A set of canine interrepeat sequence PCR markers for high-throughput genotyping

Physiological Genomics

Volumn 2001, Issue 4, 2001, Pages 13-24

  Das, Manjula ^a   Sakul, Hakan ^b   Kong, Julius ^a   Acland, Gregory M ^c   Pelletier, Jerry ^a  

^a MCGILL UNIVERSITY   (Canada)

^b PFIZER INC   (United States)

^c Department of Obstetrics Gynecology   (United States)

Author keywords

Canis familiaris; Genotyping; Interspersed repetitive DNA sequence; IRS PCR markers; Polymerase chain reaction; Polymorphism; Radiation hybrid mapping

Indexed keywords

CANIS FAMILIARIS;

ANIMAL; ANIMAL DISEASE; ARTICLE; DOG; GENETIC LINKAGE; GENETIC MARKER; GENETIC POLYMORPHISM; GENETICS; GENOTYPE; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; RADIATION HYBRID MAPPING; SHORT INTERSPERSED REPEAT; SINGLE STRAND CONFORMATION POLYMORPHISM;

ANIMALS; CONSERVED SEQUENCE; DOGS; GENETIC MARKERS; GENOTYPE; LINKAGE (GENETICS); POLYMERASE CHAIN REACTION; POLYMORPHISM, GENETIC; POLYMORPHISM, SINGLE-STRANDED CONFORMATIONAL; RADIATION HYBRID MAPPING; SHORT INTERSPERSED NUCLEOTIDE ELEMENTS;

EID: 0034626668     PISSN: 15312267     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (40)

