ArticleMolecular breeding : new strategies in plant improvement2011
Mining and validating grape (Vitis L.) ESTs to develop EST-SSR markers for genotyping and mapping.
Article in Molecular breeding : new strategies in plant improvement, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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12 citing papers in PubMed, 49 citations in OpenAlex.
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- Characterization of the Tibet plateau Jerusalem artichoke (Hereditas · 2019Article
- Characterization and development of EST-SSR markers to study the genetic diversity and populations analysis of Jerusalem artichoke (Helianthus tuberosus L.).Genes & genomics · 2018Article
- Article
- Mining and characterization of EST-SSR markers forPhysiology and molecular biology of plants : an international journal of functional plant biology · 2017Article
- Genetic linkage map construction and QTL mapping of seedling height, basal diameter and crown width of Taxodium 'Zhongshanshan 302' × T. mucronatum.SpringerPlus · 2016Article
- De novo transcriptome characterization of Lilium 'Sorbonne' and key enzymes related to the flavonoid biosynthesis.Molecular genetics and genomics : MGG · 2015Article
- Generation and analysis of expressed sequence tags in the extreme large genomes Lilium and Tulipa.BMC genomics · 2012Article
- A framework genetic map of Muscadinia rotundifolia.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2012Article
- Analysis of expressed sequence tags from grapevine flower and fruit and development of simple sequence repeat markers.Molecular biology reports · 2012Article
- Development of simple sequence repeat (SSR) markers from a genome survey of Chinese bayberry (Myrica rubra).BMC genomics · 2012Article
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Authors and funding
6 authors at 5 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Grape expressed sequence tags (ESTs) are a new resource for developing simple sequence repeat (SSR) functional markers for genotyping and genetic mapping. An integrated pipeline including several computational tools for SSR identification and functional annotation was developed to identify 6,447 EST-SSR sequences from a total collection of 215,609 grape ESTs retrieved from NCBI. The 6,447 EST-SSRs were further reduced to 1,701 non-redundant sequences via clustering analysis, and 1,037 of them were successfully designed with primer pairs flanking the SSR motifs. From them, 150 pairs of primers were randomly selected for PCR amplification, polymorphism and heterozygosity analysis in V. vinifera cvs. Riesling and Cabernet Sauvignon, and V. rotundifolia (muscadine grape) cvs. Summit and Noble, and 145 pairs of these primers yielded PCR products. Pairwise comparisons of loci between the parents Riesling and Cabernet Sauvignon showed that 72 were homozygous in both cultivars, while 70 loci were heterozygous in at least one cultivar of the two. Muscadine parents Noble and Summit had 90 homozygous SSR loci in both parents and contained 50 heterozygous loci in at least one of the two. These EST-SSR functional markers are a useful addition for grape genotyping and genome mapping. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s11032-010-9477-2) contains supplementary material, which is available to authorized users.
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