International Journal of Plant Genomics
Volume 2008 (2008), Article ID 496957, 10 pages
doi:10.1155/2008/496957
Resource Review

MaizeGDB: The Maize Model Organism Database for Basic, Translational, and Applied Research

Carolyn J. Lawrence,1,2,3 Lisa C. Harper,4,5 Mary L. Schaeffer,6,7 Taner Z. Sen,1,2 Trent E. Seigfried,1 and Darwin A. Campbell1

1USDA-ARS, Corn Insects and Crop Genetics Research Unit, Ames, IA 50011, USA
2Department of Genetics, Development and Cell Biology, Iowa State University, Ames, IA 50011, USA
3Department of Agronomy, Iowa State University, Ames, IA 50011, USA
4USDA-ARS, Plant Gene Expression Center, 800 Buchanan Street, Albany, CA 94710, USA
5Department of Molecular and Biology, University of California Berkeley, Berkeley, CA 94720, USA
6USDA-ARS, Plant Genetics Research Unit, Columbia, MO 65211, USA
7Division of Plant Sciences, University of Missouri Columbia, Columbia, MO 65211, USA

Received 31 August 2007; Accepted 10 July 2008

Academic Editor: Chunguang Du

Copyright © 2008 Carolyn J. Lawrence et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Linked References