1. Breen M, Thomas R, Binns MM, Carter NP, and Langford CF. Reciprocal chromosome painting reveals detailed regions of synteny between the karyotypes of the domestic dog (Canis familiaris) and human. Genomics 61: 145-155, 1999.
2. Brooks-Wilson AR, Smailus DE, Weier HU, and Goodfellow PJ. Human repeat element-mediated PCR: cloning and mapping of chromosome 10 DNA markers. Genomics 13: 409-414, 1992.
3. Chumakov IM, Le Gall I, Billault A, Ougen P, Soularue P, Guillou S, Rigault P, Bui H, De Tand MF, Barillot E, Abderrahim H, Cherif D, Berger R, Le Paslier D, and Cohen D. Isolation of chromosome 21-specific yeast artificial chromosomes from a total human genome library. Nat Genet 1: 222-225, 1992.
4. Church GM and Gilbert W. Genome sequencing. Proc Natl Acad Sci USA 81: 1991-1995, 1984.
5. Coltman DW and Wright JM. Can SINEs: a family of tRNA-derived retroposons specific for the superfamily Canoidae. Nucleic Acids Res 22: 2726-2730, 1994.
6. Das M, Chu LL, Ghahremani M, Abrams-Ogg T, Roy MS, Housman D, and Pelletier J. Characterization of an abundant short interspersed nuclear element (SINE) present in Canis familiaris. Mamm Genome 9: 64-69, 1998.
7. Francisco LV, Langston AA, Mellersh CS, Neal CL, and Ostrander EA. A class of highly polymorphic tetranucleotide repeats for canine genetic mapping. Mamm Genome 7: 359-362, 1996.
8. Hahn ME and Wright JC. The influence of genes on social behavior of dogs. In: Genetics and the Behavior of Domestic Animals, edited by Grandin T. New York: Academic, 1998, p. 299-318.
9. Hastie ND. Highly repeated DNA families in the genome of Mus musculus. In: Genetic Variants and Strains of the Laboratory Mouse, edited by Lyon MF and Searle AG. London: Oxford University Press, 1989, p. 559-573.
10. Hunter KW, Riba L, Schalkwyk L, Clark P, Resenchuk S, Beeghly A, Su J, Tinkov F, Lee P, Ramu I, Lehrach H, and Housman DE. Toward the construction of integrated physical and genetic maps of the mouse genome using interspersed repetitive sequence PCR (IRS-PCR) genomics. Genome Res 5: 597-607, 1996.
11. Hunter K. Application of interspersed repetitive sequence PCR for constitution of yeast artificial chromosome contigs. Methods 13: 327-335, 1997.
12. Jelinek WR. Repetitive sequence in eukaryotic DNA and their expression. Annu Rev Biochem 51: 813-844, 1982.
13. Jonasdottir T, Mellersh CS, Moe L, Heggebo R, Gamlem H, Ostrander EA, and Lingaas F. Genetic mapping of a naturally occurring hereditary renal cancer syndrome in dogs. Proc Natl Acad Sci USA 97: 4132-4137, 2000.
14. Knapp D and Waters DJ. Naturally occurring cancer in pet dogs: important models for developing improved cancer therapy for humans. Mol Med Today 8: 8-11, 1997.
15. Langston AA, Mellersh CS, Wiegand NA, Acland GM, Ray K, Aguirre GD, and Ostrander EA. Toward a framework linkage map of the canine genome. J Hered 90: 7-14, 1999.
16. Ledbetter SA, Nelson DL, Warren ST, and Ledbetter DH. Rapid isolation of DNA probes within specific chromosome regions by interspersed repetitive sequence polymerase chain reaction. Genomics 6: 475-481, 1990.
17. Lin L, Faraco J, Li R, Kadotani H, Rogers W, Lin X, Qiu X, Jong PJ, Nishino S, and Mignot E. The sleep disorder canine narcoepilepsy is caused by mutation in the hypocretin (orexin) receptor 2 gene. Cell 98: 365-376, 1999.
18. Liu J, Stanton VP Jr, Fujiwara TM, Wang JX, Rezonzew R, Crumley MJ, Morgan K, Gros P, Housman D, and Schurr E. Large-scale cloning of human chromosome 2-specific yeast artificial chromosomes (YACs) using an interspersed repetitive sequences (IRS)-PCR approach. Genomics 26: 178-191, 1995.
19. Liu Q and Sommer SS. Parameters affecting the sensitivities of dideoxy fingerprinting and SSCP. PCA Methods Appl 4: 97-108, 1994.
20. Matise TC, Perlin M, and Chakravarti A. Automated construction of genetic linkage maps using an expert system (MultiMap): a human genome linkage map. Nat Genet 6: 384-390, 1994.
21. McCarthy L, Hunter K, Schalkwyk L, Riba L, Anson S, Mott R, Newell W, Bruley C, Bar I, Ramu E, Housman D, Cox R, and Lehrach H. Efficient high-resolution genetic mapping of mouse interspersed repetitive sequence PCR products, toward integrated genetic and physical mapping of the mouse genome. Proc Natl Acad Sci USA 92: 5302-5306, 1995.
