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Literature Cited and Supplemental References

Akey JM, AL Ruheb, DT Akey, AK Wong, CF Connelly, J Madeoya, TJ Nicholas, MW Neff. 2009. Tracking footprints of artificial selection in the dog genome. Proc. Natl. Acad. Sci. USA. 107: 1160-1165 (plus supplements). http://www.ncbi.nlm.nih.gov/pubmed/20080661.(external link)

Source for the link between wrinkled skin on sharpei dogs and HAS2 polymorphism.

Alderton, D. 1993. Dogs. DK Adult. 304pp.
ISBN-13: 978-0751310061

This is a general guide to breeds of dogs with a lot of excellent color photos. Written for a lay audience.

Bannasch D, A Young, J Myers, et al. 2010. Localization of canine brachycephaly using an across breed mapping approach. PLoS ONE. 5:e9632.
http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0009632.(external link)

Berryere TG, JA Kerns, GS Barsh, SM Schmutz. 2005. Association of an Agouti allele with fawn or sable coat color in domestic dogs. Mammalian Genome 16:262-272.
http://www.ncbi.nlm.nih.gov/pubmed/15965787(external link)

Boyko AR, RH Boyko, CM Boyko, et al. 2009. Complex population structure in African village dogs and its implications for inferring dog domestication history. Proc Natl Acad Sci USA. 106:13903-8. doi: 10.1073/pnas.0902129106.

Boyko AR, Quignon P, Li L, Schoenebeck JJ, Degenhardt JD, et al. (2010) A Simple Genetic Architecture Underlies Morphological Variation in Dogs. PLoS Biol 8(8): e1000451. doi:10.1371/journal.pbio.1000451
http://www.plosbiology.org/article/info%3Adoi%2F10.1371%2Fjournal.pbio.1000451(external link)

Boyko AR, RH Boyko, CM Boyko, et al. 2009. Complex population structure in African village dogs and its implications for inferring dog domestication history. Proc Natl Acad Sci USA. 106:13903-8. doi: 10.1073/pnas.0902129106.
http://www.ncbi.nlm.nih.gov/pubmed/19666600.(external link)

Cadieu E, MW Neff, P Quignon, et al. 2009. Coat Variation in the Domestic Dog Is Governed by Variants in Three Genes. Science 326: 150–153. doi:10.1126/science.1177808.
http://www.ncbi.nlm.nih.gov/pubmed/19713490(external link)

Carver E. 1984. Coat color genetics of the German Shepherd Dog. J of Hered. 75:247-252.
http://jhered.oxfordjournals.org/content/75/4/247(external link)

Chen W-K, JD Swartz, LJ Rush, et al. 2009. Mapping DNA structural variation in dogs. Genome Res. 19:500-509.
http://www.ncbi.nlm.nih.gov/pubmed/19015322(external link)

Clark LA, JM Wahl, CA Rees, KE Murphy. 2006. Retrotransposon insertion in SILV is responsible for merle patterning of the domestic dog. Proc. Natl Acad. Sci. USA. 103:1376-1381.
http://www.ncbi.nlm.nih.gov/pubmed/16407134(external link)

Coppinger R, L Coppinger. 2001. Dogs: A Startling New Understanding of Canine Origin, Behavior, and Evolution. University of Chicago Press. ISBN-13: 978-0684855301. 352pp.

This book can help undergraduates bridge the intellectual gap between popular books and scientific articles. It raises some interesting and controversial questions about dogs as part of human society, that are sure to get even quiet students talking. Critics have challenged some of the conclusions based on the strength of the evidence, which would be a great exercise in skeptical thinking for students.

Cordaux R, MA Batzer. 2006. Teaching an old dog new tricks: SINEs of canine genomic diversity. Proc. Natl Acad. Sci. USA. 103(5):1157-8.
http://www.ncbi.nlm.nih.gov/pubmed/16432182(external link)

Cruz F, C Vila, MT Webster. 2008. The legacy of domestication: accumulation of deleterious mutations in the dog genome. Mol. Biol. Evol. 25:2331–2336.
http://www.ncbi.nlm.nih.gov/pubmed/18689870(external link)

Dreger DL, SM Schmutz. 2010. A new mutation in MC1R explains a coat color phenotype in 2 "old" breeds: Saluki and Afghan hound. J. Heredity. doi: 10.1093/jhered/esq061 (doi:10.1093/jhered/esq061).
http://www.ncbi.nlm.nih.gov/pubmed/20525767(external link)

