Solving a sequencing problem in the vertebrate mitochondrial control region using phylogenetic comparisons.
The mitochondrial control region (mtCR) of the bird-of-paradise, Phonygammus keraudrenii, the Trumpet Manucode, contains a unique arrangement of homopolymers and short tandem repeats. Homopolymers occur within a few hundred bases of each other, trapping sequence information between unsequenceable barriers. A comparative strategy, involving other manucode species, allowed the prediction of primer sites in the inaccessible region. The method is suggested for similar sequencing problems.
Feinstein
Julie
J
Ambrose Monell Collection for Molecular and Microbial Research, Department of Invertebrate Zoology, American Museum of Natural History, New York, NY 10024, USA. jfstein@amnh.org
Cracraft
Joel
J
D000818:Animals; D001483:Base Sequence; D017931:DNA Primers; D004272:DNA, Mitochondrial / Q000235:genetics; D019901:Locus Control Region / Q000235:genetics; D008969:Molecular Sequence Data; D046109:Passeriformes / Q000235:genetics*; D010802:Phylogeny; D012091:Repetitive Sequences, Nucleic Acid / Q000235:genetics; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA / Q000379:methods*
D017931:DNA Primers; D004272:DNA, Mitochondrial