Amplification of mixed sequence nucleic acid fragments
First Claim
1. A method of amplifying a mixture of different-sequence double-stranded DNA fragments, comprisingtreating the DNA fragments with terminal deoxynucleotide transferase and a selected deoxynucleotide triphosphate, to add a homopolymeric sequence to the 3'"'"' ends of both DNA fragment strands,mixing the DNA fragments containing the homopolymeric sequence with (i) a homopolymer primer that is complementary to said homopolymeric sequence, (ii) heat-stable DNA polymerase and (iii) all four deoxynucleotide triphosphates,heat denaturing the DNA fragment strands,annealing the mixture under conditions to form DNA fragment/primer duplexes,reacting the mixture under conditions in which the DNA fragment/primer duplexes are converted to double-stranded DNA molecules,repeating said denaturing, annealing, and reacting steps until a desired degree of fragment amplification has been achieved.
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Abstract
A method of amplifying a mixture of different-sequence DNA fragments which may be formed from RNA transcription, or derived from genomic single- or double-stranded DNA fragments. The fragments are treated with terminal deoxynucleotide transferase and a selected deoxynucleotide, to form a homopolymer tail at the 3'"'"' end of the anti-sense strands, and the sense strands are provided with a common 3'"'"'-end sequence. The fragments are mixed with a homopolymer primer which is homologous to the homopolymer tail of the anti-sense strands, and a defined-sequence primer which is homologous to the sense-strand common 3'"'"'-end sequence, with repeated cycles of fragment denaturation, annealing, and polymerization, to amplify the fragments. In one embodiment, the defined-sequence and homopolymer primers are the same, i.e., only one primer is used. The primers may contain selected restriction-site sequences, to provide directional restriction sites at the ends of the amplified fragments.
157 Citations
17 Claims
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1. A method of amplifying a mixture of different-sequence double-stranded DNA fragments, comprising
treating the DNA fragments with terminal deoxynucleotide transferase and a selected deoxynucleotide triphosphate, to add a homopolymeric sequence to the 3'"'"' ends of both DNA fragment strands, mixing the DNA fragments containing the homopolymeric sequence with (i) a homopolymer primer that is complementary to said homopolymeric sequence, (ii) heat-stable DNA polymerase and (iii) all four deoxynucleotide triphosphates, heat denaturing the DNA fragment strands, annealing the mixture under conditions to form DNA fragment/primer duplexes, reacting the mixture under conditions in which the DNA fragment/primer duplexes are converted to double-stranded DNA molecules, repeating said denaturing, annealing, and reacting steps until a desired degree of fragment amplification has been achieved.
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6. A method of amplifying a mixture of different-sequence nucleic acid fragment strands, comprising
manipulating the nucleic acid fragment strands to form a mixture of different sequence DNA fragment strands, where each DNA fragment strand has a 3'"'"'-end and further contains a 5'"'"'-end common sequence, treating the DNA fragment strands with terminal deoxynucleotide transferase and a selected triphosphate, to add a homopolymeric sequence to the 3'"'"' ends, mixing the DNA fragment strands containing the homopolymeric sequence with (i) a homopolymer primer that is complementary to said homopolymeric sequence, (ii) a common-sequence primer that has the same sequence as said common sequence, (iii) heat-stable DNA polymerase and (iv) all four deoxynucleotide triphosphates, heat denaturing the DNA fragment strands, annealing the mixture under conditions to form DNA fragment strand/primer duplexes, reacting the mixture under conditions in which the DNA fragment strand/primer duplexes are converted to double-stranded DNA molecules, repeating said denaturing, annealing, and reacting, until a desired degree of fragment amplification has been achieved.
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15. A method of preparing a mixture of single-stranded RNA fragments for cloning in a cloning vector, comprising
transcribing the RNA fragments to an RNA/DNA complex using an RNA-strand primer, where said RNA-strand primer (i) has a sequence complementary to a 3'"'"' sequence of the RNA fragments and (ii) is effective to produce in the resulting RNA/DNA duplex DNA fragment strands having a selected common 5'"'"'-end sequence, treating the DNA fragment strands with terminal deoxynucleotide transferase in the presence of a selected deoxynucleotide, to form a homopolymeric sequence at the 3'"'"'-end of the DNA fragment strands, mixing the DNA fragment strands containing the homopolymeric sequence with (i) a homopolymer primer having a binding sequence which is complementary to the 3'"'"'-end homopolymeric sequence of the DNA fragment strands, (ii) a common-sequence primer which has the same sequence as said selected common 5'"'"'-end sequence, (iii) a heat-stable DNA polymerase and (iv) all four deoxynucleotide triphosphates, heat denaturing the DNA fragment strands, annealing the mixture under conditions to form DNA fragment stand/primer duplexes, reacting the mixture under conditions in which the DNA fragment strand/primer duplexes are converted to double-stranded DNA molecules, repeating said denaturing, annealing, and reacting steps until a desired degree of fragment amplification has been achieved.
Specification