Methods, Kits and Compositions Pertaining to Combination Oligomers and Libraries for Their Preparation
First Claim
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1. An array of at least two oligomers, wherein at least one of the oligomers is a combination oligomer that comprises a segment having the formula:
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A-B-Cwherein,A and C are oligomer blocks that are each independently a peptide nucleic acid, PNA chimera or PNA combination oligomer and are optionally linked to other moieties; and
B is a linker of at least three atoms in length that covalently links oligomer block A to oligomer block C;
wherein,oligomer blocks A and C taken together encode a probing nucleobase sequence that is designed to sequence specifically hybridize juxtaposed to a target sequence of contiguous nucleobases, such that there is no gap or gap base, to thereby form a double stranded target sequence/combination oligomer complex.
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Abstract
This invention pertains to the field of combination oligomers, including the block synthesis of combination oligomers in the absence of a template, as well as related methods, kits, libraries and other compositions.
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Citations
19 Claims
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1. An array of at least two oligomers, wherein at least one of the oligomers is a combination oligomer that comprises a segment having the formula:
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A-B-Cwherein, A and C are oligomer blocks that are each independently a peptide nucleic acid, PNA chimera or PNA combination oligomer and are optionally linked to other moieties; and B is a linker of at least three atoms in length that covalently links oligomer block A to oligomer block C; wherein, oligomer blocks A and C taken together encode a probing nucleobase sequence that is designed to sequence specifically hybridize juxtaposed to a target sequence of contiguous nucleobases, such that there is no gap or gap base, to thereby form a double stranded target sequence/combination oligomer complex. - View Dependent Claims (3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13)
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2. The array of clam 1, wherein the linker is not part of a nucleobase containing backbone subunit of the polymer.
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14. A method comprising:
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(a) reacting, at a site on a solid surface, a first oligomer block, a second oligomer block, and optionally a condensation reagent or reagents under condensation conditions to thereby form a combination oligomer having a linker of at least three atoms in length that covalently links the first oligomer block to the second oligomer block;
wherein,(i) one of said two oligomer blocks is support bound; (ii) the first and second oligomer blocks are each independently a peptide nucleic acid oligomer, PNA chimera or PNA combination oligomer; (iii) one or both oligomer blocks do not comprise nucleobase protecting groups; and (iv) the combination oligomer forms in the absence of a template; and (b) repeating step (a) at one or more sites until the array of combination oligomers is constructed. - View Dependent Claims (15, 16)
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17. A method comprising:
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(a) reacting, at a site on a solid surface, a combination oligomer having a linker of at least three atoms in length that covalently links the first oligomer block to the second oligomer block with a surface functional group to thereby attached the combination oligomer to the surface of the array;
wherein,(i) the first and second oligomer blocks are each independently a peptide nucleic acid oligomer, PNA chimera or PNA combination oligomer; (ii) one or both oligomer blocks do not comprise nucleobase protecting groups; and (b) repeating step (a) at one or more sites until the array of combination oligomers is constructed. - View Dependent Claims (18, 19)
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Specification