Research article

BMC Plant Biology

, 12:153

Open Access This content is freely available online to anyone, anywhere at any time.

Comparative mapping in the Fagaceae and beyond with EST-SSRs

  • Catherine BodénèsAffiliated withINRA, UMR1202 BIOGECOUniversité de Bordeaux, UMR1202 BIOGECO Email author 
  • , Emilie ChancerelAffiliated withINRA, UMR1202 BIOGECOUniversité de Bordeaux, UMR1202 BIOGECO
  • , Oliver GailingAffiliated withForest Genetics and Forest Tree Breeding Büsgen Institute Faculty of Forest Sciences and Forest Ecology Göttingen UniversitySchool of Forest Resources and Environmental Science, Michigan Technological University
  • , Giovanni G VendraminAffiliated withPlant Genetics Institute, National Research Council
  • , Francesca BagnoliAffiliated withPlant Protection Institute, National Research Council
  • , Jerome DurandAffiliated withINRA, UMR1202 BIOGECOUniversité de Bordeaux, UMR1202 BIOGECO
  • , Pablo G GoicoecheaAffiliated withNEIKER-Tecnalia, Dpto Biotecnologia
  • , Carolina SolianiAffiliated withUnidad de Genética Ecológica y Mejoramiento Forestal, INTA EEA Bariloche
  • , Fiorella VillaniAffiliated withCNR Istituto di Biologia Agroambientale e Forestale
    • , Claudia MattioniAffiliated withCNR Istituto di Biologia Agroambientale e Forestale
    • , Hans Peter KoelewijnAffiliated withALTERRA Wageningen UR
    • , Florent MuratAffiliated withINRA, UMR1095 GDEC
    • , Jerome SalseAffiliated withINRA, UMR1095 GDEC
    • , Guy RousselAffiliated withINRA, UMR1202 BIOGECOUniversité de Bordeaux, UMR1202 BIOGECO
    • , Christophe BouryAffiliated withINRA, UMR1202 BIOGECOUniversité de Bordeaux, UMR1202 BIOGECO
    • , Florian AlbertoAffiliated withINRA, UMR1202 BIOGECOUniversité de Bordeaux, UMR1202 BIOGECO
    • , Antoine KremerAffiliated withINRA, UMR1202 BIOGECOUniversité de Bordeaux, UMR1202 BIOGECO
    • , Christophe PlomionAffiliated withINRA, UMR1202 BIOGECOUniversité de Bordeaux, UMR1202 BIOGECO

Abstract

Background

Genetic markers and linkage mapping are basic prerequisites for comparative genetic analyses, QTL detection and map-based cloning. A large number of mapping populations have been developed for oak, but few gene-based markers are available for constructing integrated genetic linkage maps and comparing gene order and QTL location across related species.

Results

We developed a set of 573 expressed sequence tag-derived simple sequence repeats (EST-SSRs) and located 397 markers (EST-SSRs and genomic SSRs) on the 12 oak chromosomes (2n = 2x = 24) on the basis of Mendelian segregation patterns in 5 full-sib mapping pedigrees of two species: Quercus robur (pedunculate oak) and Quercus petraea (sessile oak). Consensus maps for the two species were constructed and aligned. They showed a high degree of macrosynteny between these two sympatric European oaks. We assessed the transferability of EST-SSRs to other Fagaceae genera and a subset of these markers was mapped in Castanea sativa, the European chestnut. Reasonably high levels of macrosynteny were observed between oak and chestnut. We also obtained diversity statistics for a subset of EST-SSRs, to support further population genetic analyses with gene-based markers. Finally, based on the orthologous relationships between the oak, Arabidopsis, grape, poplar, Medicago, and soybean genomes and the paralogous relationships between the 12 oak chromosomes, we propose an evolutionary scenario of the 12 oak chromosomes from the eudicot ancestral karyotype.

Conclusions

This study provides map locations for a large set of EST-SSRs in two oak species of recognized biological importance in natural ecosystems. This first step toward the construction of a gene-based linkage map will facilitate the assignment of future genome scaffolds to pseudo-chromosomes. This study also provides an indication of the potential utility of new gene-based markers for population genetics and comparative mapping within and beyond the Fagaceae.