Canine Genome Research: References

Most of this list is comprised of papers that include research by the NHGRI Dog Genome Project. We aim to include other important Canine mapping and genomics papers, so if there's a reference you don't see that you think should be here, please let us know at dog_genome@mail.nih.gov.

References are grouped into sections below. Click the title below to proceed to the section.

Canine Genetic Structure and Phylogeny
Canine Linkage Mapping
Canine Radiation Hybrid Mapping
Mapping Software
Microsatellite Markers
Construction of a Canine BAC Library
Canine/Rodent hybrid cell lines
Disease Genes and Gene Mapping
Canine MHC
Conservation Biology
Review Articles

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Canine Genetic Structure and Phylogeny

• Parker H.G., Kim L.V., Sutter N.B., Carlson S., Lorentzen T.D., Malek T.B., Johnson G.J., DeFrance H.B., Ostrander E.A., and Kruglyak L. (2004) Genetic Structure of the Purebred Domestic Dog. Science, Vol 304, Issue 5674, 1160-1164 , 21 May 2004
  [Pubmed]

Canine Linkage Mapping

• Werner P., Raducha M.G., Shin D., Ostrander E.A., Kirkness E., Patterson D.F., Henthorn P.S. (2004) Assignment of 10 canine genes to the canine linkage and comparative maps. Animal Genetics 2004 Jun;35(3):249-51
  [Pubmed]

• Gordon D., Corwin M.B., Mellersh C.S., Ostrander E.A. and Ott J. (2003) Establishing appropriate genome-wide significance levels for canine linkage analyses. Journal of Heredity 94(1):1-7.
  [Pubmed]

• Breen M., Jouquand S., Renier C., Mellersh C.S., Hitte C., Holmes N.G., Cheron A., Suter N., Vignaux F., Bristow A.E., Priat C., McCann E., Andre C., Boundy S., Gitsham P., Thomas R., Bridge W.L., Spriggs H.F., Ryder E.J., Curson A., Sampson J., Ostrander E.A., Binns M.M., and Galibert F. (2001). Chromosome-Specific Single-Locus FISH Probes Allow Anchorage of an 1800-Marker Integrated Radiation-Hybrid/Linkage Map of the Domestic Dog Genome to All Chromosomes. Genome Research 11 (10):1784-1795
  [Pubmed]

• Parker H.G., Yuhua X., Mellersh C.S., Khan S., Shibuya H., Johnson G.S., Ostrander E.A. (2001) Meiotic linkage mapping of 52 genes onto the canine map does not identify significant levels of microrearrangement. Mammalian Genome 12(9): 713-8
  [Pubmed]

• Mellersh C.S., Hitte C., Richman M., Vignaux F., Priat C., Jouquand S., Werner P., Andre C., DeRose S., Patterson D.F., Ostrander E.A., Galibert F. (2000) An integrated linkage-radiation hybrid map of the canine genome. Mammalian Genome 11: 120-130
  [Pubmed]

• Werner, P., Mellersh, C.S., Raducha, M.G., DeRose, S., Acland, G.M., Prociuk, U., Wiegand, N., Aguirre, G.D., Henthorn, P.S., Patterson, D.F. and Ostrander, E.A. (1999). Anchoring of canine linkage groups with chromosome-specific markers. Mammalian Genome 10: 814-823.
  [Pubmed]

• Langston A.A., Mellersh C.S., Wiegand N.A., Acland G.M., Ray K., Aguirre G.D., Ostrander E.A. (1999) Toward a framework linkage map of the canine genome. Journal of Heredity 90(1):7-14.
  [Pubmed]

• Neff, M.W., Broman, K.W., Mellersh, C.S., Ray, K., Acland, G.M., Aguirre, G.D., Ziegle, J.S. Ostrander, E.A. and Rine, J. (1999). A Second-generation genetic linkage map of the domestic dog, Canis familiaris. Genetics 151: 803-820.
  [Pubmed]

• Mellersh, C.S., Langston, A.A., Acland, G.M., Fleming, M.A., Ray, K., Wiegand, N.A., Francisco, L.V., Gibbs, M., Aguirre, G.D. and Ostrander, E.A. (1997). A linkage map of the canine genome. Genomics 46: 326-336.
  [Pubmed]

