Base sequence- and T m-dependent DNA oligomer separation by open tubular capillary columns carrying complementary DNA oligomers as probes

2007 ◽  
Vol 388 (4) ◽  
pp. 919-928 ◽  
Author(s):  
Kamakshaiah Charyulu Devarayapalli ◽  
Seung Pil Pack ◽  
Nagendra Kumar Kamisetty ◽  
Mitsuru Nonogawa ◽  
Seiya Watanabe ◽  
...  
Keyword(s):  
Capillary Columns ◽  
Base Sequence ◽  
Dna Oligomers ◽  
Complementary Dna ◽  
Dna Oligomer Separation

Accelerated Chemical Reactions for Lab-on-a-Chip Applications Using Electrowetting-Induced Droplet Self-Oscillations

2006 ◽  
Vol 915 ◽  
Author(s):  
Joanna Aizenberg ◽  
Tom Krupenkin ◽  
Paul Kolodner
Keyword(s):  
Chemical Reactions ◽  
Light Emission ◽  
Lab On A Chip ◽  
Experimental Investigations ◽  
Dna Oligomers ◽  
Complementary Dna ◽  
Rapid Mixing ◽  
Biochemical Assays ◽  
Dna Strands ◽  
Viable Method

AbstractThis paper summarizes the results of experimental investigations of the feasibility of applying electrowetting-induced droplet self-oscillations to induce rapid mixing of small quantities of liquids. The concept was tested using video microscopy to monitor the mixing of passive colored dyes, of spatially-separated reactants that change color upon reaction, and of fluorescent DNA oligomers whose light emission vanishes upon hybridization with appropriately-functionalized complementary DNA strands. Droplet self-oscillation was found to increase the rate of mixing by factors ranging from 15 to 100 as compared with the rate of passive diffusion in undisturbed droplets. This demonstrates that self-oscillation-induced mixing is a viable method for substantially enhancing the speed of chemical reactions in general, and biochemical assays in particular, when performed in small volumes of liquids.

Acyclic analogs of nucleosides based on tris(hydroxymethyl)phosphine oxide: synthesis and incorporation into short DNA oligomers

2015 ◽  
Vol 21 (5) ◽  
pp. 303-314 ◽  
Author(s):  
Barbara Nawrot ◽  
Olga Michalak ◽  
Barbara Mikołajczyk ◽  
Wojciech J. Stec
Keyword(s):  
Phosphine Oxide ◽  
Solid Phase Synthesis ◽  
Solid Phase ◽  
Hydroxyl Groups ◽  
Dna Oligomers ◽  
Phase Synthesis ◽  
Complementary Dna ◽  
Dna Analogs ◽  
Dna Strands ◽  
Synthesis Protocol

AbstractTris-(hydroxymethyl)phosphine oxide (THPO) to a certain extent resembles a part of 2′-deoxyribofuranose, although it exists in an acyclic form only and the oxygen atom at the THPO phosphorus center provides additional hydration site or acceptor of hydrogen bonds. After proper protection of hydroxyl groups, THPO was functionalized with nucleobases and converted into phosphoramidite monomers suitable for incorporation into growing oligonucleotide chains within the solid phase synthesis protocol. The resultant THPO-DNA analogs show reduced affinity to complementary DNA strands, and are resistant towards snake venom and calf spleen exonucleases.

Selective Functionalization at N2-Position of Guanine in Oligonucleotides via Reductive Amination

2020 ◽  
Author(s):  
Bapurao Bhoge ◽  
Ishu Saraogi
Keyword(s):  
Organic Chemistry ◽  
Chemical Biology ◽  
Reductive Amination ◽  
The Other ◽  
Dna Oligomers ◽  
Site Specific ◽  
Wide Applicability ◽  
Dna Oligonucleotides ◽  
Selective Functionalization

Chemo- and site-specific modifications in oligonucleotides have wide applicability as mechanistic probes in chemical biology. Here we have employed a classical reaction in organic chemistry, reductive amination, to selectively functionalize the N<sup>2</sup>-amine of guanine/2’-deoxyguanine monophosphate. This method specifically modifies guanine in several tested DNA oligonucleotides, while leaving the other bases unaffected. Using this approach, we have successfully incorporated desired handles chemoselectively into DNA oligomers.

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