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Merkl, Rainer ; Kröger, Manfred ; Rice, Peter ; Fritz, Hans Joachim

Statistical evaluation and biological interpretation of non-random abundance in the E. coli K-12 genome of tetra- and pentanucleotide sequences related to VSP DNA mismatch repair

Merkl, Rainer, Kröger, Manfred, Rice, Peter und Fritz, Hans Joachim (1992) Statistical evaluation and biological interpretation of non-random abundance in the E. coli K-12 genome of tetra- and pentanucleotide sequences related to VSP DNA mismatch repair. Nucleic Acids Research 20 (7), S. 1657-1662.

Veröffentlichungsdatum dieses Volltextes: 16 Nov 2009 15:26
Artikel
DOI zum Zitieren dieses Dokuments: 10.5283/epub.10926


Zusammenfassung

The abundance of all tetra- and pentanucleotide sequences is calculated for a set of DNA sequence data comprising 767,393 nucleotides of the E. coli K-12 genome. Observed frequencies are compared to those expected from a Markov chain prediction algorithm. Systematic and extreme non-random representations are found for special sets of sequences. These are interpreted as arising from incorporation ...

The abundance of all tetra- and pentanucleotide sequences is calculated for a set of DNA sequence data comprising 767,393 nucleotides of the E. coli K-12 genome. Observed frequencies are compared to those expected from a Markov chain prediction algorithm. Systematic and extreme non-random representations are found for special sets of sequences. These are interpreted as arising from incorporation of a 2'-deoxyguanosine residue opposite thymidine during replication which, in special sequence contexts, leads to a T/G mismatch that is simultaneously substrate for two competing DNA mismatch repair systems: the mutHLS and the VSP pathway. Processing by the former leads to error correction, by the latter to mutation fixation. The significance of the latter process, as demonstrated here, makes it unlikely that VSP repair has evolved mainly as a mutation avoidance mechanism. It is proposed that in E. coli K-12, VSP repair, together with DNA cytosine methylation, constitutes a mutagenesis/recombination system capable of promoting gene-conversion-like unidirectional transfer of short stretches of DNA sequence.



Beteiligte Einrichtungen


Details

DokumentenartArtikel
Titel eines Journals oder einer ZeitschriftNucleic Acids Research
Verlag:Oxford Univ. Press
Band:20
Nummer des Zeitschriftenheftes oder des Kapitels:7
Seitenbereich:S. 1657-1662
Datum1992
InstitutionenBiologie und Vorklinische Medizin > Institut für Biophysik und physikalische Biochemie > Prof. Dr. Rainer Merkl
Identifikationsnummer
WertTyp
1579456PubMed-ID
Klassifikation
NotationArt
AlgorithmsMESH
Bacillus subtilis/geneticsMESH
Base CompositionMESH
DNA Repair/genetics*MESH
DNA Replication/geneticsMESH
DNA, Bacterial/chemistryMESH
DNA, Bacterial/genetics*MESH
Escherichia coli/genetics*MESH
Genome, BacterialMESH
Markov ChainsMESH
Mutation/geneticsMESH
Repetitive Sequences, Nucleic Acid/genetics*MESH
Site-Specific DNA Methyltransferase (Cytosine-Specific)/geneticsMESH
Stichwörter / KeywordsAlgorithms Bacillus subtilis/genetics Base Composition DNA Repair/*genetics DNA Replication/genetics DNA, Bacterial/chemistry/*genetics Escherichia coli/*genetics Genome, Bacterial Markov Chains Mutation/genetics Repetitive Sequences, Nucleic Acid/*genetics Site-Specific DNA Methyltransferase (Cytosine-Specific)/genetics Support, Non-U.S. Gov't
Dewey-Dezimal-Klassifikation500 Naturwissenschaften und Mathematik > 570 Biowissenschaften, Biologie
StatusVeröffentlicht
BegutachtetJa, diese Version wurde begutachtet
An der Universität Regensburg entstandenNein
URN der UB Regensburgurn:nbn:de:bvb:355-epub-109267
Dokumenten-ID10926

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