title: Normalization of genomic DNA using duplex-specific nuclease.
abstract: An application of duplex-specific nuclease (DSN) normalization technology to whole-genome shotgun sequencing of genomes with a large proportion of repetitive DNA is described. The method uses a thermostable DSN from the Kamchatka crab that specifically hydrolyzes dsDNA. In model experiments on human genomic DNA, we demonstrated that DSN normalization of double-stranded DNA formed during C0t analysis is effective against abundant repetitive sequences with high sequence identity, while retaining highly divergent repeats and coding regions at base-line levels. Thus, DSN normalization applied to C0t analysis can be used to eliminate evolutionarily young repetitive elements from genomic DNA before sequencing, and should prove invaluable in studies of large eukaryotic genomes, such as those of higher plants.
authors.affiliation: Evrogen JSC, Moscow, Russia.
authors.forename: Irina
authors.initials: I
authors.lastname: Shagina
authors.forename: Ekaterina
authors.initials: E
authors.lastname: Bogdanova
authors.forename: Ilgar Z
authors.initials: IZ
authors.lastname: Mamedov
authors.forename: Yury
authors.initials: Y
authors.lastname: Lebedev
authors.forename: Sergey
authors.initials: S
authors.lastname: Lukyanov
authors.forename: Dmitry
authors.initials: D
authors.lastname: Shagin
mesh_terms: D000818:Animals; D033381:Anomura / Q000201:enzymology; D004247:DNA / Q000235:genetics / Q000378:metabolism*; D003851:Deoxyribonucleases / Q000378:metabolism*; D015723:Gene Library; D016678:Genome; D006801:Humans; D016133:Polymerase Chain Reaction; D012091:Repetitive Sequences, Nucleic Acid / Q000235:genetics*; D017422:Sequence Analysis, DNA / Q000379:methods*
chemical_list: D004247:DNA; D003851:Deoxyribonucleases