title: A profile of native integration sites used by φC31 integrase in the bovine genome.
abstract: The Streptomyces phage φC31 integrase can efficiently target attB-bearing transgenes to endogenous pseudo attP sites within mammalian genomes. To better understand the activity of φC31 integrase in the bovine genome, DNA sequences of 44 integration events were analyzed, and 32 pseudo attP sites were identified. The majority of these sites share a sequence motif that contains inverted repeats and has similarities to wild-type attP site. Genomic DNA flanking these sites typically contained repetitive sequence elements, such as short and long interspersed repetitive elements. These sequence features indicate that DNA sequence recognition plays an important role in guiding φC31-mediated site-specific integration. In addition, BF27 integration hotspot sites were identified in the bovine genome, which accounted for 13.6% of all isolated integration events and mapped to an intron of the deleted in liver cancer 1 (DLC1) gene. Also we found that the pseudo attP sites in the bovine genome had other features in common with those in the human genome. This study represents the first time that the sequence features of pseudo attP sites in the bovine genome were analyzed. We conclude that this site-specific integrase system has great potential for applied modifications of the bovine genome.
authors.affiliation: Shanghai Institute of Medical Genetics, Children's Hospital of Shanghai, Shanghai Jiao Tong University School of Medicine, 24/1400 West Beijing Road, Shanghai 200040, China.
authors.forename: Lijuan
authors.initials: L
authors.lastname: Qu
authors.forename: Qingwen
authors.initials: Q
authors.lastname: Ma
authors.forename: Zaiwei
authors.initials: Z
authors.lastname: Zhou
authors.forename: Haiyan
authors.initials: H
authors.lastname: Ma
authors.forename: Ying
authors.initials: Y
authors.lastname: Huang
authors.forename: Shuzhen
authors.initials: S
authors.lastname: Huang
authors.forename: Fanyi
authors.initials: F
authors.lastname: Zeng
authors.forename: Yitao
authors.initials: Y
authors.lastname: Zeng
mesh_terms: D000818:Animals; D001287:Attachment Sites, Microbiological; D001435:Bacteriophages / Q000201:enzymology* / Q000502:physiology; D001483:Base Sequence; D002417:Cattle / Q000235:genetics* / Q000821:virology; D033481:Chromosomes, Mammalian / Q000737:chemistry / Q000235:genetics; D005821:Genetic Techniques; D016678:Genome; D015894:Genome, Human; D006801:Humans; D019426:Integrases / Q000378:metabolism*; D008969:Molecular Sequence Data; D014764:Viral Proteins / Q000378:metabolism*; D016662:Virus Integration
chemical_list: D014764:Viral Proteins; D019426:Integrases