LNA bases can be placed at internal positions of linear DLPs, Molecular Beacons, or any other nucleic acid probe. The increased Tm of the LNA bases allows for shorter probes to be used; moreover, if the LNA bases are correctly positioned within the sequence they confer increased sensitivity to base mismatch (i.e., improve genotyping or SNP detection assays).
Letertre, C., Perelle, S., Dilasser, F., Arar, K., and Fach, P. Evaluation of the performance of LNA and MGB probes in 5´-nuclease assays. Molecular and Cellular Probes, 17:307-311 (2003).
Ugozzoli, L.A., Latorra. D., Pucket, R., Arar, K., and Hamby, K. Real-time genotyping with oligonucleotide probes containing locked nucleic acids. Analytical Biochemistry, 324:143-152 (2004).