title: Synthesis of linear and tripoidal oligo(phenylene ethynylene)-based building blocks for application in modular DNA-programmed assembly.
abstract: Rigid linear and tripoidal organic modules based on the oligo(phenylene ethynylene) backbone having salicylaldehyde-derived termini are synthesized. A highly functionalized 5-iodosalicyl aldehyde was prepared and coupled to each ethynyl group of 1,4-diethynylbenzene or 1,3,5-triethynylbenzene in Sonogashira couplings. The two or three termini of the compounds are functionalized for incorporation in linear and branched oligonucleotide strands. For the linear module (LM), the two termini are equipped with amide spacers, and one of these was functionalized with a DMTr (dimethoxytrityl)-protected hydroxy group and the other with a phosphoramidite. One of the tripoidal modules is prepared with DMTr groups in two of its three termini. A tripoidal module is also synthesized with three different groups on its hydroxy termini: a phosphoramidite, a DMTr group, and an Fmoc group. Extended studies have shown that these rigid linear and tripoidal organic modules can be incorporated into short oligonucleotides. Several of these modules can be applied for DNA-directed assembly and covalent coupling into structures of predetermined connectivity. Such structures have potential application for molecular electronics and nanotechnology.
authors.affiliation: Center for Catalysis and Interdisciplinary Nanoscience Center (iNANO), Department of Chemistry, Langelandsgade 140, Aarhus University, 8000 Aarhus C, Denmark.
authors.forename: Morten
authors.initials: M
authors.lastname: Nielsen
authors.forename: Anne H
authors.initials: AH
authors.lastname: Thomsen
authors.forename: Emiliano
authors.initials: E
authors.lastname: Cló
authors.forename: Finn
authors.initials: F
authors.lastname: Kirpekar
authors.forename: Kurt V
authors.initials: KV
authors.lastname: Gothelf
mesh_terms: D000480:Alkynes / Q000138:chemical synthesis*; D002384:Catalysis; D004247:DNA; D004987:Ethers / Q000138:chemical synthesis*; D007202:Indicators and Reagents; D009682:Magnetic Resonance Spectroscopy; D008958:Models, Molecular; D008968:Molecular Conformation; D015394:Molecular Structure; D009841:Oligonucleotides / Q000737:chemistry; D011108:Polymers / Q000138:chemical synthesis*
chemical_list: D000480:Alkynes; D004987:Ethers; D007202:Indicators and Reagents; D009841:Oligonucleotides; D011108:Polymers; C436384:phenyleneethynylene; D004247:DNA