IGD publications of the last few years
(see also: maize publications from the Panzea project, publications from the Buckler lab, and other useful publications)
2011
Elshire RJ, Glaubitz JC, Sun Q, Poland JA, Kawamoto K, Buckler ES, Mitchell SE. (2011) A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species. PLoS One 6(5): e19379. pdf
Fulton, TM (2011) The evolution of maize. American Paleontologist 19 (1): 10-14 pdf (posted with permission from the Paleontological Research Institution)
Fulton, TM, Buckler, CS, Kissler, RK (2011) The Teacher-Friendly Guide to the Evolution of Maize. Paleontological Research Institution, Ithaca, NY. Available at: http://maize.teacherfriendlyguide.org/
Koebner R and Fulton TM (2011) Principles of Plant Breeding: A Learning module. Generation Challenge Program and the Institute for Genomic Diversity. Available at http://www.generationcp.org/plantbreeding/
Hamblin, MT, ES Buckler, and J-L Jannink (2011) Population genetics of genomics-based crop improvement methods. Trends in Genetics 27:98-106. http://www.sciencedirect.com/science/article/pii/S0168952510002301
Hamblin, MT, and J-L Jannink (2011) Factors affecting the power of haplotype markers in association studies. The Plant Genome 4:145-153. www.crops.org/publications/tpg/abstracts/4/2/145
Yu J., MT Hamblin, and M Tuinstra. 2011. Association Genetics Strategies and Resources, in AH Paterson (ed.), Genetics and Genomics of Saccharinae. Springer. In press.
Caniato FF, Guimarães CT, Hamblin M, Billot C, Rami J-F, et al. (2011) The Relationship between Population Structure and Aluminum Tolerance in Cultivated Sorghum. PLoS ONE 6(6): e20830. doi:10.1371/journal.pone.0020830
Bradbury PJ, T Parker, MT Hamblin, and J-L Jannink (2011) Assessment of power and false discovery in genome-wide association studies using the BarleyCAP germplasm. Crop Science 51:52-59. http://crop.scijournals.org/cgi/content/full/51/1/52
2010
Yan JB, CB Kandianis, CE Harjes, L Bai, EH Kim, XH Yang, DJ Skinner, ZY Fu, SE Mitchell, Q Li, MGS Fernandez, M Zaharieve, R Babu, Y Fu, N Palacios, JS Li, D DellaPenna, T Burtnell, ES Buckler, ML Warburton, T. Rocheford (2010) Rare genetic variation at Zea mays crtRB1 increases beta-carotene in maize grain. Nature genetics 42: 322-327. abstract
Fulton TM (2010) Marker-Assisted Breeding: A Learning module. CD-ROM. Generation Challenge Program and Institute for Genomic Diversity. Also available at http://www.generationcp.org/mab/
Lorenz AJ, MT Hamblin, and J-L Jannink (2010) Performance of single nucleotide polymorphisms versus haplotypes in genome-wide association studies. PLoSONE, e14079. http://dx.plos.org/10.1371/journal.pone.0014079
Hamblin, MT, TJ Close, PR Bhat, S Chao, JG Kling, KJ Abraham, T Blake, WS Brooks, B Cooper, CA Griffey, PM Hayes, DJ Hole, RD Horsley, DE Obert, KP Smith, SE Ullrich, GJ Muehlbauer, and J-L Jannink (2010) Population structure and linkage disequilibrium in US barley germplasm: implications for association mapping. Crop Science 50:556-566. http://crop.scijournals.org/cgi/content/full/50/2/556
2009
Buckler ES, JB Holland, PJ Bradbury, CB Acharya, PJ Brown, C Browne, E Ersoz, S Flint-Garcia, A Garcia, JC Glaubitz, MM Goodman, C Harjes, K Guill, DE Kroon, S Larsson, NK Lepak, H Li, SE Mitchell, G Pressoir, J Peiffer, M Oropeza Rosas, TR Rocheford, MC Romay, S Romero, S Salvo, H Sanchez Villeda, HS da Silva, Q Sun, F Tian, N Upadyayula, D Ware, H Yates, J Yu, Z Zhang, S Kresovich, and MD McMullen. (2009) The Genetic Architecture of Maize Flowering Time. Science 325:714-718. pdf
Carter M, Casa AM, Zeid M, Mitchell SE, Kresovich S (2009) Isolation and characterization of microsatellite loci for the Asian longhorned beetle, Anoplophora glabripennis. Molecular Ecology Resources 9:925-928.
