BAC-end microsatellites from intra and inter-genic regions of the common bean genome and their correlation with cytogenetic features.
Highly polymorphic markers such as simple sequence repeats (SSRs) or microsatellites are very useful for genetic mapping. In this study novel SSRs were identified in BAC-end sequences (BES) from non-contigged, non-overlapping bacterial artificial clones (BACs) in common bean (Phaseolus vulgaris L.)....
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2014-01-01
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| Series: | PLoS ONE |
| Online Access: | https://doi.org/10.1371/journal.pone.0101873 |
| _version_ | 1819180585420062720 |
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| author | Matthew Wohlgemuth Blair Juana Marcela Córdoba Claritza Muñóz Deissy K Yuyó |
| author_facet | Matthew Wohlgemuth Blair Juana Marcela Córdoba Claritza Muñóz Deissy K Yuyó |
| author_sort | Matthew Wohlgemuth Blair |
| collection | DOAJ |
| description | Highly polymorphic markers such as simple sequence repeats (SSRs) or microsatellites are very useful for genetic mapping. In this study novel SSRs were identified in BAC-end sequences (BES) from non-contigged, non-overlapping bacterial artificial clones (BACs) in common bean (Phaseolus vulgaris L.). These so called "singleton" BACs were from the G19833 Andean gene pool physical map and the new BES-SSR markers were used for the saturation of the inter-gene pool, DOR364×G19833 genetic map. A total of 899 SSR loci were found among the singleton BES, but only 346 loci corresponded to the single di- or tri-nucleotide motifs that were likely to be polymorphic (ATT or AG motifs, principally) and useful for primer design and individual marker mapping. When these novel SSR markers were evaluated in the DOR364×G19833 population parents, 136 markers revealed polymorphism and 106 were mapped. Genetic mapping resulted in a map length of 2291 cM with an average distance between markers of 5.2 cM. The new genetic map was compared to the most recent cytogenetic analysis of common bean chromosomes. We found that the new singleton BES-SSR were helpful in filling peri-centromeric spaces on the cytogenetic map. Short genetic distances between some new singleton-derived BES-SSR markers was common showing suppressed recombination in these regions compared to other parts of the genome. The correlation of singleton-derived SSR marker distribution with other cytogenetic features of the bean genome is discussed. |
| first_indexed | 2024-12-22T22:16:41Z |
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| id | doaj.art-1328115d7a4b41c38d62f5c1607f1419 |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-12-22T22:16:41Z |
| publishDate | 2014-01-01 |
| publisher | Public Library of Science (PLoS) |
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| series | PLoS ONE |
| spelling | doaj.art-1328115d7a4b41c38d62f5c1607f14192022-12-21T18:10:46ZengPublic Library of Science (PLoS)PLoS ONE1932-62032014-01-0199e10187310.1371/journal.pone.0101873BAC-end microsatellites from intra and inter-genic regions of the common bean genome and their correlation with cytogenetic features.Matthew Wohlgemuth BlairJuana Marcela CórdobaClaritza MuñózDeissy K YuyóHighly polymorphic markers such as simple sequence repeats (SSRs) or microsatellites are very useful for genetic mapping. In this study novel SSRs were identified in BAC-end sequences (BES) from non-contigged, non-overlapping bacterial artificial clones (BACs) in common bean (Phaseolus vulgaris L.). These so called "singleton" BACs were from the G19833 Andean gene pool physical map and the new BES-SSR markers were used for the saturation of the inter-gene pool, DOR364×G19833 genetic map. A total of 899 SSR loci were found among the singleton BES, but only 346 loci corresponded to the single di- or tri-nucleotide motifs that were likely to be polymorphic (ATT or AG motifs, principally) and useful for primer design and individual marker mapping. When these novel SSR markers were evaluated in the DOR364×G19833 population parents, 136 markers revealed polymorphism and 106 were mapped. Genetic mapping resulted in a map length of 2291 cM with an average distance between markers of 5.2 cM. The new genetic map was compared to the most recent cytogenetic analysis of common bean chromosomes. We found that the new singleton BES-SSR were helpful in filling peri-centromeric spaces on the cytogenetic map. Short genetic distances between some new singleton-derived BES-SSR markers was common showing suppressed recombination in these regions compared to other parts of the genome. The correlation of singleton-derived SSR marker distribution with other cytogenetic features of the bean genome is discussed.https://doi.org/10.1371/journal.pone.0101873 |
| spellingShingle | Matthew Wohlgemuth Blair Juana Marcela Córdoba Claritza Muñóz Deissy K Yuyó BAC-end microsatellites from intra and inter-genic regions of the common bean genome and their correlation with cytogenetic features. PLoS ONE |
| title | BAC-end microsatellites from intra and inter-genic regions of the common bean genome and their correlation with cytogenetic features. |
| title_full | BAC-end microsatellites from intra and inter-genic regions of the common bean genome and their correlation with cytogenetic features. |
| title_fullStr | BAC-end microsatellites from intra and inter-genic regions of the common bean genome and their correlation with cytogenetic features. |
| title_full_unstemmed | BAC-end microsatellites from intra and inter-genic regions of the common bean genome and their correlation with cytogenetic features. |
| title_short | BAC-end microsatellites from intra and inter-genic regions of the common bean genome and their correlation with cytogenetic features. |
| title_sort | bac end microsatellites from intra and inter genic regions of the common bean genome and their correlation with cytogenetic features |
| url | https://doi.org/10.1371/journal.pone.0101873 |
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