Projects

DISSECTING COMPLEX TRAITS IN MAIZE AND BIOFUEL GRASSES BY APPLYING GENOMICS, BIOINFORMATICS, AND GENETIC RESOURCES Appropriated (D)   Accession Number: 412879

ASSOCIATION MAPPING IN CROP PLANTS Specific Cooperative Agreement (S)   Accession Number: 414287

Publications (Clicking on the reprint icon will take you to the publication reprint.)

Aluminum tolerance is associated with higher MATE1 gene copy-number in maize - (Peer Reviewed Journal) - (07-Feb-13)

Compare Identity By Sequence Relationships of the Ames Diversity Panel using TYPSimSelector [abstract] - (Abstract Only)

Mauch, E., Andorf, C.M., Millard, M.J., Romay, C., Buckler Iv, E.S., Gardner, C.A., Lawrence, C.J. 2013. Compare Identity By Sequence Relationships of the Ames Diversity Panel using TYPSimSelector [abstract]. In: Maize Genetics Conference, St. Charles, IL. Mar. 14-17, 2013. p. 55.

Lessons from dwarf8 on the strengths and weaknesses of structured association mapping - (Peer Reviewed Journal)

Larson, S., Lipka, A.E., Buckler IV, E.S. 2013. Lessons from dwarf8 on the strengths and weaknesses of structured association mapping. PLoS Genetics. 9(2):e1003246.

Switchgrass genomic diversity, ploidy and evolution: novel insights from a network-based SNP discovery protocol - (Peer Reviewed Journal)

Lu, F., Lipka, A.E., Elshire, R.J., Glaubitz, J.C., Cherney, J.H., Casler, M.D., Buckler Iv, E.S., Costich, D. 2013. Switchgrass genomic diversity, ploidy and evolution: novel insights from a network-based SNP discovery protocol. PLoS Genetics. 9(1):e1003215. doi:10.1371/journal.pgen.1003215.

Genetic analysis of visually scored orange kernel color in maize - (Peer Reviewed Journal) - (16-Aug-12)

SNP discovery with EST and NextGen sequencing in switchgrass (panicum virgatum L.) - (Peer Reviewed Journal)

Ersoz, E.S., Wright, M.H., Pangilinan, J.L., Sheehan, M.J., Tobias, C.M., Casler, M.D., Buckler IV, E.S., Costich, D. 2012. SNP discovery with EST and NextGen sequencing in switchgrass (panicum virgatum L.). PLoS One. 7(9):e44112.

GAPIT: genome association and prediction integrated tool - (Peer Reviewed Journal)

Lipka, A.E., Feng, T., Wang, Q., Peiffer, J., Li, M., Bradbury, P., Gore, M.A., Buckler IV, E.S., Zhang, Z. 2012. GAPIT: genome association and prediction integrated tool. Bioinformatics. DOI: 10.1093/bioinformatics/bts444.

ZmCCT and the genetic basis of day-length adaptation underlying the postdomestication spread of maize - (Peer Reviewed Journal)

Hung, H., Shannon, L.M., Tian, F., Bradbury, P., Chen, C., Flint Garcia, S.A., McMullen, M.D., Ware, D., Buckler IV, E.S., Doebley, J.F., Holland, J.B. 2012. ZmCCT and the genetic basis of day-length adaptation underlying the postdomestication spread of maize. Proceedings of the National Academy of Sciences. 109:E1913–E1921.

Genic and non-genic contributions to natural variation of quantitative traits in maize - (Peer Reviewed Journal)

Li, X., Zhu, C., Yeh, C., Wu, W., Takacs, E.M., Petsch, K.A., Tian, F., Bai, G., Buckler IV, E.S., Muehlbauer, G.J., Timmermans, M., Scanlon, M.J., Schnable, P.S., Yu, J. 2012. Genic and non-genic contributions to natural variation of quantitative traits in maize. Genome Research. doi:10.1101/gr.140277.112.