22. Mellersh CS, Hitte C, Richman M, Vignaux F, Priat C, Jouquand S, Werner P, Andre C, DeRose S, Patterson DF, Ostrander EA, and Galibert FA. An integrated linkage-radiation hybrid map of the canine genome. Mamm Genome 11: 120-130, 2000.
23. Minnick MF, Stillwell LC, Heineman JM, and Stiegler GL. A highly repetitive DNA sequence possibly unique to canids. Gene 110: 235-238, 1992.
24. Murphy WJ, Menotti-Raymond M, Lyons LA, Thompson MA, and O'Brien SJ. Development of feline whole genome radiation hybrid panel and comparative mapping of human chromosome 12 and 22 loci. Genomics 57: 1-8, 1999.
25. Neff MW, Broman KW, Mellersh CS, Ray K, Acland GM, Aguirre GD, Ziegle JS, Ostrander EA, and Rine J. A second-generation genetic linkage map of the domestic dog, Canis familiaris. Genetics 151: 803-820, 1999.
26. Nelson DL, Ledbetter SA, Corbo L, Victoria MF, Ramirez-Solis R, Webster TD, Ledbetter DH, and Caskey CT. Alu polymerase chain reaction: a method for rapid isolation of human-specific sequences from complex DNA sources. Proc Natl Acad Sci USA 86: 6686-6690, 1989.
27. Nock C, Gauss C, Schalkwyk LC, Klose J, Lehrach H, and Himmelbauer H. Technology development at the interface of proteome research and genomics: mapping nonpolymorphic proteins on the physical map of mouse chromosomes. Electrophoresis 20: 1027-1032, 1999.
28. Ostrander EA, Sprague GF Jr, and Rine J. Identification and characterization of dinucleotide repeat (CA)n markers for genetic mapping in dog. Genomics 16: 207-213, 1993.
29. Ostrander EA, Mapa FA, Yee M, and Rine J. One hundred and one new simple sequence repeat-based markers for the canine genome. Mamm Genome 6: 192-195, 1995.
30. Ostrander EA and Giniger E. Let sleeping dogs lie? Nat Genet 23: 3-4, 1999.
31. Ott J. Analysis of Human Genetic Linkage. Baltimore, MD: Johns Hopkins Press, 1991, p. 25-27.
32. Priat C, Hitte C, Vignaux F, Renier C, Jiang Z, Jouquand S, Cheron A, Andre C, and Galibert FA. A whole-genome radiation hybrid map of the dog genome. Genomics 54: 361-378, 1998.
33. Sambrook J, Fritsch EF, and Maniatis T. Molecular Cloning: A Laboratory Manual (2nd ed.). Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press, 1989.
34. Sanger F, Nicklen S, and Coulson AR. DNA sequencing with chain terminating inhibitors. Proc Natl Acad Sci USA 74: 5463-5467, 1977.
35. Stewart EA, McKusick KB, Aggarwal A, Bajorek E, Brady S, Chu A, Fang N, Hadley D, Harris M, Hussain S, Lee R, Maratukulam A, O'Connor K, Perkins S, Piercy M, Qin F, Reif T, Sanders C, She X, Sun WL, Tabar P, Voyticky S, Cowles S, Fan JB, Mader C, Quackenbush J, Myers RM, and Cox DR. An STS-based radiation hybrid map of the human genome. Genome Res 7: 422-433, 1997.
36. Vignaux F, Priat C, Jouquand S, Hitte C, Jiang Z, Cheron A, Renier C, Andre C, and Galibert F. Toward a dog radiation hybrid map. J Hered 90: 62-67, 1999.
37. Van Etten WJ, Steen RG, Nguyn H, Castle AB, Slonim DK, Ge B, Nasbaum C, Schuler GD, Lander ES, and Hudson TJ. Radiation hybrid map of the mouse genome. Nat Genet 22: 384-387, 1999.
38. Watanabe TK, Bihoreau MT, McCarthy LC, Kiguwa SL, Hishigaki H, Tsuji A, Browne J, Yamasaki Y, Mizoguchi-Miyakita A, Oga K, Ono T, Okuno S, Kanemoto N, Takahashi E, Tomita K, Hayashi H, Adachi M, Webber C, Davis M, Kiel S, Knights C, Smith A, Critcher R, Miller J, Thangarajah T, Day PJR, Hudson JR Jr, Irie Y, Takagi T, Nakamura Y, Goodfellow PN, Lathrop GM, Tanigami A, and James MR. A radiation hybrid map of the Rat genome containing 5,255 markers. Nat Genet 22: 27-36, 1999.
39. Werner P, Mellersh CS, Raducha MG, DeRose S, Acland GM, Prociuk U, Wiegand N, Aguirre GD, Henthorn PS, Patterson DF, and Ostrander EA. Anchoring of canine linkage groups with chromosome specific markers. Mamm Genome 10: 814-823, 1999.
40. Zietkiewicz E, Labuda M, Sinnett D, Glorieux FH, and Labuda D. Linkage mapping by simultaneous screening of multiple polymorphic loci using Alu oligonucleotide-directed PCR. Proc Natl Acad Sci USA 89: 8448-8451, 1992.