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Selected Publications

  • Wills, D. M., C. J. Whipple, S. Takuno, L. E. Kursel, L. M. Shannon, J. Ross-Ibarra, and J. F. Doebley. 2013. From many, one: genetic control of prolificacy during maize domestication. PLoS Genetics 9: e1003604. [pdf]
     
  • Hung, H. Y.*, L. M. Shannon*, F. Tian*, P. J. Bradbury, C. Chen, S. A. Flint-Garcia, M. D. McMullen, D. Ware, E. S. Buckler, J. F. Doebley, and J. B. Holland. 2012. ZmCCT and the genetic basis of day-length adaptation underlying the post-domestication spread of maize. Proc. Natl. Acad. Sci. USA 109: E1913-E1921. [*These three authors contributed equally and are listed in alphabetical order.] [pdf] [Supplemental Information]
     
  • Lin, Z., X. Li, L.M. Shannon, C.-T. Yeh, M. L. Wang, G. Bai, J. Li, T. E. Clemente , H. N. Trick, J. Doebley, P.S. Schnable, M. R. Tuinstra, T. T. Tesso, F. White, and J. Yu. 2012. Parallel domestication of the Shattering1 genes in cereals. Nature Genetics 44: 720-724. [pdf]
     
  • Studer, A., and J. Doebley. 2012. Evidence for a natural allelic series at the maize domestication locus teosinte branched1. Genetics 191: 951-958. [pdf]
     
  • Studer, A., Q. Zhao, J. Ross-Ibarra, and J. Doebley. 2011. A transposon insertion was the causative mutation in the maize domestication gene tb1. Nature Genetics 43: 1160-1163. [pdf] [Commentary]
     
  • Whipple, C. J., T. H. Kebrom, A. L. Weber, F. Yang, D. H. Hall, R. B. Meeley, R. J. Schmidt, J. Doebley, T. P. Brutnell and D. P. Jackson. 2011. Grassy tillers1 integrates light signals to control apical dominance in maize. Proc. Natl. Acad. Sci. USA 108: E506-E512. [pdf]
     
  • Studer, A., and J. Doebley. 2011. Do large effect QTL fractionate? A case study at the maize domestication QTL teosinte branched1. Genetics 188: 673-681. [pdf]
     
  • Zhao, Z., A. L. Weber, M. D. McMullen, K. Guill, and J. Doebley. 2011. MADS-box genes of maize: frequent targets of selection during domestication. Genetical Research 93: 65-75. [pdf]
     
  • van Heerwaarden, J., J. Doebley, B. Briggs, J. Glaubitz, M. M. Goodman, J.J. Sanchez G., and J. Ross-Ibarra. 2010. A second look at the cradle of maize cultivation. Proc. Natl. Acad. Sci. USA 108: 1088-1092. [pdf]
     
  • van Heerwaarden, J., J. Ross-Ibarra, J. Doebley, J. C. Glaubitz, J. Sánchez González, B. S. Gaut, L. Eguiarte.  2010.  Fine scale genetic structure in the wild ancestor of maize (Zea mays ssp. parviglumis).  Molecular Ecology 19: 1162-1173. [pdf]
     
  • Quijada, P., L. M. Shannon, J. C. Glaubitz, A. J. Studer, and J. Doebley.  2009.  Characterization of a major maize domestication QTL on the short arm of chromosome 1.  Maydica 54: 401-408. [pdf]
     
  • Weber, A. L., Q. Zhao, M. D. McMullen, J. F. Doebley.  2009.  Using association mapping in teosinte to investigate the function of maize selection-candidate genes.  Plos One  4: 1-6, e8227. [pdf]
     
  • Weber, A. L., W. H. Briggs, J. Rucker, B. M. Baltazar, J. J. Sánchez-Gonzalez, P. Feng, E. S. Buckler and J. Doebley. 2008.  The Genetic Architecture of Complex Traits in Teosinte (Zea mays ssp. parviglumis): New Evidence from Association Mapping. Genetics 180: 1221–1232. [pdf]
     
  • Vigouroux, Y., J. C. Glaubitz, Y. Matsuoka, M. M. Goodman, J. Sanchez G. and J. Doebley.  2008.  Population structure and genetic diversity of New World maize landraces assessed by DNA Microsatellites.  Amer. J. Botany 95: 1240-1253. [pdf]
     
  • Zhao, Q., A.-C. Thuillet, N. K Uhlmann, A. Weber, J. A. Rafalski, S. M. Allen, S. Tingey, and J. Doebley. 2008. The role of regulatory genes during maize domestication: evidence from nucleotide polymorphism and gene expression.  Genetics 178: 2133–2143. [pdf]
     
