ArticleBMC plant biology2012
Comparative mapping in the Fagaceae and beyond with EST-SSRs.
Article in BMC plant biology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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17 citing papers in PubMed, 64 citations in OpenAlex.
- Article
- Conservation Hotspots ofEcology and evolution · 2026Article
- Response of Pedunculate Oak (Plants (Basel, Switzerland) · 2025Review
- Analysis of the genetic diversity and population structure of Monochasma savatieri Franch. ex Maxim using novel EST-SSR markers.BMC genomics · 2022Article
- Phylogenomic analyses highlight innovation and introgression in the continental radiations of Fagaceae across the Northern Hemisphere.Nature communications · 2022Article
- ddRAD Sequencing-Based Identification of Genomic Boundaries and Permeability inFrontiers in plant science · 2020Article
- Microsatellite analysis and marker development in garlic: distribution in EST sequence, genetic diversity analysis, and marker transferability across Alliaceae.Molecular genetics and genomics : MGG · 2018Article
- Oak genome reveals facets of long lifespan.Nature plants · 2018Article
- Comparative genomics of Eucalyptus and Corymbia reveals low rates of genome structural rearrangement.BMC genomics · 2017Article
- Extensive recent secondary contacts between four European white oak species.The New phytologist · 2017Article
- First interspecific genetic linkage map for Castanea sativa x Castanea crenata revealed QTLs for resistance to Phytophthora cinnamomi.PloS one · 2017Article
- High-density linkage mapping and distribution of segregation distortion regions in the oak genome.DNA research : an international journal for rapid publication of reports on genes and genomes · 2016Article
- De novo assembly and characterization of the leaf, bud, and fruit transcriptome from the vulnerable tree Juglans mandshurica for the development of 20 new microsatellite markers using Illumina sequencing.Molecular genetics and genomics : MGG · 2016Article
- Evolutionary insights from de novo transcriptome assembly and SNP discovery in California white oaks.BMC genomics · 2015Article
- A linkage disequilibrium perspective on the genetic mosaic of speciation in two hybridizing Mediterranean white oaks.Heredity · 2015Article
- The oak gene expression atlas: insights into Fagaceae genome evolution and the discovery of genes regulated during bud dormancy release.BMC genomics · 2015Article
- Comparative in silico analysis of EST-SSRs in angiosperm and gymnosperm tree genera.BMC plant biology · 2014Article
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Authors and funding
18 authors at 10 institutions in 8 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGenetic 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.
resultsWe 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.
conclusionsThis 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.
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