ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2007
Universal markers for comparative mapping and phylogenetic analysis in the Asteraceae (Compositae).
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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28 citing papers in PubMed, 85 citations in OpenAlex.
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- Comparison of taxon-specific versus general locus sets for targeted sequence capture in plant phylogenomics.Applications in plant sciences · 2018Article
- Molecular evidence for asymmetric hybridization in three closely related sympatric species.AoB PLANTS · 2018Article
- Ecological and Genetic Divergences with Gene Flow of Two Sister Species (Frontiers in plant science · 2018Article
- Development, characterization and cross-amplification of microsatellite markers for Chrysolaena obovata, an important Asteraceae from Brazilian Cerrado.Journal of genetics · 2017Article
- From Genomes to GENE-omes: Exome Sequencing Concept and Applications in Crop Improvement.Frontiers in plant science · 2017Review
- First genetic linkage map of Taraxacum koksaghyz Rodin based on AFLP, SSR, COS and EST-SSR markers.Scientific reports · 2016Article
- Transcriptome sequencing and simple sequence repeat marker development for three Macaronesian endemic plant species.Applications in plant sciences · 2016Article
- Combined Use of Molecular Markers and High-Resolution Melting (HRM) to Assess Chromosome Dosage in Potato Hybrids.The Journal of heredity · 2016Article
- Transcriptome Analysis of Gerbera hybrida Including in silico Confirmation of Defense Genes Found.Frontiers in plant science · 2016Article
- Transcriptome sequencing and marker development for four underutilized legumes.Applications in plant sciences · 2015Article
- Hyb-Seq: Combining target enrichment and genome skimming for plant phylogenomics.Applications in plant sciences · 2014Article
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- Comparative analysis of the radish genome based on a conserved ortholog set (COS) of Brassica.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2014Article
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- A target enrichment method for gathering phylogenetic information from hundreds of loci: An example from the Compositae.Applications in plant sciences · 2014Article
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- Development of universal genetic markers based on single-copy orthologous (COSII) genes in Poaceae.Plant cell reports · 2013Article
- Demographic histories of adaptively diverged riparian and non-riparian species of Ainsliaea (Asteraceae) inferred from coalescent analyses using multiple nuclear loci.BMC evolutionary biology · 2012Article
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The development of universal markers that can be assayed across taxa, but which are polymorphic within taxa, can facilitate both comparative map-based studies and phylogenetic analyses. Here we describe the development of such markers for use in the Asteraceae, which includes the crops lettuce, sunflower, and safflower as well as dozens of locally important crop and weed species. Using alignments of a conserved orthologous set (COS) of ESTs from lettuce and sunflower and genomic sequences of Arabidopsis, we designed a suite of primer pairs that are conserved across species, but which are predicted to flank introns. We then tested 192 such primer pairs in 8 species from across the family. Of these, 163 produced an amplicon in at least 1 taxon, and 125 amplified in at least half of the taxa surveyed. Thirty-nine amplified in all 8 species. Comparisons amongst sequences within the lettuce and sunflower EST databases indicate that the vast majority of these loci will be polymorphic. As a direct test of the utility of these markers outside the lettuce and sunflower subfamilies, we sequenced a subset of ten loci from a panel of cultivated safflower individuals. All 10 loci proved to be single-locus, and nine of the 10 loci were polymorphic with an average of 12.8 SNPs per kb. Taken together, these loci will provide an initial backbone for comparative genetic analyses within the Asteraceae. Moreover, our results indicate that these loci are phylogenetically informative, and hence can be used to resolve evolutionary relationships between taxa within the family as well as within species.
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