  • Weber, A. L., R. M. Clark, L. Vaughn, J. J. Sanchez-Gonzalez, J. Yu, B. Yandell, P. Bradbury, and J. F. Doebley. 2007. Major regulatory genes in maize contribute to standing variation in teosinte (Zea mays ssp. parviglumis). Genetics 177: 2349-2359. [pdf]
     
  • Briggs, W. H., M. Mc Mullen, B. Gaut, and J. F. Doebley. 2007. Linkage mapping of domestication loci in a large maize-teosinte backcross resource. Genetics 177: 1915-28. [pdf]
     
  • Doebley, J., B. Gaut and B. Smith. 2006. The molecular genetics of domestication. Cell 127: 1309-21.[pdf] [Supplement]
     
  • Doebley, J. 2006. Unfallen grains: How ancient farmers turned weeds into crops. Science 312: 1318-1319. [pdf]
     
  • Clark, R, T. Nussbaum-Wagler, P. Quijada and J. Doebley. 2006.  A distant upstream enhancer at the maize domestication gene, tb1, has pleiotropic effects on plant and inflorescent architecture.  Nature Genetics 38: 594-597. [pdf]
     
  • Bomblies, K., and J. Doebley.  2006.  Pleiotropic effects of the duplicate maize FLORICAULA/LEAFY genes zfl1 and zfl2 on traits under selection during maize domestication.  Genetics 172: 519-531. [pdf]
     
  • Clark, R. M., S. Tavaré, and J. Doebley.  2005.  Estimating a nucleotide substitution rate for maize from polymorphism at a major domestication locus.  Mol. Biol. Evol. 22: 2304–2312. [pdf]
     
  • Wang, H., T. Nussbaum-Wagler, B. Li, Q. Zhao, Y. Vigouroux, M. Faller, K. Bomblies, L. Lukens, and J. Doebley. 2005. The origin of the naked grains of maize. Nature 436: 714-719. [pdf]
       
  • Fukunaga, K., J. Hill, Y. Vigouroux, Y. Matsuoka, J. SanchezG., K. Liu, E. S. Buckler and J. Doebley.  2005.  Genetic diversity and population structure of teosinte. Genetics 169: 2241-2254. [pdf] [Supplemental Files: passport data, SSR markers, Structure results, Tree]
     
  • Vigouroux, Y., S. Mitchell, Y. Matsuoka, M. Hamblin, S. Kresovich, J. S. C. Smith, J. Jaqueth, O. S. Smith and J. Doebley. 2005. An analysis of genetic diversity across the maize genome using microsatellites. Genetics 169: 1617-1630. [pdf]
     
  • Doebley, J. F. 2004. The genetics of maize evolution. Annual Review of Genetics 38: 37-59. [pdf]
     
  • Gallavotti, A., Q. Zhao, J. Kyozuka, R. B. Meeley, M. K. Ritter, J. F. Doebley, M. E. Pe and R. J. Schmidt 2004. The role of barren stalk1 in the architecture of maize. Nature 432: 630-635. [pdf]
     
  • Lauter, N., C. Gustus, A. Westerbergh and J. Doebley. 2004. The inheritance and evolution of leaf pigmentation and pubescence in teosinte. Genetics 167: 1949-1959. [pdf]
     
  • Clark, R. M., E. Linton, J. Messing, and J. Doebley. 2004. Pattern of diversity in the genomic region near the maize domestication gene, tb1. Proc. Natl. Acad. Sci. USA 101: 700-707. [pdf]
     
  • Liu, K., M. M. Goodman, S. Muse, J. S. C. Smith, E. S. Buckler, and J. Doebley. 2003. Genetic structure and diversity among maize Inbred lines as inferred from DNA microsatellites. Genetics 165: 2117-2128.  [pdf]
     
  • Vigouroux, Y., Y. Matsuoka and J. Doebley. 2003. Directional evolution for microsatellite size in maize. Mol. Biol. Evol. 20: 1480-1483. [pdf]
     
  • Bomblies, K., R.-L. Wang, B. A. Ambrose, R. J. Schmidt, R. B. Meeley, and J. Doebley. 2003. Duplicate FLORICAULA/LEAFY homologs zfl1 and zfl2 control inflorescence architecture and flower patterning in maize. Development 130: 2385-2395. [pdf]
     
  • Lauter, N. and J. Doebley. 2002. Genetic variation for phenotypically invariant traits detected in teosinte: implications for the evolution of novel forms. Genetics 160: 333-342. [pdf]
     
