The DOI matches its Crossref record; 55 of the 55 references it cites were found in a registry or an index.
A High-Density SNP Genotyping Array for Rice Biology and Molecular Breeding
Open accessAbstract
A high-density single nucleotide polymorphism (SNP) array is critically important for geneticists and molecular breeders. With the accumulation of huge amounts of genomic re-sequencing data and available technologies for accurate SNP detection, it is possible to design high-density and high-quality rice SNP arrays. Here we report the development of a high-density rice SNP array and its utility. SNP probes were designed by screening more than 10 000 000 SNP loci extracted from the re-sequencing data of 801 rice varieties and an array named RiceSNP50 was produced on the Illumina Infinium platform. The array contained 51 478 evenly distributed markers, 68% of which were within genic regions. Several hundred rice plants with parent/F1 relationships were used to generate a high-quality cluster file for accurate SNP calling. Application tests showed that this array had high genotyping accuracy, and could be used for different objectives. For example, a core collection of elite rice varieties was clustered with fine resolution. Genome-wide association studies (GWAS) analysis correctly identified a characterized QTL. Further, this array was successfully used for variety verification and trait introgression. As an accurate high-throughput genotyping tool, RiceSNP50 will play an important role in both functional genomics studies and molecular breeding.
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Cited by
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Metadata
- Authors
- Chen, H., Xie, W., He, H., Yu, H., Chen, W., Li, J., Yu, R., Yao, Y., Zhang, W., He, Y., Tang, X., Zhou, F., Deng, X. W., & Zhang, Q.
- Venue
- Molecular Plant
- Publisher
- Elsevier BV
- Published
- 2014-03
- Volume
- 7
- Issue
- 3
- Pages
- 541-553
- ISSN
- 1674-2052 (ISSN-L)
- OpenAlex
- W2093693822
- Cited by
- 326
- References
- 55
- FWCI
- 11.13
- Type
- journal article
- Language
- en
- Open access
- hybrid
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- Chen, H., Xie, W., He, H., Yu, H., Chen, W., Li, J., Yu, R., Yao, Y., Zhang, W., He, Y., Tang, X., Zhou, F., Deng, X. W., & Zhang, Q. (2014). A High-Density SNP Genotyping Array for Rice Biology and Molecular Breeding. Molecular Plant. https://doi.org/10.1093/mp/sst135
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