ENAGenomicsPalumbi, Biology, Stanford Universityhttps://www.ebi.ac.uk/ena/browser/view/PRJNA124769Strongylocentrotus purpuratusHere we developed a new high-throughput polymorphism detection and genotyping method based on identifying restriction cut site polymorphisms using a microarray platform. We compared the genomes of 20 individual urchins 10 from the northern part of the species range (Boiler Bay, OR) and 10 from the southern part of the range (San Diego, CA). Overall design: Genomic DNA from each individual was extracted, randomly sheared, then divided in half. Half was restriction digested and labeled with Cy3, half was treated as control and labeled with Cy5. Labeled DNA from a single individual was then competitively hybridized to the custom, species-specific array that had probe sequences designed to be centered on known restriction cut sites. Resulting log ratio data reflected the three possible genotypes in clusters when arrays from multiple individuals were examined at a given polymorphic locus.xref:PubMed:20403197ENAwide/broad, single-organism developmental process, Procedures, determination, Genomes, postnatal development, postnatal growth, number, growth and development, Methodological, whole genome, broad, nucleotides., Procedure, Methodological Study, presence, plan specification, Study, development, method, Techniques, count in organism, wide, Methodological Studies, Method, method used in an experiment, chemical analysis, Studies, site, assay, Nucleotide, growth, Technique, regionPurple Sea Urchins, purple sea urchin, Purple Sea Urchin, Purple., Urchin, Strongylocentrotus purpuratus (Stimpson, Sea Urchins, 1857), Purple Sea, Sea Urchin, Urchins, Purple, Echinus purpuratus, purple urchinfalseStrongylocentrotus purpuratusDevelopment of the Restriction Site Tiling Analysis (RSTA) method: Accurate discovery and quantitative genotyping of genome-wide polymorphisms using nucleotide arrays2025-09-242014-02-11PRJNA124769GSE20857766820403197