A method for genome comparisons and hybridization studies using known megabase-scale DNA sequences as a reference

Ping Qiu, Kenneth C. Kupfer, William T. Garrard

Research output: Contribution to journalArticlepeer-review

2 Scopus citations

Abstract

We present a method for genome comparisons and high-resolution hybridization analyses using mega-base stretches of known DNA sequences as a reference. The method employs two-dimensional gel electrophoresis, separating genomic segments cut with different restriction endonucleases in the first and second dimensions, to generate filters suitable for image analysis and repeated nucleic acid hybridizations. The corresponding two-dimensional pattern is computed from the reference nucleotide sequence and matched to the observed pattern, thereby identifying each fragment on the filter; at the same time the technique uncovers discrepancies from the reference sequence. This permits genome comparisons as well as automated identification and quantification of hybridization patterns with various probes. The technique is illustrated by an analysis of Saccharomyces cerevisiae chromosome IX.

Original languageEnglish (US)
Pages (from-to)307-315
Number of pages9
JournalGenomics
Volume43
Issue number3
DOIs
StatePublished - Aug 1 1997

ASJC Scopus subject areas

  • Genetics

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