• Lingaas F., Sorensen A., Juneja R.K., Johansson S., Fredholm M., Wintero A.K., Sampson J., Mellersh C., Curzon A., Holmes N.G., Binns M.M., Dickens H.F., Ryder E.J., Gerlach J., Baumle E., Dolf G. (1997). Towards construction of a canine linkage map: establishment of 16 linkage groups. Mammalian Genome 8: 218-221.
  [Pubmed]

Canine Radiation Hybrid Mapping

• Guyon R., Lorentzen T.D., Hitte C., Kim L., Cadieu E., Parker H.G., Quignon P., Lowe J.K., Renier C., Gelfenbeyn B., Vignaux F., DeFrance H.B., Gloux S., Mahairas G.G., Andre C., Galibert F., and Ostrander E.A. (2003). A 1Mb Resolution Radiation Hybrid Map of the Canine Genome. Proceedings of the National Academy of Sciences 100 (9): 5296-5301
  [Pubmed]

• Hitte C., Lorentzen T.D., Guyon R., Kim L., Cadieu E., Parker H.G., Quignon P., Lowe J.K., Gelfenbeyn B., Andre C., Ostrander E.A. and Galibert F. (2003). Comparison of the MultiMap and TSP/CONCORDE Packages for Constructing Radiation Hybrid Maps. Journal of Heredity 94(1): 9-13
  [Pubmed]

• Breen M., Jouquand S., Renier C., Mellersh C.S., Hitte C., Holmes N.G., Cheron A., Suter N., Vignaux F., Bristow A.E., Priat C., McCann E., Andre C., Boundy S., Gitsham P., Thomas R., Bridge W.L., Spriggs H.F., Ryder E.J., Curson A., Sampson J., Ostrander E.A., Binns M.M., and Galibert F. (2001). Chromosome-Specific Single-Locus FISH Probes Allow Anchorage of an 1800-Marker Integrated Radiation-Hybrid/Linkage Map of the Domestic Dog Genome to All Chromosomes. Genome Research 11 (10):1784-1795 <Also listed in Canine Linkage Mapping>
  [Pubmed]

• Mellersh C.S., Hitte C., Richman M., Vignaux F., Priat C., Jouquand S., Werner P., Andre C., DeRose S., Patterson D.F., Ostrander E.A., Galibert F. (2000) An integrated linkage-radiation hybrid map of the canine genome. Mammalian Genome 11: 120-130 <Also listed in Canine Linkage Mapping>
  [Pubmed]

• Vignaux F. Priat C. Jouquand S. Hitte C. Jiang Z. Cheron A. Renier C. Andre C. Galibert F. (1999). Toward a dog radiation hybrid map. Journal of Heredity 90: 62-7.
  [Pubmed]

• Priat C. Hitte C. Vignaux F. Renier C. Jiang Z. Jouquand S. Cheron A. Andre C. Galibert F. (1998). A whole-genome radiation hybrid map of the dog genome. Genomics 54: 361-78.
  [Pubmed]

Mapping Software (used by the NHGRI Dog Genome Project for Genetic Mapping)

• Matise TC, Perlin M, Chakravarti A. (1994) Automated construction of genetic linkage maps using an expert system (MultiMap): a human genome linkage map. Nature Genetics 6(4):384-90.
  [Pubmed]

• Agarwala, R., Applegate, D. L., Maglott, D., Schuler, G. D. & Schaffer, A. A. (2000) A fast and scalable radiation hybrid map construction and integration strategy. Genome Research 10: 350-364
  [Pubmed]

Microsatellite Markers
(Markers are also described in the Linkage Mapping references)

• Dickens H.F., Holmes N.G., Ryder E., Breen M., Thomas R., Suter N., Sampson J., Langford C.F., Ross M., Carter N.P., Binns M.M. (1999) Use of cosmid-derived and chromosome-specific canine microsatellites. Journal of Heredity 90: 52-4
  [Pubmed]

• Francisco, L.V., Langston, A.A., Mellersh, C.S., Neal, C.L., and Ostrander, E.A. (1996). A class of highly polymorphic tetranucleotide repeats for canine genetic mapping. Mammalian Genome 7: 359-362.
  [Pubmed]

• Ostrander, E.A., Mapa, F.A., Yee, M., and Rine, J. (1995). One Hundred and One Simple sequence Repeat-Based markers for the Canine Genome. Mammalian Genome 6: 192-195.
  [Pubmed]

• Ostrander, E.A., Sprague Jr., G.F., and Rine, J. (1993). Identification and Characterization of Dinucleotide Repeat (CA)n Markers for Genetic Mapping in Dog. Genomics 16: 207-213.
  [Pubmed]

