Base Sequence In Nucleic Acids Research Articles

Nucleic acid-binding molecules with high affinity and base sequence specificity: intercalating agents covalently linked to oligodeoxynucleotides.

Oligodeoxyribonucleotides covalently linked to an intercalating agent via a polymethylene linker were synthesized. Oligothymidylates attached to an acridine dye (Acr) through the 3'-phosphate group [(Tp)n(CH2) mAcr ] specifically interact with the complementary sequence. The interaction is strongly stabilized by the intercalating agent. By using absorption and fluorescence spectroscopies, it is shown that complex formation between (Tp)n(CH2) mAcr and poly(rA) involves the formation of n A X T base pairs, where n is the number of thymines in the oligonucleotide. The acridine ring intercalates between A X T base pairs. Fluorescence excitation spectra reveal the existence of two environments for the acridine ring, whose relative contributions depend on the linker length (m). The binding of (Tp)4(CH2) mAcr to poly(rA) is analyzed in terms of site binding and cooperative interactions between oligonucleotides along the polynucleotide lattice. Thermodynamic parameters show that the covalent attachment of the acridine ring strongly stabilizes the binding of the oligonucleotide to its complementary sequence. The stabilization depends on the linker length; the compound with m = 5 gives a more stable complex than that with m = 3. These results open the way to the synthesis of a family of molecules exhibiting both high-affinity and high-specificity for a nucleic acid base sequence.

Oligodeoxynucleotides covalently linked to intercalating dyes as base sequence-specific ligands. Influence of dye attachment site.

New molecules with high and specific affinity for nucleic acid base sequences have been synthesized. They involve an oligodeoxynucleotide covalently attached to an intercalating dye. Visible absorption spectroscopy and fluorescence have been used to investigate the binding of poly(rA) to octadeoxythymidylates substituted by a 9-aminoacridine derivative in different positions along the oligonucleotide chain. The 9-amino group of the acridine dye was linked through a polymethylene bridge to the 3'-phosphate, the 5'-phosphate, the fourth internucleotidic phosphate or to both the 3'- and 5'-phosphates. Different interactions of the acridine dye were exhibited by these different substituted oligodeoxynucleotides when they bind to poly(rA). The interaction was shown to be specific for adenine-containing polynucleotides. The stability of these complexes was compared with that of oligodeoxynucleotides substituted by an alkyl group on the 3'-phosphate. The increase in stability due to the presence of the intercalating dye has been determined from the comparison of melting temperatures. These results are discussed with respect to the strategy of synthesis of a new class of molecules with high affinity and high specificity for nucleic acid base sequences.

Recognition of nucleic acids and chemically-damaged DNA by peptides and protein.

Recognition of nucleic acid base sequences or nucleic acid structures is a fundamental process at every step of genetic expression. Very specific base sequences are recognized by operators, RNA polymerases, restriction endonucleases…. Specific recognition of single stranded nucleic acids is achieved for example by helix destabilizing proteins which are involved in DNA replication, repair, and recombination. The secondary and tertiary structure of ribonucleic acids certainly plays a key role in the recognition of tRNA’s by aminoacyl—tRNA synthetases, of ribosomal RNA’s by ribosomal proteins…

Electron microscopic study of base sequence in nucleic acids VI. Guanine sites in yeast alanine transfer RNA

Yeast alanine t-RNA was reacted with 2-diazo-p-benzene-disulphonic acid, which is known to attach with high specificity to the guanosine monophosphate nucleotides. The guanine marked RNA molecules were extended on thin carbon film, stained with uranyl acetate, and examined in the electron microscope. In high resolution micrographs most of the markers made visible by the uranyl acetate staining, could be distinguished from the background noise on the basis of contrast and size. They were found in linear arrays with a length not exceeding that of an extended t-RNA molecule and their number not exceeding that expected from chemical reactivity data as well as from the known number of guanosine residues in ala t-RNA molecule.

Electron microscopic study of the base sequence in nucleic acids: IX. Absence of fragmentation and of cross-linking during reaction with osmium tetroxide and cyanide

Density and sedimentation analysis as well as electron microscopy demonstrate that upon reaction at 55° single-stranded DNA binds the osmium-cyanide complex and is left free of fragmentations, cross-links and aggregations.