Maize HapMap2 identifies extant variation from a genome in flux - (Peer Reviewed Journal)

Chia, J., Song, C., Bradbury, P., Costich, D., De Leon, N., Doebley, J., Elshire, R., Gaut, B., Geller, L., Glaubitz, J., Gore, M.A., Guill, K., Holland, J., Hufford, M., Lai, J., Li, M., Liu, X., Lu, Y., McCombie, R., Nelson, R., Poland, J.A., Prasanna, B., Phyajarvi, T., Rong, T., Sekhon, R., Sun, Q., Tenaillon, M., Tian, F., Wang, J., Xu, X., Zhang, Z., Kaeppler, S.M., Ross-Ibarra, J., McMullen, M.D., Buckler IV, E.S., Zhang, G., Xu, Y., Ware, D. 2012. Maize HapMap2 identifies extant variation from a genome in flux. Nature Genetics. 40:803-807. DOI: 10.1038/ng.2313.

Comparative population genomics of maize domestication and improvement - (Peer Reviewed Journal)

Hufford, M., Xu, X., Van Heerwaarden, J., Pyhajarvi, T., Chia, J., Cartwright, R., Elshire, R., Glaubitz, J., Guill, K.E., Kaeppler, S., Lai, J., Morrell, P., Shannon, L., Song, C., Springer, N., Swanson-Wagner, R., Tiffin, P., Wang, J., Zhang, G., Doebley, J., McMullen, M.D., Ware, D., Buckler IV, E.S., Yang, S., Ross-Ibarra, J. 2012. Comparative population genomics of maize domestication and improvement. Nature Genetics. 44:808-811. DOI: 10.1038/ng.2309.

Crop genomics: advances and applications - (Review Article)

Morrell, P.L., Buckler IV, E.S., Ross-Ibarra, J. 2011. Crop genomics: advances and applications. Nature Reviews Genetics. 13:85-96.

Genetic architecture of maize kernel composition in the nested association mapping and inbred association panels - (Peer Reviewed Journal)

Cook, J.P., McMullen, M.D., Holland, J.B., Tian, F., Bradbury, P., Ross-Ibarra, J., Buckler IV, E.S., Flint-Garcia, S.A. 2012. Genetic architecture of maize kernel composition in the nested association mapping and inbred association panels. Plant Physiology. 158:824-834.

A large maize (Zea Mays L.) SNP genotyping array: development and germplasm genotyping, and genetic mapping to compare with the B73 reference genome - (Peer Reviewed Journal)

Ganal, M.W., Durstewitz, G., Polley, A., Berard, A., Buckler IV, E.S., Charcosset, A., Clarke, J.D., Graner, E., Mcmullen, M.D., Falque, M. 2011. A large maize (Zea Mays L.) SNP genotyping array: development and germplasm genotyping, and genetic mapping to compare with the B73 reference genome. PLoS One. 6(12):e28334. DOI: 10.1371/journal.pone.0028334.

Distinct genetic architectures for male and female inflorescence traits of maize - (Peer Reviewed Journal)

Brown, P.J., Upadyayula, N., Mahone, G.S., Tian, F., Bradbury, P., Myles, S., Holland, J.B., Flint Garcia, S.A., McMullen, M.D., Buckler IV, E.S., Rocheford, T.R. 2011. Distinct genetic architectures for male and female inflorescence traits of maize. PLoS Genetics. 7(11):e1002383.

The relationship between parental genetic or phenotypic divergence and progeny variation in the maize nested association mapping population - (Peer Reviewed Journal)

Hung, H., Browne, C.J., Guill, K.E., Coles, N., Eller, M., Garcia, A., Lepak, N.K., Melia-Hancock, S., Oropeza-Rosas, M., Salvo, S., Upadyayula, N., Buckler IV, E.S., Flint Garcia, S.A., Mcmullen, M.D., Rocheford, T., Holland, J.B. 2012. The relationship between parental genetic or phenotypic divergence and progeny variation in the maize nested association mapping population. Heredity. 108:490-499.

A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species - (Peer Reviewed Journal)

Elshire, R.J., Glaubitz, J.C., Sun, Q., Poland, J.A., Kawamoto, K., Buckler IV, E.S., Mitchell, S.E. 2011. A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species. PLoS One. 123:307-326.