• Ostrander, E.A., Jong, P.M., Rine, J., and Duyk, G. (1992). Construction of Small-Insert Genomic DNA Libraries Highly Enriched for Microsatellite Repeat Sequences. Proceedings of the National Academy of Sciences 89: 3419-3423.
  [Pubmed]

Construction of a Canine BAC Library

• Li R., Mignot E., Faraco J., Kadotani H., Cantanese J., Zhao B., Lin X., Hinton L., Ostrander E.A., Patterson D.F., de Jong P.J. (1999) Construction and characterization of an eightfold redundant dog genomic bacterial artificial chromosome library. Genomics 58(1): 9-17.
  [Pubmed]

Grouping Canine Markers and Genes by analysis of Canine-Rodent Hybrid Cell Lines

• Langston, A.A., Mellersh, C.S., Neal, C.S., Ray, K., Acland, G.M., Gibbs, M., Aguirre, G.D., Fournier, R.E.K. and Ostrander, E.A. (1997) Construction of a panel of canine-rodent hybrid cell lines for use in partitioning of the canine genome. Genomics 46: 317-325
  [Pubmed]

Disease Genes and Disease Gene Mapping

• Chase K., Lawler D.F., Adler F.R., Ostrander E.A. and Lark K.G. (2004) Bilaterally asymmetric effects of quantitative trait loci (QTLs): QTLs that affect laxity in the right versus left coxofemoral (hip) joints of the dog (Canis familiaris). American Journal of Medical Genetics. Jan. 30; 124A(3):239-47.
  [Pubmed]

• Thomas R., Smith K.C., Ostrander E.A., Galibert F. and Breen M. (2003) Chromosome aberrations in canine multicentric lymphomas detected with comparative genomic hybridisation and a panel of single locus probes. British Journal of Cancer. Oct 20; 89(8):1530-7.
  [Pubmed]

• Lingaas F., Comstock K.E., Kirkness E.F., Sorensen A., Aarskaug T., Hitte C., Nickerson M.L., Moe L., Schmidt L.S., Thomas R., Breen M., Galibert F., Zbar B. and Ostrander E.A. (2003) A mutation in the canine BHD gene is associated with hereditary multifocal renal cystadenocarcinoma and nodular dermatofibrosis in the German Shepherd dog. Human Molecular Genetics. Dec 1; 12(23):3043-53.
  [Pubmed]
• Thomas R., Fiegler H., Ostrander E.A., Galibert F., Carter N.P. and Breen M. (2003) A canine cancer-gene microarray for CGH analysis of tumors. Cytogenetic and Genome Research. 102(1-4):254-60.
  [Pubmed]

• Lowe J.K., Kukekova A.V., Kirkness E.F., Langlois M.C., Aguirre G.D., Acland G.M. and Ostrander E.A. (2003) Linkage mapping of the primary disease locus for collie eye anomaly. Genomics. Jul; 82(1):86-95.
  [Pubmed]

• Lowe J.K., Guyon R., Cox M.L., Mitchell D.C., Lonkar A.L., Lingaas F., Andre C., Galibert F., Ostrander E.A. and Murphy K.E. (2003) Radiation hybrid mapping of the canine type I and type IV collagen gene subfamilies. Functional and Integrative Genomics. Jul; 3(3):112-6.
  [Pubmed]

• Chase K., Carrier D.R., Adler F.R., Jarvik T., Ostrander E.A., Lorentzen T.D., and Lark K.G. (2002) Genetic basis for systems of skeletal quantitative traits: Principal component analysis of the canid skeleton. Proceedings of the National Academy of Sciences 99(15): 9930-5
  [Pubmed]

• Sidjanin D.J., Lowe J.K., McElwee J.L., Milne B.S., Phippen T.M., Sargan D.R., Aguirre G.D., Acland G.M., Ostrander E.A. (2002) Canine CNGB3 mutations establish cone degeneration as orthologous to the human achromatopsia locus ACHM3. Human Molecular Genetics 11(16): 1823-1833
  [Pubmed]

• Sidjanin D.J., Zangerl B., Johnson J.L., Xue F., Mellersh C., Ostrander E.A., Acland G., Aguirre G.D., (2002) Cloning of the canine delta tubulin cDNA (TUBD) and mapping to CFA9. Animal Genetics. 33(2): 161-2
  [Pubmed]

