinting and hybrid prediction in orange cultivars. The present results showed the high diversity of sweet orange trees in different cultivars in the north of the country. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s43141-022-00393-6. |
format | Online Article Text |
id | pubmed-9283602 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Springer Berlin Heidelberg |
record_format | MEDLINE/PubMed |
spelling | pubmed-92836022022-08-02 A new insight on genetic diversity of sweet oranges: CAPs-SSR and SSR markers Shahnazari, Narineh Noormohammadi, Zahra Sheidai, Masoud Koohdar, Fahimeh J Genet Eng Biotechnol Research BACKGROUND: Citrus species are among the most important and widely consumed fruit trees in the world and are subjected to increasing global cultivation. Sweet orange (Citrus sinensis L. Osbeck) is one of 30 species of citrus which is cultivated in different regions of Iran. In this study, 80 trees of 13 sweet orange cultivars of Mazandaran province were studied for genetic diversity and fingerprinting by five short simple repeat (SSR) marker. RESULTS: The studied cultivars showed a high degree of genetic variability with an average genetic polymorphism of 98.46%. Behshahr and Jadeh Ghadim2 genotypes had the highest and lowest values in Nei genetic diversity, number of effective alleles, and Shannon index, respectively. Based on k-means clustering, the studied genotypes were divided into two main different groups. The high magnitude of genetic similarity between replicates of different cultivars indicated a potential case of homonymy or synonymy. DAPC analysis showed genetic admixture among some of the cultivars. The heatmap plot illustrated the alleles involved in cultivar differentiation. The CAPs analysis of monomorphic alleles of SSR loci indicated that these alleles differ in their sequences which add up to the genetic variability of citrus germplasm. CONCLUSION: In general, SSR markers, due to their codominant nature and abundance in genome, are a good indicator for cultivar fingerprinting and hybrid prediction in orange cultivars. The present results showed the high diversity of sweet orange trees in different cultivars in the north of the country. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s43141-022-00393-6. Springer Berlin Heidelberg 2022-07-14 /pmc/articles/PMC9283602/ /pubmed/35834018 http://dx.doi.org/10.1186/s43141-022-00393-6 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . |
spellingShingle | Research Shahnazari, Narineh Noormohammadi, Zahra Sheidai, Masoud Koohdar, Fahimeh A new insight on genetic diversity of sweet oranges: CAPs-SSR and SSR markers |
title | A new insight on genetic diversity of sweet oranges: CAPs-SSR and SSR markers |
title_full | A new insight on genetic diversity of sweet oranges: CAPs-SSR and SSR markers |
title_fullStr | A new insight on genetic diversity of sweet oranges: CAPs-SSR and SSR markers |
title_full_unstemmed | A new insight on genetic diversity of sweet oranges: CAPs-SSR and SSR markers |
title_short | A new insight on genetic diversity of sweet oranges: CAPs-SSR and SSR markers |
title_sort | new insight on genetic diversity of sweet oranges: caps-ssr and ssr markers |
topic | Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9283602/ https://www.ncbi.nlm.nih.gov/pubmed/35834018 http://dx.doi.org/10.1186/s43141-022-00393-6 |
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