Dreger DL, CB Kaelin, GS Barsh, SM Schmutz. Proposed Evolution of the Agouti Locus Alleles in Domestic Dogs. Advances in Canine and Feline Genomics and Inherited Disease in Baltimore, MD. Sept. 23-25, 2010

Dreger DL, SM Schmutz. 2011. A SINE Insertion Causes the Black-and-Tan and Saddle Tan Phenotypes in Domestic Dogs. Journal of Heredity 102:S11-S18.
http://www.ncbi.nlm.nih.gov/pubmed/21846741.(external link)

This special issue is available online for personal use.

Dreger DL, H Parker, E Ostrander, SM Schmutz. The involvement of RALY in a complex gene interaction producing the saddle tan phenotype in dogs. A presentation at Advances in Canine and Feline Genomics and Inherited Diseases 2012 Conference, Visby, Sweden. June 1, 2012.

Germonpré M, Sablinb MV, Stevensc RE, Hedgesd REM, Hofreitere M, Stillere M, Desprése VR. 2009. Fossil dogs and wolves from Palaeolithic sites in Belgium, the Ukraine and Russia: osteometry, ancient DNA and stable isotopes. J. Archaeol. Sci. 36:473-490.
http://dx.doi.org/10.1016/j.jas.2008.09.033.(external link)

Hillbertz NHC, M Isaksson, EK Karlsson, et al. 2007. Duplication of FGF3, FGF4, FGF19, and ORAOV1 causes hair ridge and predisposition to dermoid sinus in ridgeback dogs. Nature Genetics 39:1318-2320.
http://www.ncbi.nlm.nih.gov/pubmed/17906623(external link)

Jones P, K Chase, A Martin, P Davern, EA Ostrander, KG Lark. 2008. Single-nucleotide-polymorphism-based association mapping of dog stereotypes. Genetics 179:1033–1044.
http://www.ncbi.nlm.nih.gov/pubmed/18505865(external link)

Karlsson EK, I Branowska, CM Wade, et al. 2007. Efficient mapping of mendelian traits in dogs through genome-wide association. Nature Genetics. 39:1321-1328 (plus supplements).
http://www.ncbi.nlm.nih.gov/pubmed/17906626.(external link)

This article first established MITF as the gene responsible for white and piebald coloration.

Kerns, JA, J Newton, TG Berryere, EM Rubin, JF Cheng, SM Schmutz, GS Barsh. 2004. Characterization of the dog Agouti gene and identification of a nonagouti mutation in German Shepherd Dogs. Mammalian Genome 15:798-808.
http://www.ncbi.nlm.nih.gov/pubmed/15520882(external link)

Kobayashi T, WD Vieira, B Potterf, C Sakai, G Imokawa, VJ Hearing. 1995. Modulation of melanogenic protein expression during the switch from eu- to pheomelanogenesis. Journal of Cell Science 108:2301-9.
http://www.ncbi.nlm.nih.gov/pubmed/7673350(external link)

Lindblad-Toh, K et al. Genome sequence, comparative analysis and haplotype structure of the domestic dog. Nature, 8 December 2005, doi:10.1038/nature04338.
http://www.ncbi.nlm.nih.gov/pubmed/16341006(external link)

Mosher DS, P Qugnon, CD Bustamante, NB Sutter, CS Mellersh, HG Parker, EA Ostrander. 2007. A mutation in the myostatin gene increases muscle mass and enhances racing performance in heterozygous dogs. PLOS Genetics, 3(5): e79. doi:10.1371/journal.pgen.0030079.
http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.0030079(external link)

Nijkam IN, M Huault, V Pirson, J Detilleux. 2009. The influence of phylogenic origin on the occurrence of brachycephalic airway obstruction syndrome in a large retrospective study. Intern. J. Appl. Res. Vet. Med. 7:138-143.
http://www.jarvm.com/articles/Vol7Iss3/Nijkam%20138-143.pdf(external link)

Ostrander EA. 2007. Genetics and the shape of dogs. Am. Scientist. 95:206-212.
http://www.americanscientist.org/issues/pub/genetics-and-the-shape-of-dogs(external link)

This article is an excellent introduction for students to read.