McMullen M. D., S. Kresovich, H. Sanchez Villeda, P. J. Bradbury, H. Li, Q. Sun, S. Flink-Garcia, J. Thornsberry, C. B. Acharya, C. Bottoms, P. J. Brown, C. Browne, M. Eller, K. Guill, C. Harjes, D. E. Kroon, N. K. Lepak, S. E. Mitchell, B. Peterson, G. Pressoir, S. Romero, M. Oropeza Rosas, S. Salvo, H. Yates, M. Hanson, E. Jones, S. Smith, J. C. Glaubitz, M. M. Goodman, D. Ware, J. B. Holland, and E. S. Buckler (2009) Genetic Properties of the Maize Nested Association Mapping Population. Science 325:737-740. pdf
Pressoir G, Brown PJ, Zhu WY, Upadyayula N, Rocheford T, Buckler ES, Kresovich S. (2009) Natural variation in maize architecture is mediated by allelic differences at the PINOID co-ortholog barren inflorescence2. Plant Journal 58: 618-628. pdf
Salas Fernandez, M.G., I. Kapran, S. Souley, M. Abdou, I.H. Maiga, C.B. Acharya, M.T. Hamblin, and S. Kresovich (2009) Collection and characterization of yellow endosperm sorghums from West Africa: a novel genetic pool for biofortification. Genetic Resources and Crop Evolution 56: 991-1000.
Zamora A, Sun Q, Hamblin MT, Aquadro CF, Kresovich S (2009) Positively Selected Disease Response Orthologous Gene Sets in the Cereals Identified Using Sorghum bicolor L. Moench Expression Profiles and Comparative Genomics. Molecular Biology and Evolution 26: 2015-2030.
Zeid M , Mitchell S, Link W, Carter M, Nawar, A, Fulton T, Kresovich S (2009) Simple sequence repeats (SSRs) in faba bean: new loci from Orobanche-resistant cultivar 'Giza 402'. Plant Breeding 128:149-155. pdf
2008
Adetimirin VO, Vroh-Bi I, The C, Menkir A, Mitchell SE, Kresovich S (2008) Diversity analyses of elite maize inbred lines adapted to West and Central Africa using SSR markers. Maydica 53:143-149. pdf
Brown, P.J., W.L. Rooney, C. Franks, and S. Kresovich (2008) Efficient mapping of a plant height QTL in a sorghum association population with introgressed dwarfing genes. Genetics 180:629-637. pdf
Casa, A.M., G.H. Pressoir, P.J. Brown., S.E. Mitchell, W.L. Rooney, M.R. Tuinstra, C.D. Franks, and S. Kresovich (2008) Community resources and strategies for association mapping in sorghum. Crop Sci. 48:30-40. pdf Also see our supplementary data
Fulton TM (2008) Thematic study on The state of the art of methodologies, technologies and capacities for crop improvement and base broadening. A contribution to the Second State of the World’s Plant Genetic Resources for Food and Agriculture.
Fulton TM (2008) Genomics and comparative genomics: A Learning module. CD-ROM. Generation Challenge Program and Institute for Genomic Diversity. Also available at: http://www.generationcp.org/genomics/
Murray, S.C., A. Sharma, W.L. Rooney, P.E. Klein, J.E. Mullet, S.E. Mitchell, and S. Kresovich (2008) Genetic improvement of sorghum as a biofuel feedstock: I. QTL for stem and grain nonstructural carbohydrates. Crop Science 48: 2165-2179. pdf
Murray, S.C., W.L. Rooney, S.E. Mitchell, A. Sharma, P.E. Klein, J.E. Mullet, and S. Kresovich (2008) Genetic improvement of sorghum as a biofuel feedstock: II. QTL for leaf and stem structural carbohydrates. Crop Science 48:2180-2193. pdf
Salas Fernandez, M.G., M.T. Hamblin, L. Li, W.L. Rooney, M.R. Tuinstra, and S. Kresovich (2008) Quantitative trait loci analysis of endosperm color and carotenoid content in sorghum grain. Crop Science 48:1732-1743.
Thuillet, A.C., M.I. Tenaillon, L.K. Anderson, S.E. Mitchell, S. Kresovich, S. Stack, B. Gaut, and J.F. Doebley. 2008. A weak effect of background selection on trinucleotide microsatellites in maize. J. Hered. 99:45-55.
2007?
Danquah E and Fulton TM (2007) Tomato improvement in Ghana. SOL Newsletter 17: 3-4.
Fulton TM (2007) Infrastructure in Ghana supports collaboration. ASCB Newsletter 30 (11): 22-23.
Labate JA, Grandillo S, Fulton T, Munos S, Caicedo AL, Peralta I, et al. (2007) Tomato. In Genome Mapping and Molecular Breeding in Plants, Vol 5: Vegetables. Edited by C.R. Kole. Springer-Verlag, Berlin, Heidelberg, pp. 1-125.
