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Construction of an almond linkage map in an Australian population Nonpareil × Lauranne

BACKGROUND: Despite a high genetic similarity to peach, almonds (Prunus dulcis) have a fleshless fruit and edible kernel, produced as a crop for human consumption. While the release of peach genome v1.0 provides an excellent opportunity for almond genetic and genomic studies, well-assessed segregati...

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Autores principales: Tavassolian, Iraj, Rabiei, Gholmereza, Gregory, Davina, Mnejja, Mourad, Wirthensohn, Michelle G, Hunt, Peter W, Gibson, John P, Ford, Christopher M, Sedgley, Margaret, Wu, Shu-Biao
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2010
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3091700/
https://www.ncbi.nlm.nih.gov/pubmed/20932335
http://dx.doi.org/10.1186/1471-2164-11-551
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author Tavassolian, Iraj
Rabiei, Gholmereza
Gregory, Davina
Mnejja, Mourad
Wirthensohn, Michelle G
Hunt, Peter W
Gibson, John P
Ford, Christopher M
Sedgley, Margaret
Wu, Shu-Biao
author_facet Tavassolian, Iraj
Rabiei, Gholmereza
Gregory, Davina
Mnejja, Mourad
Wirthensohn, Michelle G
Hunt, Peter W
Gibson, John P
Ford, Christopher M
Sedgley, Margaret
Wu, Shu-Biao
author_sort Tavassolian, Iraj
collection PubMed
description BACKGROUND: Despite a high genetic similarity to peach, almonds (Prunus dulcis) have a fleshless fruit and edible kernel, produced as a crop for human consumption. While the release of peach genome v1.0 provides an excellent opportunity for almond genetic and genomic studies, well-assessed segregating populations and the respective saturated genetic linkage maps lay the foundation for such studies to be completed in almond. RESULTS: Using an almond intraspecific cross between 'Nonpareil' and 'Lauranne' (N × L), we constructed a moderately saturated map with SSRs, SNPs, ISSRs and RAPDs. The N × L map covered 591.4 cM of the genome with 157 loci. The average marker distance of the map was 4.0 cM. The map displayed high synteny and colinearity with the Prunus T × E reference map in all eight linkage groups (G1-G8). The positions of 14 mapped gene-anchored SNPs corresponded approximately with the positions of homologous sequences in the peach genome v1.0. Analysis of Mendelian segregation ratios showed that 17.9% of markers had significantly skewed genotype ratios at the level of P < 0.05. Due to the large number of skewed markers in the linkage group 7, the potential existence of deleterious gene(s) was assessed in the group. Integrated maps produced by two different mapping methods using JoinMap(® )3 were compared, and their high degree of similarity was evident despite the positional inconsistency of a few markers. CONCLUSIONS: We presented a moderately saturated Australian almond map, which is highly syntenic and collinear with the Prunus reference map and peach genome V1.0. Therefore, the well-assessed almond population reported here can be used to investigate the traits of interest under Australian growing conditions, and provides more information on the almond genome for the international community.
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spelling pubmed-30917002011-05-11 Construction of an almond linkage map in an Australian population Nonpareil × Lauranne Tavassolian, Iraj Rabiei, Gholmereza Gregory, Davina Mnejja, Mourad Wirthensohn, Michelle G Hunt, Peter W Gibson, John P Ford, Christopher M Sedgley, Margaret Wu, Shu-Biao BMC Genomics Research Article BACKGROUND: Despite a high genetic similarity to peach, almonds (Prunus dulcis) have a fleshless fruit and edible kernel, produced as a crop for human consumption. While the release of peach genome v1.0 provides an excellent opportunity for almond genetic and genomic studies, well-assessed segregating populations and the respective saturated genetic linkage maps lay the foundation for such studies to be completed in almond. RESULTS: Using an almond intraspecific cross between 'Nonpareil' and 'Lauranne' (N × L), we constructed a moderately saturated map with SSRs, SNPs, ISSRs and RAPDs. The N × L map covered 591.4 cM of the genome with 157 loci. The average marker distance of the map was 4.0 cM. The map displayed high synteny and colinearity with the Prunus T × E reference map in all eight linkage groups (G1-G8). The positions of 14 mapped gene-anchored SNPs corresponded approximately with the positions of homologous sequences in the peach genome v1.0. Analysis of Mendelian segregation ratios showed that 17.9% of markers had significantly skewed genotype ratios at the level of P < 0.05. Due to the large number of skewed markers in the linkage group 7, the potential existence of deleterious gene(s) was assessed in the group. Integrated maps produced by two different mapping methods using JoinMap(® )3 were compared, and their high degree of similarity was evident despite the positional inconsistency of a few markers. CONCLUSIONS: We presented a moderately saturated Australian almond map, which is highly syntenic and collinear with the Prunus reference map and peach genome V1.0. Therefore, the well-assessed almond population reported here can be used to investigate the traits of interest under Australian growing conditions, and provides more information on the almond genome for the international community. BioMed Central 2010-10-09 /pmc/articles/PMC3091700/ /pubmed/20932335 http://dx.doi.org/10.1186/1471-2164-11-551 Text en Copyright ©2010 Tavassolian et al; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Article
Tavassolian, Iraj
Rabiei, Gholmereza
Gregory, Davina
Mnejja, Mourad
Wirthensohn, Michelle G
Hunt, Peter W
Gibson, John P
Ford, Christopher M
Sedgley, Margaret
Wu, Shu-Biao
Construction of an almond linkage map in an Australian population Nonpareil × Lauranne
title Construction of an almond linkage map in an Australian population Nonpareil × Lauranne
title_full Construction of an almond linkage map in an Australian population Nonpareil × Lauranne
title_fullStr Construction of an almond linkage map in an Australian population Nonpareil × Lauranne
title_full_unstemmed Construction of an almond linkage map in an Australian population Nonpareil × Lauranne
title_short Construction of an almond linkage map in an Australian population Nonpareil × Lauranne
title_sort construction of an almond linkage map in an australian population nonpareil × lauranne
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3091700/
https://www.ncbi.nlm.nih.gov/pubmed/20932335
http://dx.doi.org/10.1186/1471-2164-11-551
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