Genome-wide nested association mapping of quantitative resistance to northern leaf blight in maize - (Peer Reviewed Journal)

Poland, J.A., Bradbury, P., Buckler IV, E.S., Nelson, R. 2011. Genome-wide nested association mapping of quantitative resistance to northern leaf blight in maize. Proceedings of the National Academy of Sciences. 108:6893-6898.

Population genetics of genomics-based crop improvement methods - (Review Article)

Hamblin, M., Buckler Iv, E.S., Jannink, J. 2011. Population genetics of genomics-based crop improvement methods. Trends in Genetics. 27:98-106.

Joint QTL linkage mapping for multiple-cross mating design sharing one common parent - (Peer Reviewed Journal)

Li, H., Bradbury, P., Buckler IV, E.S., Ersoz, E., Wang, J. 2011. Joint QTL linkage mapping for multiple-cross mating design sharing one common parent. PLoS One. 6:e17573.

Genome-wide association study of maize identifies genes affecting leaf architecture - (Peer Reviewed Journal)

Tian, F., Bradbury, P., Brown, P., Sun, Q., Flint Garcia, S.A., Rocheford, T.R., McMullen, M.D., Holland, J.B., Buckler IV, E.S. 2011. Genome-wide association study of maize identifies genes affecting leaf architecture. Nature Genetics. 43:159-162.

Genome-wide association study of quantitative resistance to southern leaf blight in the maize nested association mapping population - (Peer Reviewed Journal)

Kump, K., Bradbury, P., Buckler IV, E.S., Belcher, A., Oropeza-Rosas, M., Wisser, R., Zwonitzer, J., Kresovich, S., McMullen, M.D., Ware, D., Balint Kurti, P.J., Holland, J.B. 2011. Genome-wide association study of quantitative resistance to southern leaf blight in the maize nested association mapping population. Nature Genetics. 43:163-168.

Genetic structure and domestication history of the grape - (Peer Reviewed Journal)

Myles, S., Boyko, A., Owens, C.L., Brown, P., Fabrizio, G., Aradhya, M.K., Prins, B.H., Reynolds, A., Chia, J., Ware, D., Bustamante, C., Buckler IV, E.S. 2011. Genetic structure and domestication history of the grape. Proceedings of the National Academy of Sciences. 10.1073/pnas.1009363108.

Fine quantitative trait loci mapping of carbon and nitrogen metabolism enzyme activities and seedling biomass in the intermated maize IBM mapping population - (Peer Reviewed Journal)

Zhang, N., Gibon, Y., Gur, A., Chen, C., Lepak, N.K., Hohne, M., Zhang, Z., Kroon, D., Tschoep, H., Sitt, M., Buckler IV, E.S. 2010. Fine quantitative trait loci mapping of carbon and nitrogen metabolism enzyme activities and seedling biomass in the intermated maize IBM mapping population. Plant Physiology. 154:1753-1765.

Response-Additional Implications of Perennial Bioenergy Crops: Hydrology and Climate - (Research Notes)

Glover, J.D., Reganold, J.P., Bell, L.W., Borevitz, J., Brummer, E.C., Buckler Iv, E.S., Cox, C.M., Cox, T.S., Crews, T.E., Culman, S.W., Dehann, L.R., Eriksson, D., Gill, B.S., Holland, J.B., Hu, F., Hulke, B.S., Ibrahim, A., Jackson, W., Jones, S.S., Murray, S.C., Paterson, A.H., Ploschuk, E., Sacks, E.J., Snapp, S., Tao, D., Van Tassel, D.L., Wade, L.J., Wyse, D.L., Xu, Y. 2010. Perennial questions of hydrology and climate - response. Science. 330:33-34.