Tanksley SD and Fulton TM (2007) Dissecting Quantitative Trait Variation - Examples from the tomato. Euphytica 154: 365-370
Hamblin, MT, ML Warburton, and ES Buckler (2007) Empirical Comparison of Simple Sequence Repeats and Single Nucleotide Polymorphisms in Assessment of Maize Diversity and Relatedness. PLoSONE:e1367. http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0001367
Hamblin, MT, MG Salas Fernandez, MR Tuinstra, WL Rooney and S Kresovich. 2007. Sequence Variation at Candidate Loci in the Starch Metabolism Pathway in Sorghum: Prospects for Linkage Disequilibrium Mapping. Crop Sci 47:S125-S134. http://crop.scijournals.org/cgi/content/full/47/S2/S-125
Yadav OP , Mitchell SE , Zamora A , Fulton TM and Kresovich S (2007) Development of new simple sequence repeat markers for pearl millet. e-Journal of Semi-Arid Tropical Research 3(1): 34-37 (available at http://www.icrisat.org/Journal/Sorgum_Millet_other_Cereals.htm).
2006
Brown, P.J., P. Klein, E. Bortiri, C. Acharya, W.L. Rooney, and S. Kresovich (2006) Inheritance of inflorescence architecture in Sorghum. Theor. Appl. Genet. 113:931-942.
Casa, A.M., S.E. Mitchell, J.D. Jensen, M.T. Hamblin, A.H. Paterson, C.F. Aquadro, and S. Kresovich (2006) Evidence for a selective sweep on chromosome 1 of cultivated sorghum. Plant Genome 1:S1-S15.
Feltus, F.A., G.E. Hart, K.F. Schertz, A.M. Casa, S. Kresovich, S. Abraham, P.E. Klein, P.J.Brown, A.H. Paterson (2006) Alignment of genetic maps and QTLs between inter- and intraspecific Sorghum populations. Theor. Appl. Genet. 112:1295-1305.
Hamblin, MT, AM Casa, H Sun, SC Murray, AH Paterson, CF Aquadro, and S Kresovich (2006) Challenges of detecting directional selection after a bottleneck: lessons from Sorghum bicolor. Genetics 173:953-964. http://www.genetics.org/cgi/content/full/173/2/953
Kresovich, S., A.M. Casa, A.J. Garris, S.E. Mitchell, and M.T. Hamblin (2006) Improving the connection between effective crop conservation and breeding. In: Plant Breeding: Hallauer Symposium, pp. 90-96, Blackwell, Oxford.
Rice, E.B., M.E. Smith, S.E. Mitchell, and S. Kresovich (2006) Conservation and change: a comparison of in situ and ex situ conservation of Jala maize germplasm. Crop Sci. 46:428-436.
Wei Zhao, Payan Canaran, Rebecca Jurkuta, Theresa Fulton, Jeffrey Glaubitz, Edward Buckler, John Doebley, Brandon Gaut, Major Goodman, Jim Holland, Stephen Kresovich, Michael McMullen, Lincoln Stein, Doreen Ware (2006) Panzea: A Database And Resource For Molecular And Functional Diversity In The Maize Genome. Nucl. Acids Res. 34:D752-757 pdf ? Yu, J., G. Pressoir, W.H. Briggs, I.V. Bi, M. Yamasaki, J.F. Doebley, M.D. McMullen, B.S. Gaut, D.M. Nielsen, J.B. Holland, S. Kresovich, E.S. Buckler (2006) A unified mixed-model method for association mapping that accounts for multiple levels of relatedness. Nat. Genetics. 38:203-208.
2005
Casa, A.M., S.E. Mitchell, M.T. Hamblin, H. Sun, J.E. Bowers, A.H. Paterson, C.F. Aquadro, and S. Kresovich (2005) Diversity and selection in sorghum: simultaneous analyses using simple sequence repeats (SSRs). Theor. Appl. Genet. 111:23-30.
Flint-Garcia, S.A., A.C. Thuillet, J.M. Yu, G. Pressoir, S.M. Romero, S.E. Mitchell, J. Doebley, S. Kresovich, M.M. Goodman, and E.S. Buckler (2005) Maize association population: a high-resolution platform for quantitative trait locus dissection. Plant J. 44:1054-1064.
Garris, A.J., T.H. Tai, J. Coburn, S. Kresovich, and S.R. McCouch (2005) Genetic structure and diversity in Oryza sativa L. Genetics 169:1631-1638.
Hamblin, MT, MG Salas Fernandez, AM Casa, SE Mitchell, AH Paterson, and S Kresovich (2005) Equilibrium processes cannot explain high levels of short- and medium-range linkage disequilibrium in the domesticated grass Sorghum bicolor. Genetics 171: 1247-1256. http://www.genetics.org/cgi/content/full/171/3/1247
Ho, JC, S Kresovich, KR Lamkey (2005) Extent and Distribution of Genetic Variation in U.S. Maize: Historically Important Lines and Their Open-Pollinated Dent and Flint Progenitors. Crop Science 45: 1891-1900.
Sorghum Genomics Planning Workshop Participants (2005) Toward Sequencing the Sorghum Genome. A U.S. National Science Foundation-Sponsored Workshop Report. Plant Physiology 138: 1898-1902
