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Multiple Stranded DNA - Under natural conditions, single­ stranded RNA and double-stranded DNA are the rule. However, under laboratory conditions, it is possible to induce a third strand of DNA to interdigitate itself into the major groove of the double helix of normal DNA in a sequence-specific fashion. The binding is site specific and rules of binding are less precise than normal.

Triple stranded nucleotide chains were first created in 1957 by Alexander Rich, David Daves and Gary Felsenfeld, while they were creating artificial nucleic acids. At that time, triple-stranded DNA seemed like a laboratory curiosity. Now it seems of interest, because it may have valuable uses, both experimentally and clinically. Triplex DNA is generated by binding a known single stranded DNA because single strand of DNA is capable of recognizing a relatively long sequence of the double stranded DNA in a chromosome

Thus it is possible to selectively locate a particular gene loci or sequence. The second use of triplex DNA is to cut DNA at a specific place by adding a cleaving compound to both ends of the third strand of DNA. However, it seems to have good potential for therapeutic use and to help in studying and mapping the human genome.

More recently, four stranded DNA molecules have been found in which double helices of certain sequences interdigitate to form four stranded structures. Guanine can form base tetrads and DNA containing runs of guanosine residues can form quadruplex structures, which may contribute to telomerase structure.

Telomeric DNA consist of short, tandemly repeated sequence. These have been characterized from a number of eukaryotes and are generally GC rich with guanine residues clustered on the one strand and cytosine residues on the other. They may form unusual quadruplex structures by unorthodox interactions between guanosine residues and which may playa role in protecting the telomere from end-joining reactions. Four stranded DNA plays an important role in crossover.