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Title: Construction of an intra-specific sweet cherry (Prunus avium L.) genetic linkage map and synteny analysis with the Prunus reference map

Author
item OLMSEAD, JAMES - MICHIGAN STATE UNIVERSITY
item SEBOLT, AUDREY - MICHIGAN STATE UNIVERSITY
item SOORIYAOATHIRANA, SUNETH - MICHIGAN STATE UNIVERSITY
item HAMMAR, SUE - MICHIGAN STATE UNIVERSITY
item WANG, DECHUN - MICHIGAN STATE UNIVERSITY
item IEZZONI, AMY - MICHIGAN STATE UNIVERISIT
item CABRERA, ANTONIO - OHIO STATE UNIVERSITY
item IRIARTE, GLORIA - OHIO STATE UNIVERSITY
item VAN DER KNAAP, ESTER - OHIO STATE UNIVERSITY
item Chen, Charles

Submitted to: Tree Genetics and Genomes
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 8/16/2008
Publication Date: 10/5/2008
Citation: Olmsead, J., Sebolt, A., Sooriyaoathirana, S., Hammar, S., Wang, D., Iezzoni, A., Cabrera, A., Iriarte, G., Van Der Knaap, E., Chen, C.Y. 2008. Construction of an intra-specific sweet cherry (Prunus avium L.) genetic linkage map and synteny analysis with the Prunus reference map. Tree Genetics and Genomes. DOI 10.1007/s11295-008-008-0161-1.

Interpretive Summary: We have constructed two linkage maps for sweet cherry cultivar ‘Emperor Francis’ (EF) and the wild forest cherry ‘New York 54’ (NY) using primarily simple sequence repeat (SSR) markers and gene-derived markers with known positions on the Prunus reference map. Only 26% of SSR marker among all used SSR markers could be placed on either the EF or NY maps due to two factors: a reduced transferability of other Prunus species-derived markers and a low level of polymorphism in the mapping parents. To increase marker density on the maps, we developed four cleaved amplified polymorphic sequence markers (CAPS), nineteen derived CAPS markers (dCAPS), and four insertion/deletion markers (InDels) for cherry based on 101 Prunus expressed sequence tags (ESTs). In addition, four gene-derived markers representing orthologs of a tomato vacuolar invertase and fruit size gene, and two sour cherry sorbitol transporters, were developed. To complete the linkage analysis, 61 amplified fragment length polymorphism (AFLP) and seven sequence related amplified polymorphism (SRAP) markers were also used for map construction. This analysis resulted in the expected eight linkage groups for both parents. A total of 82 shared markers marker orders were the same with the Prunus reference map suggesting that the cherry genome between the EF and NY maps and the Prunus reference map showed that the majority of the is co-linear with that of the other diploid Prunus species.

Technical Abstract: Linkage maps of the sweet cherry cultivar ‘Emperor Francis’ (EF) and the wild forest cherry ‘New York 54’ (NY) were constructed using primarily simple sequence repeat (SSR) markers and gene-derived markers with known positions on the Prunus reference map. The success rate for identifying SSR markers that could be placed on either the EF or NY maps was only 26% due to two factors: a reduced transferability of other Prunus species-derived markers and a low level of polymorphism in the mapping parents. To increase marker density, we developed four cleaved amplified polymorphic sequence markers (CAPS), nineteen derived CAPS markers (dCAPS), and four insertion/deletion markers (InDels) for cherry based on 101 Prunus expressed sequence tags (ESTs). In addition, four gene-derived markers representing orthologs of a tomato vacuolar invertase and fruit size gene, and two sour cherry sorbitol transporters, were developed. To complete the linkage analysis, 61 amplified fragment length polymorphism (AFLP) and seven sequence related amplified polymorphism (SRAP) markers were also used for map construction. This analysis resulted in the expected eight linkage groups for both parents. The EF and NY maps were 711.1 cM and 565.8 cM, respectively, with the average distance between markers of 4.94 cM and 6.22 cM. A total of 82 shared markers between the EF and NY maps and the Prunus reference map showed that the majority of the marker orders were the same with the Prunus reference map suggesting that the cherry genome is co-linear with that of the other diploid Prunus species.