• Akhmedov N.B., Baldwin V.J., Zangerl B., Kijas J.W., Hunter L., Minoofar K.D., Mellersh C., Ostrander E.A., Acland G.M., Farber D.B., Aguirre G.D., (2002) Cloning and characterization of the canine photoreceptor specific cone-rod homeobox (CRX) gene and evaluation as a candidate for early onset photoreceptor diseases in the dog. Molecular Vision 8: 79-84.
  [Pubmed]

• Miller A.B., Lowe J.K., Ostrander E.A., Galibert F., Murphy K.E. (2001) Cloning, sequence analysis and radiation hybrid mapping of a mammalian KRT2p gene. Functional and Integrative Genomics 1(5): 305-11.
  [Pubmed]

• Zhang Q., Acland G.M., Zangerl B., Johnson J.L., Mao Z., Zeiss C.J., Ostrander E.A., Aguirre G.D. (2001) Fine mapping of canine XLPRA establishes homology of the human and canine RP3 intervals. Investigative Ophthalmology and Visual Science 42(11): 2466-71.
  [Pubmed]

• Credille K.M., Venta P.J., Breen M., Lowe J.K., Murphy K.E., Ostrander E.A., Galibert F., Dunstan R.W. (2001) DNA sequence and physical mapping of the canine transglutaminase 1 gene. Cytogenetics and Cell Genetics 93(1-2): 73-6.
  [Pubmed]

• Li R., Faraco J.H., Lin L., Lin X., Hinton L., Rogers W., Lowe J.K., Ostrander E.A., Mignot E. (2001) Physical and radiation hybrid mapping of canine chromosome 12, in a region corresponding to human chromosome 6p12-q12. Genomics 73(3): 299-315.
  [Pubmed]

• Richman M., Mellersh C.S., Andre C., Galibert F., Ostrander E.A. (2001) Characterization of a minimal screening set of 172 microsatellite markers for genome-wide screens of the canine genome. Journal of Biochemical and Biophysical Methods 47(1-2): 137-49.
  [Pubmed]

• Jonasdottir TJ, Mellersh CS, Moe L, Vignaux F, Ostrander EA, Lingaas F. (2000) Chromosomal assignment of canine TSC2, PKD1 and CLN3 genes by radiation hybrid- and linkage analyses. Animal Genetics. 31(2): 123-6.
  [Pubmed]

• Jonasdottir T.J., Mellersh C.S., Moe L., Heggebo R., Gamlem H., Ostrander E.A., Lingaas F. (2000). Genetic mapping of a naturally occurring hereditary renal cancer syndrome in dogs. Proceedings of the National Academy of Sciences 97: 4132-7
  [Pubmed]

• Wang W., Zhang Q., Acland G.M., Mellersh C., Ostrander E.A., Ray K., Aguirre G.D. (1999) Molecular characterization and mapping of canine cGMP-phosphodiesterase delta subunit (PDE6D). Gene 236(2): 325-32.
  [Pubmed]

• Acland G.M., Ray K., Mellersh C.S., Langston A.A., Rine J., Ostrander E.A., Aguirre G.D. (1999) A novel retinal degeneration locus identified by linkage and comparative mapping of canine early retinal degeneration. Genomics 59(2): 134-42.
  [Pubmed]

• Gu W., Ray K., Pearce-Kelling S., Baldwin V.J., Langston A.A., Ray J., Ostrander E.A., Acland G.M., Aguirre G.D. (1999) Evaluation of the APOH gene as a positional candidate for prcd in dogs. Investigative Ophthalmology and Visual Science 40(6): 1229-37.
  [Pubmed]

• Gu, W., Acland, G.M., Langston, A.A., Ostrander, E.A., Aguirre, G. D., Ray, K. (1998). Identification of a RAPD marker linked to inherited progressive rod-cone degeneration (prcd) in dogs. Mammalian Genome 9: 740-744.
  [Pubmed]

• Blazej, R.G., Mellersh, C.S., Cork, L.C., and Ostrander E.A. (1998). Hereditary canine spinal muscular atrophy is molecularly distinct from the human spinal muscular atrophies. Journal of Heredity 89: 531-537.
  [Pubmed]

• Acland G.M., Ray K., Mellersh C.S., Gu W., Langston A.A., Rine J., Ostrander E.A. and Aguirre G.D. (1998). Linkage analysis and comparative mapping of canine progressive rod-cone degeneration (prcd) establishes potential locus homology with retinitis pigmentosa (RP17) in humans. Proceedings of the National Academy of Sciences 95: 3048-3053.
  [Pubmed]

