Terminal labeling and addition of homopolymer tracts to duplex DNA fragments by terminal deoxynucleotidyl transferase

Abstract

Terminal deoxynucleotidyl transferase, which requires a single-stranded DNA primer under the usual assay conditions, can be made to accept double-stranded DNA as primer for the addition of either rNMP or dNMP, if Mg^$2 ion is replaced by Co^$2 ion. The priming efficiency in the presence of Co^$2 ion with respect to initial rate tested with 2 single-stranded primer, is 5–6 fold higher than that observed with Mg^$2 ion. In the presence of Co^$2 ion, the primer specificity is altered so that all forms of duplex DNA molecules can be labeled at their unique 3′-ends regardless of whether such ends are staggered or even. Thus, using ribonucleotide incorporation, we have for the first time employed this reaction for sequence analysis of duplex DNA fragments generated by restriction endonuclease cleavages. Furthermore, by using Co^$2 ion, it is possible to add a long homopolymer tract of deoxyribonucleotides to the 3′-terminus of double-stranded DNA. Therefore, without prior treatment with λ exonuclease to expose the 3′ terminus as single-stranded primer, this reaction now permits insertion of homopolymer tails at the 3′-ends of all types of DNA molecules for the purpose of in vitro construction of recombinant DNA.