Ovodov ND, Crockford SJ, Kuzmin YV, Higham TFG, Hodgins GWL, et al. 2011. A 33,000-Year-Old Incipient Dog from the Altai Mountains of Siberia: Evidence of the Earliest Domestication Disrupted by the Last Glacial Maximum. PLoS ONE 6(7): e22821. doi:10.1371/journal.pone.0022821
http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0022821(external link)

Parker HG, LV Kim, NB Sutter, et al. 2004. Genetic structure of the purebred domestic dog. Science. 304:1160-1164 (plus supplements).
http://www.ncbi.nlm.nih.gov/pubmed/15155949(external link)

Parker HG, BM VonHoldt, P Quignon, et al. 2009. An expressed Fgf4 retrogene is associated with breed-defining chondrodysplasia in domestic dogs. Science. 325:995-998 (plus supplements).
http://www.ncbi.nlm.nih.gov/pubmed/19608863(external link)

Philipp U, H Hamann, L Mecklenburg, S Nishino, E Mignot, SM Schmutz, T Leeb. 2005. Polymorphisms within the canine MLPH gene are associated with dilute coat color in dogs . BMC Genetics 6:34-.
http://www.biomedcentral.com/1471-2156/6/34.(external link)

This article is published in a publicly accessible online journal.

Salmon Hillbertz NH, Isaksson M, Karlsson EK, Hellmén E, Pielberg GR, Savolainen P, Wade CM, von Euler H, Gustafson U, Hedhammar A, Nilsson M, Lindblad-Toh K, Andersson L, Andersson G. 2007. Duplication of FGF3, FGF4, FGF19 and ORAOV1 causes hair ridge and predisposition to dermoid sinus in Ridgeback dogs. Nat Genet. 39(11):1318-20.
http://www.ncbi.nlm.nih.gov/pubmed/17906623(external link)

Schoenebeck JJ, SA Hutchinson, A Byers, et al. 2012. Variation of BMP3 contributes to dog breed skull diversity. PLoS Genet. 8:e1002849. doi: 10.1371/journal.pgen.1002849.
http://www.ncbi.nlm.nih.gov/pubmed/22876193(external link)

Schoenebeck JJ, EA Ostrander. 2013. The genetics of canine skull shape variation. Genetics. 193:317-25. doi: 10.1534/genetics.112.145284.
http://www.ncbi.nlm.nih.gov/pubmed/23396475(external link)

Both of these studies by Schoenebeck look at the QTLs that create the range of dog head shapes.

Schmutz, SM, TG Berryere, and AD Goldfinch. 2002. TYRP1 and MC1r genotypes and their effects on coat color in dogs. Mammalian Genome 13:380-387.
http://www.ncbi.nlm.nih.gov/pubmed/12140685(external link)

Schmutz, SM, TG Berryere, NM Ellinwood, JA Kerns, GS Barsh. 2003. MC1R studies in dogs with melanistic mask or brindle patterns. Journal of Heredity 94:69-73. (Originally presented by Schmutz, S. M. May 16, 2002. Coat color inheritance in dogs. Advances in Canine and Feline Genomics. St. Louis, MO.)
http://www.ncbi.nlm.nih.gov/pubmed/12692165(external link)

Schmutz SM, TG Berryere. 2007. Genes affecting coat colour and pattern in domestic dogs: a review. Animal Genetics. 38:539-549.
http://www.ncbi.nlm.nih.gov/pubmed/18052939(external link)

Schmutz SM, TG Berryere, DL Dreger. 2009. MITF and white spotting in dogs: a population study. J. Hered. 100 (Suppl. 1):S66-S74. doi:10.1093/jhered/esp029

Shipman P. 2009 The Wolf at the Door. American Scientist. 97(4):286-7. doi:http://dx.doi.org/10.1511/2009.79.286
http://www.americanscientist.org/issues/num2/the-woof-at-the-door/3(external link)
(Original report on tracks can be viewed here.)

Sutter NB, CD Bustamante, K Chase, et al. 2007. A single IGF1 allele is a major determinant of small size in dogs. Science. 316:112-115 (plus supplements).
http://www.ncbi.nlm.nih.gov/pubmed/17412960(external link)

Våge DI, D Lu, H Klungland, S Lien, S Adalsteinsson, RD Cone. 1997. A non-epistatic interaction of agouti and extension in the fox, Vulpes vulpes. Nature Genet. 15:311-315.
http://www.ncbi.nlm.nih.gov/pubmed/9054949(external link)


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