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Unrestricted accessibility of short oligonucleotides to RNA.
| Content Provider | Semantic Scholar |
|---|---|
| Author | Gamper, Howard B. Arar, Khalil Gewirtz, Alan Hou, Y. S. |
| Copyright Year | 2005 |
| Abstract | The propensity of RNA to fold into higher-order structures poses a major barrier to the use of short probes (<15 nucleotides) by preventing their accessibility. Introduction of the pseudo-complementary bases 2-aminoadenine (nA) and 2-thiouracil (sU) and the destabilizing base 7-deazaguanine (cG) into RNA provides a partial solution to this problem. While complementary in hydrogen bonding groups, nA and sU cannot form a stable base pair due to steric hindrance, and are thus pseudo-complementary. Each, however, recognizes the regular T/U and A complements, allowing pairing with oligonucleotides. Short pseudo-complementary RNAs can be prepared by in vitro transcription. Relative to standard transcripts, the modified transcripts possess reduced secondary structure and increased accessibility to short (8-mer) probes in the locked nucleic acid (LNA) configuration. They also hybridize to complementary probes with increased specificity and thermostability. Practical application of this strategy to oligonucleotide-based hybridization assays will require engineering of RNA polymerase for more efficient utilization of pseudo-complementary nucleoside triphosphates. |
| Starting Page | 1678 |
| Ending Page | 1682 |
| Page Count | 5 |
| File Format | PDF HTM / HTML |
| Alternate Webpage(s) | http://rnajournal.cshlp.org/content/11/9/1441.full.pdf |
| PubMed reference number | 16120834v1 |
| Volume Number | 11 |
| Issue Number | 9 |
| Journal | RNA |
| Language | English |
| Access Restriction | Open |
| Subject Keyword | 2,6-diaminopurine Base Pairing Complement System Proteins DNA-Directed RNA Polymerase GPER protein, human Hydrogen Bonding In Vitro [Publication Type] Nucleic Acid Hybridization Nucleic Acids Nucleoside-Diphosphate Kinase Nucleosides Nucleotides Oligonucleotides Pseudo brand of pseudoephedrine Pyschological Bonding Sodium Transcript latent Orf73 antigen, human herpesvirus 8 locked nucleic acid |
| Content Type | Text |
| Resource Type | Article |
