Targeted genomic enrichment of long DNA fragments flanking a known core sequence in Arabidopsis thaliana
We developed a solution-based targeted genomic enrichment methodology to capture, enrich and sequence flanking genomic regions surrounding conserved MIRNA genes with a locked-nucleic acid (LNA)-modified, biotinylated probe complementary to the mature miRNA sequence. Genomic DNA bound by the probe is captured by streptavidin-coated magnetic beads, amplified, sequenced and assembled de novo to obtain genomic DNA sequences flanking MIRNA locus of interest. We demonstrate the effectiveness of this method by sequencing a captured sample in Arabidopsis thaliana. This method may enable determination of flanking genomic DNA sequence surrounding a known core (like a conserved mature miRNA) from multiple species that currently don''t have a full genome assembly available.