Electron microscopic study of base sequence in nucleic acids. 8. Specific conversion of thymine into anionic osmate esters.

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTElectron microscopic study of base sequence in nucleic acids. VIII. Specific conversion of thymine into anionic osmate estersPeter J. Highton, Brown L. Murr, Farhad. Shafa, and Michael. BeerCite this: Biochemistry 1968, 7, 2, 825–833Publication Date (Print):February 1, 1968Publication History Published online1 May 2002Published inissue 1 February 1968https://doi.org/10.1021/bi00842a041RIGHTS & PERMISSIONSArticle Views37Altmetric-Citations29LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (1 MB) Get e-Alerts Get e-Alerts

Electron microscopic study of the base sequence in nucleic acids. VI. Preparation of ribonucleic acid with marked gauanosine monophosphate nucleotides.

Electron microscopic study of the base sequence in nucleic acids. VI. Preparation of ribonucleic acid with marked gauanosine monophosphate nucleotides.

Electron microscopic study of base sequence in nucleic acids. VII. Cytosine-specific addition of acyl hydrazides.

Electron microscopic study of base sequence in nucleic acids. VII. Cytosine-specific addition of acyl hydrazides.

Determination of base sequence in nucleic acids with the electron microscope. V. The thymine-specific reactions of osmium tetroxide with deoxyribonucleic acid and its components.

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTDetermination of Base Sequence in Nucleic Acids with the Electron Microscope. V. The Thymine-Specific Reactions of Osmium Tetroxide with Deoxyribonucleic Acid and Its Components*Michael Beer, Samuel Stern, Duane Carmalt, and Kenneth H. MohlhenrichCite this: Biochemistry 1966, 5, 7, 2283–2288Publication Date (Print):July 1, 1966Publication History Published online1 May 2002Published inissue 1 July 1966https://doi.org/10.1021/bi00871a017RIGHTS & PERMISSIONSArticle Views145Altmetric-Citations97LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (1 MB) Get e-Alerts Get e-Alerts

A guanosine and uridine specific reagent for study of base sequence in nucleic acids

A guanosine and uridine specific reagent for study of base sequence in nucleic acids

Gene conservation in Bacillus species. I. Conserved genetic and nucleic acid base sequence homologies.

Gene conservation in Bacillus species. I. Conserved genetic and nucleic acid base sequence homologies.

Determination of base sequence in nucleic acids with the electron microscope. IV. Nucleoside complexes with certain metal ions.

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTDetermination of Base Sequence in Nucleic Acids with the Electron Microscope. IV. Nucleoside Complexes with Certain Metal Ions*A. Max Fiskin and Michael BeerCite this: Biochemistry 1965, 4, 7, 1289–1294Publication Date (Print):July 1, 1965Publication History Published online1 May 2002Published inissue 1 July 1965https://doi.org/10.1021/bi00883a012RIGHTS & PERMISSIONSArticle Views70Altmetric-Citations71LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (456 KB) Get e-Alerts Get e-Alerts

Determination of base sequence in nucleic acids with the electron microscope II. The reaction of a guanine-selective marker with the mononucleotides

The reaction of diazotized 2-amino- p-benzenedisulphonic acid with the nucleotides was investigated at several pH values. At pH 9 guanylic aicds react 60 times faster than any of the other common nucleotides. The reaction leads to an addition product which contains the phosphorus and the base of the nucleotides and the sulphur of the diazonium salt. At pH 2 and 22° the product decomposes over 10 h; at pH 9 it is stable for several days. The diazonium salt reacts with ribose, deoxyribose and ribose 5'-phosphate at rates comparable to that of the nucleotides other than guanylic acid, suggesting the sugar as the site of the slow reactions. These results suggest that the guanine residues of the nucleic acid molecules could selectively be labelled over the other.

A SELECTIVE REAGENT FOR THE STUDY OF BASE SEQUENCE IN NUCLEIC ACIDS.

SOME time ago, we proposed an electron microscopic procedure for the determination of the sequence of bases in nucleic acids1. This method requires that electron-dense, base-specific groups be attached to the nucleic acid molecule. On examination in the electron microscope, the visible electron-dense groups indicate the positions of those bases to which they are specifically attached.

Determination of base sequence in nucleic acids with the electron microscope: visibility of a marker.

Determination of base sequence in nucleic acids with the electron microscope: visibility of a marker.