  • Matsuoka, Y., S. E. Mitchell, S. Kresovich, M. Goodman and J. Doebley. 2002. Microsatellites in Zea - variability, patterns of mutations, and use for evolutionary studies. Theor. Appl. Genet. 104: 436-450.  [pdf]
     
  • Westerbergh, A. and J. Doebley. 2002. Morphological traits defining species differences in wild relatives of maize are controlled by multiple QTL. Evolution 56: 273-283. [pdf]
     
  • Matsuoka, Y., Y. Vigouroux, M. M. Goodman, J. Sanchez G., E. Buckler and J. Doebley. 2002. A single domestication for maize shown by multilocus microsatellite genotyping. Proc. Natl. Acad. Sci. USA 99: 6080-6084. [pdf]
     
  • Vigouroux, Yves., Jennifer S. Jaqueth, Yoshihiro Matsuoka, Oscar S. Smith, William D. Beavis, J. Stephen C. Smith and John Doebley. 2002. Rate and pattern of mutation at microsatellite loci in maize. Mol. Biol. Evol. 19: 1251-1260.  [pdf]
     
  • Vigouroux, Y., M. McMullen, C. T. Hittinger, K. Houchins, L. Schulz, S. Kresovich, Y. Matsuoka and J. Doebley. 2002. Identifying genes of agronomic importance in maize by screening microsatellites for evidence of selection during domestication. Proc. Natl. Acad. Sci. USA 99: 9650-9655.  [pdf]
     
  • Hubbard, L., P. McSteen, J. Doebley and S. Hake. 2002. Expression patterns and mutant phenotype of teosinte branched1 correlate with growth suppression in maize and teosinte. Genetics 162: 1927-1935.  [pdf]
     
  • Doebley, J. 2001. George Beadle's other hypothesis: one-gene, one-trait. Genetics 158: 487-493.  [pdf]
     
  • Bennetzen, J., E. Buckler, V. Chandler, J. Doebley, J. Dorweiler, B. Gaut, M. Freeling, S. Hake, E. Kellogg, R. S. Poethig, V. Walbot, and S. Wessler. 2001. Genetic evidence and the origin of maize. Latin American Antiquity. 12: 84-86.  [pdf]
     
  • Lukens, L. N. and J. Doebley. 2001. Molecular evolution of the teosinte branched gene among maize and related grasses. Mol. Biol. Evol 18: 627-638.   [pdf]
     
  • Wang, R.-L., A. Stec, J. Hey, L. Lukens, and J. Doebley. 1999. The limits of selection during maize domestication. Nature 398: 236-239.   [pdf]
     
  • Cubas, P., N. Lauter, J. Doebley and E. Coen. 1999 The TCP domain: a motif found in proteins regulating plant growth and development. The Plant Journal 18: 215-222. [pdf]
     
  • White, S. and J. Doebley. 1999. The molecular evolution of terminal ear1, a regulatory gene in the genus Zea. Genetics 153: 1455-1462.  [pdf]
     
  • Lukens, L. N. and J. Doebley. 1999. Epistatic and environmental interactions for quantitative trait loci involved in maize evolution. Genet. Res. 74: 291-302. [pdf]
     
  • Doebley, J. and L. Lukens. 1998. Transcriptional regulation and the evolution of plant form. Plant Cell 10: 1075-1082.  [pdf]
     
  • Doebley, J., A. Stec and L. Hubbard. 1997. The evolution of apical dominance in maize. Nature 386: 485-488.  [pdf]
     
  • Gaut, B. and J. Doebley. 1997. DNA Sequence evidence for the segmental allotetraploid origin of maize. Proc. Natl. Acad. Sci. 94: 6809-6814.  [pdf]
     
  • Doebley, J., A. Stec and C. Gustus. 1995. Teosinte branched1 and the origin of maize: evidence for epistasis and the evolution of dominance. Genetics 141: 333-346.   [pdf]
     
  • Doebley, J., A. Stec and B. Kent. 1995. Suppressor of sessile spikelets1 (sos1): a dominant mutant affecting inflorescence development in maize. Amer. J. Bot. 82: 571-577. [pdf]
     
  • Doebley, J., A. Bacigalupo and A. Stec. 1994. Inheritance of kernel weight in two maize-teosinte hybrid populations: implications for crop evolution. J. Hered. 85: 191-195. [pdf]
     
  • Dorweiler, J., A. Stec, J. Kermicle and J. Doebley. 1993. Teosinte glume architecture 1: A genetic locus controlling a key step in maize evolution. Science 262: 233-235. [pdf]
     
  • Doebley, J. and A. Stec. 1993. Inheritance of the morphological differences between maize and teosinte: comparison of results for two F2 populations. Genetics 134: 559-570. [pdf]
     
