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Literature DB >> 7937128

5-Nitroindole as an universal base analogue.

Abstract

4-, 5- and 6-Nitroindole have been investigated and compared with 3-nitropyrrole as universal bases in oligodeoxynucleotides. Of these the 5-nitroindole derivative was found to be superior giving higher duplex stability, and behaving indiscriminately towards each of the four natural bases in duplex melting experiments. 3-Nitropyrrole, whilst not discriminating between the natural bases, was found to lead to considerable destabilisation of the duplexes, particularly when multiple substitutions were made, in contrast to the 5-nitroindole nucleoside.

Entities: Chemical

Mesh：

Substances：

Year: 1994 PMID： 7937128 PMCID： PMC331887 DOI： 10.1093/nar/22.20.4039

Source DB: PubMed Journal: Nucleic Acids Res ISSN： 0305-1048 Impact factor: 16.971

15 in total

1. Synthesis and properties of oligonucleotides containing 2'-deoxynebularine and 2'-deoxyxanthosine.

Authors: R Eritja; D M Horowitz; P A Walker; J P Ziehler-Martin; M S Boosalis; M F Goodman; K Itakura; B E Kaplan
Journal: Nucleic Acids Res Date: 1986-10-24 Impact factor: 16.971

2. 5-Fluorodeoxyuridine as an alternative to the synthesis of mixed hybridization probes for the detection of specific gene sequences.

Authors: J F Habener; C D Vo; D B Le; G P Gryan; L Ercolani; A H Wang
Journal: Proc Natl Acad Sci U S A Date: 1988-03 Impact factor: 11.205

3. Studies on nucleic acid interactions. I. Stabilities of mini-duplexes (dG2A4XA4G2-dC2T4YT4C2) and self-complementary d(GGGAAXYTTCCC) containing deoxyinosine and other mismatched bases.

Authors: Y Kawase; S Iwai; H Inoue; K Miura; E Ohtsuka
Journal: Nucleic Acids Res Date: 1986-10-10 Impact factor: 16.971

4. Free energy of imperfect nucleic acid helices. 3. Small internal loops resulting from mismatches.

Authors: J Gralla; D M Crothers
Journal: J Mol Biol Date: 1973-08-05 Impact factor: 5.469

5. An alternative approach to deoxyoligonucleotides as hybridization probes by insertion of deoxyinosine at ambiguous codon positions.

Authors: E Ohtsuka; S Matsuki; M Ikehara; Y Takahashi; K Matsubara
Journal: J Biol Chem Date: 1985-03-10 Impact factor: 5.157

6. Base pairing involving deoxyinosine: implications for probe design.

Authors: F H Martin; M M Castro; F Aboul-ela; I Tinoco
Journal: Nucleic Acids Res Date: 1985-12-20 Impact factor: 16.971

7. Synthesis and duplex stability of oligonucleotides containing cytosine-thymine analogues.

Authors: P K Lin; D M Brown
Journal: Nucleic Acids Res Date: 1989-12-25 Impact factor: 16.971

8. Synthesis and hybridization of dodecadeoxyribonucleotides containing a fluorescent pyridopyrimidine deoxynucleoside.

Authors: H Inoue; A Imura; E Ohtsuka
Journal: Nucleic Acids Res Date: 1985-10-11 Impact factor: 16.971

9. The synthesis and properties of oligodeoxyribonucleotides containing N6-methoxyadenine.

Authors: H Nishio; A Ono; A Matsuda; T Ueda
Journal: Nucleic Acids Res Date: 1992-02-25 Impact factor: 16.971

10. A universal nucleoside for use at ambiguous sites in DNA primers.

Authors: R Nichols; P C Andrews; P Zhang; D E Bergstrom
Journal: Nature Date: 1994-06-09 Impact factor: 49.962

50 in total

1. Universal bases for hybridization, replication and chain termination.

Authors: M Berger; Y Wu; A K Ogawa; D L McMinn; P G Schultz; F E Romesberg
Journal: Nucleic Acids Res Date: 2000-08-01 Impact factor: 16.971

Review 2. Survey and summary: The applications of universal DNA base analogues.

Authors: D Loakes
Journal: Nucleic Acids Res Date: 2001-06-15 Impact factor: 16.971

3. Specific cleavage of hyper-edited dsRNAs.

Authors: A D Scadden; C W Smith
Journal: EMBO J Date: 2001-08-01 Impact factor: 11.598

4. The N(8)-(2'-deoxyribofuranoside) of 8-aza-7-deazaadenine: a universal nucleoside forming specific hydrogen bonds with the four canonical DNA constituents.

Authors: F Seela; H Debelak
Journal: Nucleic Acids Res Date: 2000-09-01 Impact factor: 16.971

5. Synthesis and hybridization properties of inverse oligonucleotides.

Authors: M Marangoni; A Van Aerschot; P Augustyns; J Rozenski; P Herdewijn
Journal: Nucleic Acids Res Date: 1997-08-01 Impact factor: 16.971

6. Whole genome analysis of genetic alterations in small DNA samples using hyperbranched strand displacement amplification and array-CGH.

Authors: José M Lage; John H Leamon; Tanja Pejovic; Stefan Hamann; Michelle Lacey; Deborah Dillon; Richard Segraves; Bettina Vossbrinck; Antonio González; Daniel Pinkel; Donna G Albertson; Jose Costa; Paul M Lizardi
Journal: Genome Res Date: 2003-02 Impact factor: 9.043