Oligo (.alpha.-arabinofuranosyl nucleotides) and .alpha.-arabinofuranosyl precursors thereof
First Claim
1. An oligonucleotide comprising a chain of nucleotide units, each said nucleotide unit having the formula ##STR8## in which:
- R is a member selected from the group consisting of phosphate, phosphorothioate, phosphoramidate, and alkanephosphonate, and either is the same in all said nucleotide units or varies among said nucleotide units;
B is a nucleotide base, or a nucleotide base bearing a radioactive atom;
W is an alkylene group having 1 to 12 carbon atoms;
an alkenylene group of 2 to 12 carbon atoms and 1 or 2 olefinic bonds;
an alkynylene group of 2 to 12 carbon atoms and 1 or 2 acetylenic bonds;
--O--, --S--, --NH-- --CO--, --NHCO--, --NHCH2 CO-- or hydroxy-substituted alkylene group having 1 to 12 carbon atoms, --O--, --S--, --NH-- --CO--, --NHCO--, --NHCH2 CO-- or hydroxy-substituted alkenylene group of 2 to 12 carbon atoms and 1 or 2 olefinic bonds, or --O--, --S--, --NH-- --CO--, --NHCO--, --NHCH2 CO-- or hydroxy-substituted alkynylene group of 2 to 12 carbon atoms and 1 or 2 acetylenic bonds, said W forming a linking group between a and B wherein the --O--, --S--, --NH-- --CO--, --NHCO--, --NHCH2 CO-- or hydroxy groups are remote from B;
A is an intercalator, a crosslinking agent, an antibody having a binding site specific for double-stranded DNA, a reporter group, or a biotin residue and A either is the same in all said nucleotide units where t is 1, or varies among said nucleotide units; and
t is zero or 1, and either is the same in all said nucleotide units or varies among said nucleotide units.
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Accused Products
Abstract
Novel oligonucleotides formed from α-D-arabinofuranosyl nucleoside monomers, including oligonucleotides in which one or more of the monomer units is functionalized, are disclosed herein, as well as functionalized monomeric α-D-arabinofuranosyl nucleosides and nucleotides. A generic formula for the oligomers is: ##STR1## in which B is a nucleotide base which will vary from one monomeric unit to the next in a preselected oligonucleotide sequence; R is phosphate, phsophorothioate, phosphoramidate, or alkanephosphonate; t is 1 for functionalized monomeric units and zero for the others; W is a chemical linker arm; A is a functional group; and n is the number of monomeric units in the oligomer. The oligomers are useful for diagnostic and chemotherapeutic uses. A novel reaction is also disclosed, in which an α-D-arabinofuranosyl nucleoside with exposed hydroxyls at the 2'"'"'- and 3'"'"'-positions is selectively protected at the 2'"'"'-position in a single reaction.
550 Citations
14 Claims
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1. An oligonucleotide comprising a chain of nucleotide units, each said nucleotide unit having the formula ##STR8## in which:
- R is a member selected from the group consisting of phosphate, phosphorothioate, phosphoramidate, and alkanephosphonate, and either is the same in all said nucleotide units or varies among said nucleotide units;
B is a nucleotide base, or a nucleotide base bearing a radioactive atom; W is an alkylene group having 1 to 12 carbon atoms;
an alkenylene group of 2 to 12 carbon atoms and 1 or 2 olefinic bonds;
an alkynylene group of 2 to 12 carbon atoms and 1 or 2 acetylenic bonds;
--O--, --S--, --NH-- --CO--, --NHCO--, --NHCH2 CO-- or hydroxy-substituted alkylene group having 1 to 12 carbon atoms, --O--, --S--, --NH-- --CO--, --NHCO--, --NHCH2 CO-- or hydroxy-substituted alkenylene group of 2 to 12 carbon atoms and 1 or 2 olefinic bonds, or --O--, --S--, --NH-- --CO--, --NHCO--, --NHCH2 CO-- or hydroxy-substituted alkynylene group of 2 to 12 carbon atoms and 1 or 2 acetylenic bonds, said W forming a linking group between a and B wherein the --O--, --S--, --NH-- --CO--, --NHCO--, --NHCH2 CO-- or hydroxy groups are remote from B;A is an intercalator, a crosslinking agent, an antibody having a binding site specific for double-stranded DNA, a reporter group, or a biotin residue and A either is the same in all said nucleotide units where t is 1, or varies among said nucleotide units; and t is zero or 1, and either is the same in all said nucleotide units or varies among said nucleotide units. - View Dependent Claims (2, 3, 4, 5, 6, 7, 9, 10, 11, 12, 13, 14)
- R is a member selected from the group consisting of phosphate, phosphorothioate, phosphoramidate, and alkanephosphonate, and either is the same in all said nucleotide units or varies among said nucleotide units;
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8. An oligonucleotide in accordance with claim l..in which B is a member selected from the group consisting of purines, pyrimidines, 3-deazapurines, 7-deazapurines, and pyrazolo{3,4-d}pyrimidines.
Specification