  • Doebley, J. 1993. Genetics, development and plant evolution. Curr. Opin. Gen. Dev. 3: 865-872. [pdf]
     
  • Doebley, J. 1992. Mapping the genes that made maize. Trends in Genetics 8: 302-306. [pdf]
     
  • Doebley, J. F. 1992. Molecular systematics and crop evolution. Pp. 202-222 in D. Soltis, P. Soltis and J. Doyle (eds.) Molecular Systematics of Plants. Chapman-Hall, New York. [pdf]
     
  • Doebley, J. and A. Stec. 1991. Genetic analysis of the morphological differences between maize and teosinte. Genetics 129: 285-295. [pdf]
     
  • Doebley, J. F., A. Stec, J. Wendel, and M. Edwards. 1990. Genetic and morphological analysis of a maize-teosinte F2 population: implications for the origin of maize. Proc. Natl. Acad. Sci. USA 87: 9888-9892. [pdf] [Commentary]
     
  • Talbert, L. E., J. F. Doebley, S. Larson and V. L. Chandler. 1990. Tripsacum andersonii is a natural hybrid involving Zea and Tripsacum: molecular evidence. Amer. J. Bot. 77: 722-726. [pdf]
     
  • Doebley, J. F. 1990. Molecular evidence and the evolution of maize. Econ. Bot. 44(3 supplement): 6-27. [pdf]
     
  • Doebley, J. F. 1990. Molecular evidence for gene flow among Zea species. Bioscience 40: 443-448. [pdf]
     
  • Doebley, J. F. 1990. Molecular systematics of Zea (Gramineae). Maydica 35: 143-150. [pdf]
     
  • Doebley, J. F. 1989. Isozymic evidence and the evolution of crop plants. Pp. 165-191 in D. Soltis and P. Soltis (eds.) Isozymes in Plant Biology, Dioscorides Press, Portland, Oregon. [pdf]
     
  • Doebley, J. F. 1989. Molecular evidence for a missing wild relative of maize and the introgression of its chloroplast genome into Zea perennis. Evolution 43: 1555-1558. [pdf]
     
  • Doebley, J. F., J. F. Wendel, J. S. C. Smith, C. W. Stuber and M. M. Goodman. 1988. The origin of cornbelt maize: the isozyme evidence. Econ. Bot. 42: 120-131. [pdf]
     
  • Doebley, J. F., W. T. Renfroe and A. Blanton. 1987. Restriction site variation in the Zea chloroplast genome. Genetics 117: 139-147. [pdf]
     
  • Doebley, J. F., M. M. Goodman and C. W. Stuber. 1987. Patterns of isozyme variation between maize and Mexican annual teosinte. Econ. Bot. 41: 234-246. [pdf]
     
  • Doebley, J. F., M. M. Goodman and C. W. Stuber. 1986. Exceptional genetic divergence of the Northern Flint corns. Amer. J. Bot. 72: 64-69. [pdf]
     
  • Doebley, J. F., M. M. Goodman and C. W. Stuber. 1985. Isozyme variation in the races of maize from Mexico. Amer. J. Bot. 72: 629-639. [pdf]
     
  • Doebley, J. F., M. M. Goodman and C. W. Stuber. 1984. Isoenzymatic variation in Zea (Gramineae). Systematic Botany 9: 203-218. [pdf]
     
  • Doebley, J. F., M. M. Goodman and C. W. Stuber. 1983. Isozyme variation in maize from the southwestern United States: taxonomic and anthropological implications. Maydica 28: 97-120. [pdf]
     
  • Doebley, J. F. 1983. The taxonomy and evolution of Tripsacum and teosinte, the closest relatives of maize. Pp. 15-28 in D. T. Gordon, J. K. Knoke and L. R. Nault (eds.) Proc. Intl. Maize Virus Disease Colloquium and Workshop. The Ohio State University, Ohio Agricultural Research and Development Center, Wooster, Ohio. August 1982. [pdf]
     
  • Doebley, J. F. and H. H. Iltis. 1980. Taxonomy of Zea (Gramineae). I. Subgeneric classification with key to taxa. Amer. J. Bot. 67: 982-993. [pdf]
     
  • Iltis, H. H. and J. F. Doebley. 1980. Taxonomy of Zea (Gramineae). II. Subspecific categories in the Zea mays complex with a generic synopsis. Amer. J. Bot. 67: 994-1004. [pdf]
     
  • Iltis, H. H., J. F. Doebley, R. Guzman and B. Pazy. 1979. Zea diploperennis (Gramineae): A new teosinte from Mexico. Science 203: 186-188. [pdf]
     

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  Last updated August 6, 2010