Genomewide SNP variation reveals relationships among landraces and modern varieties of rice

By Kenneth L. McNally, K. Childs, Regina Bohnert, R. Davidson, Keyan Zhao, V. J. Ulat, Georg Zeller, Richard M. Clark, Douglas R. Hoen, T. Bureau and 13 more. Proceedings of the National Academy of Sciences of the United States of America, 2009

635 citations recorded by the source corpus.

Subfields: Genetics, Molecular Biology, Plant Science

View Paper: https://www.semanticscholar.org/paper/84676ab2797cd16ce21bd1ecaa8da05486805f96

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Citations in the corpus

Natural variations and genome-wide association studies in crop plants. (2014, methodology): “Microarraybased genotyping has been applied in crops such as rice and maize (26, 61, 72, 136).”
Development of genome-wide SNP assays for rice (2010, methodology): “The first attempt to design this assay was limited by the OryzaSNP discovery pool (McNally et al. 2009) where large regions of the rice genome appeared to be common by descent in US varieties.”
SNPhylo: a pipeline to construct a phylogenetic tree from huge SNP data (2014, methodology): “In a variation study, the distribution of single nucleotide polymorphisms (SNPs) and/or short insertions and deletions (indels) is the prime concern.”
SNP Discovery through Next-Generation Sequencing and Its Applications (2012, background): “SNPs can help to decipher breeding pedigree, to identify genomic divergence of species to elucidate speciation and evolution, and to associate genomic variations to phenotypic traits [85].”
Mapping QTL for heat tolerance at flowering stage in rice using SNP markers (2012, background): “9%) between IR64 and N22, which was exactly the polymorphism rate predicted from the OryzaSNP project (McNally et al. 2009).”
A Rice Diversity Panel Evaluated for Genetic and Agro‐Morphological Diversity between Subpopulations and its Geographic Distribution (2011, methodology): “A recent study of genomewide SNP variation revealed an impressive amount of molecular diversity among a set of 20 diverse rice landraces and varieties (McNally et al., 2009), but there was no accompanying agro-morphological characterization of these varieties.”
Development of a Research Platform for Dissecting Phenotype–Genotype Associations in Rice (Oryza spp.) (2010, methodology): “1536-SNP Illumina GoldenGate Assay: SNPs were selected from a SNP discovery pool generated by resequencing 20 diverse landraces of rice using Perlegen re-sequencing technology (www.oryzasnp.org; McNally et al. 2009).”
Pathways to Asian Civilizations: Tracing the Origins and Spread of Rice and Rice Cultures (2011, background): “The genetic evidence of McNally et al. (2009) indicates that aus genomes have seen substantial hybridization both with japonica and indica rice, which hints at a complex history of dispersal and cultural interactions involved in the spread of rice within and through the greater Bengal–Assam–Burma…”