• Szabo, C.I., Wagner, L.A., Francisco, L.V., Roach, J., Argonza, R., King, M.-C., and Ostrander, E.A. (1996). Human, canine and murine BRCA1 genes: Sequence comparison among species. Human Molecular Genetics 5: 1289-1298.
  [Pubmed]

• Deschenes SM, Puck JM, Dutra AS, Somberg RL, Felsburg PJ, Henthorn PS. (1994). Comparative mapping of canine and human proximal Xq and genetic analysis of canine X-linked severe combined immunodeficiency. Genomics 23: 62-68.
  [Pubmed]

Canine MHC

• Graumann, M.B., DeRose, S.A., Ostrander E.A., and Storb, R. (1998). Polymorphism analysis of four canine MHC class I genes. Tissue Antigens 51: 374-381.
  [Pubmed]

• Wagner, J.L., Burnett, R.C., DeRose, S.C., Francisco, L.V., Storb, R., and Ostrander, E.A. (1996). Histocompatibility testing of dog families with highly polymorphic microsatellite markers. Transplantation 62: 876-877.
  [Pubmed]

• Wagner, L.A., Kiem, H.-P., McSweeney, P., Storb, R., Schuening, F.G., and Ostrander, E.A. (1995). Development of a clonality assay for canine hematopoietic stem cells. Blood 86: 3265-3267.
  [Pubmed]

• Burnett, R.C., Francisco, L.V., DeRose, S.A., Storb, R., and Ostrander E.A. (1995). Identification and characterization of a highly polymorphic microsatellite marker within the canine MHC class I region. Mammalian Genome 6: 684-685.
  [Pubmed]

Conservation Biology

• Gottelli, D., Sillero-Zubiri, C., Applebaum, G.D., Roy, M.S., Girman, D.J., Garcia-Moreno, J., Ostrander, E.A. and Wayne, R.K.. (1994). Molecular genetics of the most endangered canid: The Ethiopian wolf, Canis simensis. Molecular Ecology. 3: 301-312.
  [Pubmed]

• Roy, M.S., Geffen, E., Smith, D., Ostrander, E., and Wayne, R.K. (1994). Patterns of differentiation and hybridization in North American wolf-like canids revealed by analysis of microsatellite loci. Molecular Biology and Evolution 11: 553-70.
  [Pubmed]

Reviews

• Wayne R.K. and Ostrander E.A. (2004) Out of the dog house: the emergence of the canine genome. Heredity. Apr;92(4):273-4.
  [Pubmed]

• Ostrander E.A. and Comstock K.E. (2004) The domestic dog genome. Current Biology. Feb 3;14(3):R98-9.
  [Pubmed]
• Acland G.M., Ostrander E.A. (2003) Population Genetics: The dog that came in from the cold. Heredity, 90(3):201-2.
  [Pubmed]

• Ostrander E.A., Kruglyak L. (2000) Unleashing the canine genome. Genome Research 10(9): 1271-4
  [Pubmed]

• Ostrander E.A., Galibert F., Patterson D.F. (2000). Canine genetics comes of age. Trends in Genetics. 16: 117-24
  [Pubmed]

• Ostrander E.A., Giniger E. (1999) Let sleeping dogs lie? Nature Genetics 23(1): 3-4.
  [Pubmed]

• Wayne R.K., Ostrander E.A. (1999). Origin, genetic diversity, and genome structure of the domestic dog. Bioessays 21: 247-57.
  [Pubmed]

• Langston, A.A., Mellersh, C.S., Wiegand, N.A., Acland, G.M., Ray, K., Aguirre, G.D., and Ostrander, E.A. (1999). Towards a framework linkage map of the canine genome. Journal of Heredity 90: 7-14.
  [Pubmed]

• Ostrander, E.A., and Giniger, E. (1997). Semper Fidelis: What man's best friend can teach us about human biology and disease. American Journal of Human Genetics. 61: 475-480.
  [Pubmed]

• Mellersh, C.S., and Ostrander, E.A. (1997). The Canine Genome. Advances in Veterinary Medicine. J. Womack, (ed.), Academic Press 40: 191-215.
  [Pubmed]

• Ostrander, E.A., Rine, J., Sacks, G. H. Jr., and Cork, L.C. (1993). What is the role of molecular genetics in modern veterinary practice. Journal of the American Veterinary Association 203: 1259-1262.
  [Pubmed]