Characterization of an abundant short interspersed nuclear element (SINE) present in Canis familiaris

• Published in: Mammalian genome Vol. 9; no. 1; pp. 64 - 69
• Main Authors: Das, M, Chu, L L, Ghahremani, M, Abrams-Ogg, T, Roy, M S, Housman, D, Pelletier, J
• Format: Journal Article
• Language: English
• Published: United States Springer Nature B.V 01-01-1998
• Subjects: Animals; Base Sequence; Canis lupus familiaris; Cell hybrids; Cloning vectors; DNA Primers; DNA, Complementary; Dogs - genetics; Genetic markers; Genetics; Genomes; Genotyping; Molecular Sequence Data; Nucleotide sequence; Oligonucleotides; Polymerase Chain Reaction; Polymorphism, Genetic; Repetitive Sequences, Nucleic Acid; Sequence analysis; Sequence Homology, Nucleic Acid; Short interspersed nucleotide elements
• ISSN: 0938-8990; 1432-1777
• DOI: 10.1007/s003359900681

A short interspersed nuclear element (Can SINE) of approximately 130-150 bp was cloned and characterized from Canis familiaris. We demonstrate that this element is interspersed, present approximately every 5-8.3 kbp, and many are sufficiently close to allow IRS (interspersed repetitive DNA sequences) PCR. Sequence analysis of > 20 Can SINEs from the dog has identified a conserved region that was used to design oligonucleotides for IRS PCR. Since Can SINEs are not present in human or rodent genomes, IRS PCR using oligonucleotides directed to the conserved region of Can SINEs can be used to simplify analysis of canid DNA in somatic cell hybrids, as well as in large insert cloning vectors. We demonstrate that the canid IRS products are polymorphic and could be developed as genetic markers for filter-based genotyping in this organism.