  1. C. J. Lawrence and V. Walbot, “Translational genomics for bioenergy production from fuelstock grasses: maize as the model species,” The Plant Cell, vol. 19, no. 7, pp. 2091–2094, 2007. View at Publisher · View at Google Scholar · View at PubMed
  2. B. McClintock, “The origin and behavior of mutable loci in maize,” Proceedings of the National Academy of Sciences of the United States of America, vol. 36, no. 6, pp. 344–355, 1950. View at Publisher · View at Google Scholar
  3. N. Fedoroff, S. Wessler, and M. Shure, “Isolation of the transposable maize controlling elements Ac and Ds,” Cell, vol. 35, no. 1, pp. 235–242, 1983. View at Publisher · View at Google Scholar
  4. H. B. Creighton and B. McClintock, “A correlation of cytological and genetical crossing-over in Zea mays,” Proceedings of the National Academy of Sciences of the United States of America, vol. 17, no. 8, pp. 492–497, 1931. View at Publisher · View at Google Scholar
  5. E. H. Coe, Jr., “The properties, origin, and mechanism of conversion-type inheritance at the B locus in maize,” Genetics, vol. 53, no. 6, pp. 1035–1063, 1966.
  6. C. J. Lawrence, M. L. Schaeffer, T. E. Seigfried, D. A. Campbell, and L. C. Harper, “MaizeGDB's new data types, resources and activities,” Nucleic Acids Research, vol. 35, database issue, pp. D895–D900, 2007. View at Publisher · View at Google Scholar · View at PubMed
  7. D. H. Ware, P. Jaiswal, J. Ni, et al., “Gramene, a tool for grass genomics,” Plant Physiology, vol. 130, no. 4, pp. 1606–1613, 2002. View at Publisher · View at Google Scholar · View at PubMed
  8. Achievements of the National Plant Genome Initiative and New Horizons in Plant Biology, National Academies Press, Washington, DC, USA, 2008.
  9. D. A. Benson, I. Karsch-Mizrachi, D. J. Lipman, J. Ostell, and D. L. Wheeler, “GenBank,” Nucleic Acids Research, vol. 35, database issue, pp. D21–D25, 2007. View at Publisher · View at Google Scholar · View at PubMed
  10. Q. Dong, C. J. Lawrence, S. D. Schlueter, et al., “Comparative plant genomics resources at PlantGDB,” Plant Physiology, vol. 139, no. 2, pp. 610–618, 2005. View at Publisher · View at Google Scholar · View at PubMed
  11. J. Quackenbush, F. Liang, I. Holt, G. Pertea, and J. Upton, “The TIGR gene indices: reconstruction and representation of expressed gene sequences,” Nucleic Acids Research, vol. 28, no. 1, pp. 141–145, 2000. View at Publisher · View at Google Scholar
  12. S. F. Altschul, T. L. Madden, A. A. Schaffer, et al., “Gapped BLAST and PSI-BLAST: a new generation of protein database search programs,” Nucleic Acids Research, vol. 25, no. 17, pp. 3389–3402, 1997. View at Publisher · View at Google Scholar
  13. F. Wei, E. H. Coe, Jr., W. Nelson, et al., “Physical and genetic structure of the maize genome reflects its complex evolutionary history,” PLoS Genetics, vol. 3, no. 7, p. e123, 2007. View at Publisher · View at Google Scholar · View at PubMed
  14. J. Gardiner, S. Schroeder, M. L. Polacco, et al., “Anchoring 9,371 maize expressed sequence tagged unigenes to the bacterial artificial chromosome contig map by two-dimensional overgo hybridization,” Plant Physiology, vol. 134, no. 4, pp. 1317–1326, 2004. View at Publisher · View at Google Scholar · View at PubMed
  15. R. Lerdorf, P. MacIntyre, and K. Tatroe, Programming PHP, O'Reilly, Sebastopol, Calif, USA, 2006.
  16. L. Wall, T. Christiansen, and J. Orwant, Programming Perl, O'Reilly, Cambridge, Mass, USA, 2000.
  17. R. Scholl, M. M. Sachs, and D. Ware, “Maintaining collections of mutants for plant functional genomics,” Methods in Molecular Biology, vol. 236, pp. 311–326, 2003. View at Publisher · View at Google Scholar · View at PubMed
  18. S. Carpenter, “Science careers. Carving a career in translational research,” Science, vol. 317, no. 5840, pp. 966–967, 2007. View at Publisher · View at Google Scholar · View at PubMed
  19. E. Bortiri, G. Chuck, E. Vollbrecht, T. Rocheford, R. Martienssen, and S. Hake, “ramosa2 encodes a LATERAL ORGAN BOUNDARY domain protein that determines the fate of stem cells in branch meristems of maize,” The Plant Cell, vol. 18, no. 3, pp. 574–585, 2006. View at Publisher · View at Google Scholar · View at PubMed
  20. E. Bortiri, D. Jackson, and S. Hake, “Advances in maize genomics: the emergence of positional cloning,” Current Opinion in Plant Biology, vol. 9, no. 2, pp. 164–171, 2006. View at Publisher · View at Google Scholar · View at PubMed
  21. H. Wang, T. Nussbaum-Wagler, B. Li, et al., “The origin of the naked grains of maize,” Nature, vol. 436, no. 7051, pp. 714–719, 2005. View at Publisher · View at Google Scholar · View at PubMed
  22. E. H. Coe, Jr., M. G. Neuffer, and D. A. Hosington, “The genetics of corn,” in Corn and Corn Improvement, G. F. Sprague and J. W. Dudley, Eds., pp. 81–258, American Society of Agronomy, Madison, Wis, USA, 1988.
  23. E. Grotewold, B. J. Drummond, B. Bowen, and T. Peterson, “The myb-homologous P gene controls phlobaphene pigmentation in maize floral organs by directly activating a flavonoid biosynthetic gene subset,” Cell, vol. 76, no. 3, pp. 543–553, 1994. View at Publisher · View at Google Scholar
  24. B. R. Wiseman, M. E. Snook, and D. J. Isenhour, “Maysin content and growth of corn earworm larvae (Lepidoptera: Noctuidae) on silks from first and second ears of corn,” Journal of Economic Entomology, vol. 86, no. 3, pp. 939–944, 1993.
  25. P. F. Byrne, M. D. Mcmullen, M. E. Snook, et al., “Quantitative trait loci and metabolic pathways: genetic control of the concentration of maysin, a corn earworm resistance factor, in maize silks,” Proceedings of the National Academy of Sciences of the United States of America, vol. 93, no. 17, pp. 8820–8825, 1996. View at Publisher · View at Google Scholar
  26. J. M. Thornsberry, M. M. Goodman, J. Doebley, S. Kresovich, D. Nielsen, and E. S. Buckler, “Dwarf8 polymorphisms associate with variation in flowering time,” Nature Genetics, vol. 28, no. 3, pp. 286–289, 2001. View at Publisher · View at Google Scholar · View at PubMed
  27. M. Yano and T. Sasaki, “Genetic and molecular dissection of quantitative traits in rice,” Plant Molecular Biology, vol. 35, no. 1-2, pp. 145–153, 1997. View at Publisher · View at Google Scholar
  28. S. A. Flint-Garcia, A.-C. Thuillet, J. Yu, et al., “Maize association population: a high-resolution platform for quantitative trait locus dissection,” The Plant Journal, vol. 44, no. 6, pp. 1054–1064, 2005. View at Publisher · View at Google Scholar · View at PubMed
  29. S. Salvi, G. Sponza, M. Morgante, et al., “Conserved noncoding genomic sequences associated with a flowering-time quantitative trait locus in maize,” Proceedings of the National Academy of Sciences of the United States of America, vol. 104, no. 27, pp. 11376–11381, 2007. View at Publisher · View at Google Scholar · View at PubMed
  30. W. F. Tracy, “Sweet corn,” in Specialty Corns, A. R. Hallauer, Ed., pp. 155–198, CRC Press, Boca Raton, Fla, USA, 2nd edition, 2000.
  31. E. T. Johnson, M. A. Berhow, and P. F. Dowd, “Expression of a maize Myb transcription factor driven by a putative silk-specific promoter significantly enhances resistance to Helicoverpa zea in transgenic maize,” Journal of Agricultural and Food Chemistry, vol. 55, no. 8, pp. 2998–3003, 2007. View at Publisher · View at Google Scholar · View at PubMed
  32. J. D. F. Meyer, M. E. Snook, K. E. Houchins, B. G. Rector, N. W. Widstrom, and M. D. McMullen, “Quantitative trait loci for maysin synthesis in maize (Zea mays L.) lines selected for high silk maysin content,” Theoretical and Applied Genetics, vol. 115, no. 1, pp. 119–128, 2007. View at Publisher · View at Google Scholar · View at PubMed
  33. S. J. Szalma, E. S. Buckler, IV, M. E. Snook, and M. D. McMullen, “Association analysis of candidate genes for maysin and chlorogenic acid accumulation in maize silks,” Theoretical and Applied Genetics, vol. 110, no. 7, pp. 1324–1333, 2005. View at Publisher · View at Google Scholar · View at PubMed
  34. K. Ilic, E. A. Kellogg, P. Jaiswal, et al., “The plant structure ontology, a unified vocabulary of anatomy and morphology of a flowering plant,” Plant Physiology, vol. 143, no. 2, pp. 587–599, 2007. View at Publisher · View at Google Scholar · View at PubMed
  35. M. Ashburner, C. A. Ball, J. A. Blake, et al., “Gene ontology: tool for the unification of biology. The gene ontology consortium,” Nature Genetics, vol. 25, no. 1, pp. 25–29, 2000. View at Publisher · View at Google Scholar · View at PubMed