1
|
Yanachkov I, Zavizion B, Metelev V, Stevens LJ, Tabatadze Y, Yanachkova M, Wright G, Krichevsky AM, Tabatadze DR. Self-neutralizing oligonucleotides with enhanced cellular uptake. Org Biomol Chem 2018; 15:1363-1380. [PMID: 28074950 DOI: 10.1039/c6ob02576e] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
There is tremendous potential for oligonucleotide (ON) therapeutics, but low cellular penetration due to their polyanionic nature is a major obstacle. We addressed this problem by developing a new approach for ON charge neutralization in which multiple branched charge-neutralizing sleeves (BCNSs) are attached to the internucleoside phosphates of ON by phosphotriester bonds. The BCNSs are terminated with positively charged amino groups, and are optimized to form ion pairs with the neighboring phosphate groups. The new modified ONs can be prepared by standard automated phosphoramidite chemistry in good yield and purity. They possess good solubility and hybridization properties, are not involved in non-standard intramolecular aggregation, have low cytotoxicity, adequate chemical stability, improved serum stability, and above all, display significantly enhanced cellular uptake. Thus, the new ON derivatives exhibit properties that make them promising candidates for the development of novel therapeutics or research tools for modulation of the expression of target genes.
Collapse
Affiliation(s)
- Ivan Yanachkov
- ZATA Pharmaceuticals, Inc., 60 Prescott St., Worcester, MA 01605, USA. and GLSynthesis, Inc., One Innovation Drive, Worcester, MA 01605, USA
| | - Boris Zavizion
- ZATA Pharmaceuticals, Inc., 60 Prescott St., Worcester, MA 01605, USA.
| | - Valeri Metelev
- ZATA Pharmaceuticals, Inc., 60 Prescott St., Worcester, MA 01605, USA. and Department of Chemistry, Moscow State University, Leninskye gory1/40, Moscow 119991, Russian Federation
| | - Laura J Stevens
- ZATA Pharmaceuticals, Inc., 60 Prescott St., Worcester, MA 01605, USA.
| | | | - Milka Yanachkova
- ZATA Pharmaceuticals, Inc., 60 Prescott St., Worcester, MA 01605, USA. and GLSynthesis, Inc., One Innovation Drive, Worcester, MA 01605, USA
| | - George Wright
- GLSynthesis, Inc., One Innovation Drive, Worcester, MA 01605, USA
| | - Anna M Krichevsky
- Department of Neurology, Brigham and Women's Hospital and Harvard Medical School, 60 Fenwood Rd., Boston, MA 02115, USA
| | - David R Tabatadze
- ZATA Pharmaceuticals, Inc., 60 Prescott St., Worcester, MA 01605, USA.
| |
Collapse
|
2
|
Pfleiderer W, Maier T. Nucleotides Part: LXXVII. New Types of Fluorescence Labeling of 2’-Deoxyguanosine. HETEROCYCLES 2010. [DOI: 10.3987/com-10-s(e)54] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
|
4
|
Tabatadze D, Zamecnik P, Yanachkov I, Wright G, Pierson K, Zhang S, Bogdanov A, Metelev V. A novel thymidine phosphoramidite synthon for incorporation of internucleoside phosphate linkers during automated oligodeoxynucleotide synthesis. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2008; 27:157-72. [PMID: 18205070 DOI: 10.1080/15257770701795938] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Abstract
A novel thymidine phosphoramidite synthon was synthesized and successfully used for incorporation of primary amino groups, attached through a triethylene glycol linker to the internucleoside phosphates, at desired locations during automated oligodeoxynucleotide synthesis. The synthesized amino-linker bearing oligonucleotides are stable under deprotection conditions and exhibit Watson-Crick base-pairing properties. Covalent labeling of oligonucleotides with carbocyanine near-infrared fluorochromes resulted in 2.5 times higher labeling yields when compared with oligonucleotides containing base-attached aminolinkers. We anticipate that the developed synthetic approach will be useful for nucleotide sequence-specific attachment of single or multiple ligands or reporter molecules.
Collapse
Affiliation(s)
- David Tabatadze
- Cancer Center, Massachusetts General Hospital, Charlestown, MA 02129, USA
| | | | | | | | | | | | | | | |
Collapse
|
5
|
Sigmund H, Maier T, Pfleiderer W. A New Type of Fluorescence Labeling of Nucleosides, Nucleotides and Oligonucleotides. ACTA ACUST UNITED AC 2006. [DOI: 10.1080/07328319708002935] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Affiliation(s)
- Harald Sigmund
- a Fakultät für Chemie, Universität Konstanz , Postfach 5560, D-78434, Konstanz , Germany
| | - Thomas Maier
- a Fakultät für Chemie, Universität Konstanz , Postfach 5560, D-78434, Konstanz , Germany
| | - Wolfgang Pfleiderer
- a Fakultät für Chemie, Universität Konstanz , Postfach 5560, D-78434, Konstanz , Germany
| |
Collapse
|
7
|
Raddatz S, Mueller-Ibeler J, Kluge J, Wäss L, Burdinski G, Havens JR, Onofrey TJ, Wang D, Schweitzer M. Hydrazide oligonucleotides: new chemical modification for chip array attachment and conjugation. Nucleic Acids Res 2002; 30:4793-802. [PMID: 12409470 PMCID: PMC135808 DOI: 10.1093/nar/gkf594] [Citation(s) in RCA: 63] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We report the synthesis of new phosphoramidite building blocks and their use for the modification of oligonucleotides with hydrazides. The reaction of these hydrazide oligonucleotides with active esters and aldehydes is demonstrated for solution conjugation and immobilization. Compared with the established amino modified oligonucleotides, hydrazides show enhanced reactivity at neutral and acidic buffer conditions. One method to introduce hydrazides is using amidites with preformed, protected hydrazides. A completely novel approach is the generation of the hydrazide functionality during the oligonucleotide cleavage and deprotection with hydrazine. Therefore, building blocks for the introduction of esters as hydrazide precursors are described. For the enhanced attachment on surfaces branched modifier amidites, which introduce up to four reactive groups to the oligonucleotide, are applied. The efficiency of branched hydrazide oligonucleotides compared with standard amino modified oligonucleotides for the immobilization of DNA on active electronic Nanogen chips is demonstrated.
Collapse
Affiliation(s)
- Stefan Raddatz
- Nanogen Recognomics GmbH, Industriepark Höchst G830, 65926 Frankfurt am Main, Germany and. Nanogen Inc., 10398 Pacific Center Court, San Diego, CA 92121, USA
| | | | | | | | | | | | | | | | | |
Collapse
|
8
|
Jadhav VR, Barawkar DA, Natu AA, Ganesh KN. 5-Amido-(carboxyfluorescein)-2′-dU-oligonucloetides: Novel Primers for Fluorescent Detection of PCR Amplified DNA. ACTA ACUST UNITED AC 1997. [DOI: 10.1080/07328319708002526] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
|
9
|
Abstract
Reliable methods of machine-aided RNA synthesis have been established to complement those for DNA assembly. Oligonucleotides containing thio-modified backbones and 2'-O-alkyl sugars head the list of many newly available analogues. Biotin, fluorescent agents and many reporter groups can be conveniently introduced into oligonucleotides in multiples by phosphoramidite or H-phosphonate chemistry.
Collapse
Affiliation(s)
- M J Gait
- Medical Research Council, Cambridge, UK
| |
Collapse
|