A novel statistical method for assessing SSR variation in autotetraploid alfalfa (Medicago sativa L.)
The level of variation of simple sequence repeat (SSR) markers in cultivated alfalfa from American, Australian and Chinese sources was evaluated using a novel autotetraploid statistical method to calculate the effective number of alleles, the allele frequencies and heterozygosity. We used 19 SSR pri...
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| Format: | Article |
| Language: | English |
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Sociedade Brasileira de Genética
2007-03-01
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| Series: | Genetics and Molecular Biology |
| Subjects: | |
| Online Access: | http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572007000300015 |
| _version_ | 1818042469996036096 |
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| author | Zhi-Peng Liu Gong-She Liu Qing-Chuan Yang |
| author_facet | Zhi-Peng Liu Gong-She Liu Qing-Chuan Yang |
| author_sort | Zhi-Peng Liu |
| collection | DOAJ |
| description | The level of variation of simple sequence repeat (SSR) markers in cultivated alfalfa from American, Australian and Chinese sources was evaluated using a novel autotetraploid statistical method to calculate the effective number of alleles, the allele frequencies and heterozygosity. We used 19 SSR primers to screen seven polymorphic SSR loci in 320 plants from eight populations. The genetic distance and phylogenetic analysis (DISPAN) program was used to calculate the inter- and intra-population genetic relationships using the conventional binary absence/presence (0/1) method and our novel autotetraploid method. The autotetraploid method resulted in significantly higher heterozygosity (p < 0.01), average effective number (p < 0.01) and lower standard genetic distance (p < 0.01) than the binary method. Our results suggest that our new autotetraploid method is a very useful tool for assessing genetic variation and genetic relationships in all autotetraploid plant species. |
| first_indexed | 2024-12-10T08:46:49Z |
| format | Article |
| id | doaj.art-eb703741c2a04282967f804e67af952d |
| institution | Directory Open Access Journal |
| issn | 1415-4757 1678-4685 |
| language | English |
| last_indexed | 2024-12-10T08:46:49Z |
| publishDate | 2007-03-01 |
| publisher | Sociedade Brasileira de Genética |
| record_format | Article |
| series | Genetics and Molecular Biology |
| spelling | doaj.art-eb703741c2a04282967f804e67af952d2022-12-22T01:55:43ZengSociedade Brasileira de GenéticaGenetics and Molecular Biology1415-47571678-46852007-03-0130238539110.1590/S1415-47572007000300015A novel statistical method for assessing SSR variation in autotetraploid alfalfa (Medicago sativa L.)Zhi-Peng LiuGong-She LiuQing-Chuan YangThe level of variation of simple sequence repeat (SSR) markers in cultivated alfalfa from American, Australian and Chinese sources was evaluated using a novel autotetraploid statistical method to calculate the effective number of alleles, the allele frequencies and heterozygosity. We used 19 SSR primers to screen seven polymorphic SSR loci in 320 plants from eight populations. The genetic distance and phylogenetic analysis (DISPAN) program was used to calculate the inter- and intra-population genetic relationships using the conventional binary absence/presence (0/1) method and our novel autotetraploid method. The autotetraploid method resulted in significantly higher heterozygosity (p < 0.01), average effective number (p < 0.01) and lower standard genetic distance (p < 0.01) than the binary method. Our results suggest that our new autotetraploid method is a very useful tool for assessing genetic variation and genetic relationships in all autotetraploid plant species.http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572007000300015autotetraploidgenetic variationMedicago sativa L.SSRstatistical genetics |
| spellingShingle | Zhi-Peng Liu Gong-She Liu Qing-Chuan Yang A novel statistical method for assessing SSR variation in autotetraploid alfalfa (Medicago sativa L.) Genetics and Molecular Biology autotetraploid genetic variation Medicago sativa L. SSR statistical genetics |
| title | A novel statistical method for assessing SSR variation in autotetraploid alfalfa (Medicago sativa L.) |
| title_full | A novel statistical method for assessing SSR variation in autotetraploid alfalfa (Medicago sativa L.) |
| title_fullStr | A novel statistical method for assessing SSR variation in autotetraploid alfalfa (Medicago sativa L.) |
| title_full_unstemmed | A novel statistical method for assessing SSR variation in autotetraploid alfalfa (Medicago sativa L.) |
| title_short | A novel statistical method for assessing SSR variation in autotetraploid alfalfa (Medicago sativa L.) |
| title_sort | novel statistical method for assessing ssr variation in autotetraploid alfalfa medicago sativa l |
| topic | autotetraploid genetic variation Medicago sativa L. SSR statistical genetics |
| url | http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572007000300015 |
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