Genome-wide and fine resolution association studies of 14 agronomic traits in rice land races - (Peer Reviewed Journal)

Huang, X., Sang, T., Zhao, Q., Wei, X., Feng, Q., Zhao, Y., Li, C., Zhu, C., Lu, T., Zhang, Z., Li, M., Fan, D., Guo, Y., Wang, A., Wang, L., Deng, L., Li, W., Lu, Y., Weng, Q., Liu, K., Huang, T., Zhou, T., Jing, Y., Li, W., Zhang, L., Buckler IV, E.S., Qian, Q., Zhang, Q., Li, J., Han, B. 2010. Genome-wide and fine resolution association studies of 14 agronomic traits in rice land races. Nature Genetics. 42:961-967.

Genetic Association Mapping Identifies Single Nucleotide Polymorphisms in Genes that Affect Abscisic Acid Levels in Maize Floral Tissues During Drought - (Peer Reviewed Journal)

Setter, T.L., Yan, J., Warburton, M.L., Ribaut, J., Xu, Y., Sawkins, M., Buckler, E.S., Zhang, Z., Gore, M.A. 2010. Genetic association mapping identifies single nucleotide polymorphisms in genes that affect abscisic acid levels in maize floral tissues during drought. Journal of Experimental Botany. 62:701-716. doi:10.1093/jxb/erq308.

Genome-size variation in switchgrass (Panicum virgatum): flow cytometry and cytology reveal rampant aneuploidy - (Peer Reviewed Journal)

Costich, D., Friebe, B., Sheehan, M.J., Casler, M.D., Buckler IV, E.S. 2010. Genome-size variation in switchgrass (Panicum virgatum): flow cytometry and cytology reveal rampant aneuploidy. The Plant Genome. 3:130-141.

Increased Food and Ecosystem Security via Perennial Grains - (Peer Reviewed Journal)

Glover, J.D., Reganold, J.P., Bell, L.W., Borevitz, J., Brummer, E.C., Buckler IV, E.S., Cox, C.M., Cox, T., Crews, T.E., Culman, S.W., Dehann, L.R., Eriksson, D., Gill, B., Holland, J.B., Hu, F.Y., Hulke, B.S., Ibrahim, A., Jackson, W., Jones, S., Murray, S., Paterson, A.H., Ploschuk, E., Sacks, E.J., Snapp, S., Tao, D.Y., Van Tassel, D., Wade, L., Wyse, D., Xu, Y. 2010. Increasing Food and Ecosystem Security through Perennial Grain Breeding. Science. 328:1638-1639

Association and linkage analysis of aluminum tolerance genes in maize - (Peer Reviewed Journal)

Krill, A.M., Kirst, M., Kochian, L.V., Buckler Iv, E.S., Hoekenga, O. 2010. Association and linkage analysis of aluminum tolerance genes in maize. PLoS One. 5(4):e9958. DOI: 10.1371/journal.pone.0009958.

Rare Genetic Variation at Zea mays crtRB1 Increases B-Carotene in Maize Grain - (Peer Reviewed Journal)

Yan, J., Kandianis, C.B., Haries, C.E., Bai, L., Kim, E., Yang, X., Skinner, D., Fu, Z., Mitchell, S., Li, Q., Fernandez, M., Zaharieva, M., Babu, R., Fu, Y., Palacios, N., Li, J., DellaPenna, D., Brutnell, T., Buckler, E.S., Warburton, M.L., Rocheford, T. 2010. Rare Genetic Variation at Zea mays crtRB1 Increases B-carotene in Maize Grain. Nature Genetics. 42:322-329.

Mixed linear model approach adapted for genome-wide association studies - (Peer Reviewed Journal)

Zhang, Z., Ersoz, E., Lai, C., Todhunter, R., Tiwari, H.K., Gore, M.A., Bradbury, P., Yu, J., Arnett, D., Ordovas, J.M., Buckler IV, E.S. 2010. Mixed linear model approach adapted for genome-wide association studies. Nature Genetics. 42:355-360.

Genetic analysis of central carbon metabolism unveils an amino acid substitution that alters maize NAD-dependent isocitrate dehydrogenase activity - (Peer Reviewed Journal)

Zhang, N., Gur, A., Gibbon, Y., Sulpice, R., Flint Garcia, S.A., Mcmullen, M.D., Stitt, M., Buckler IV, E.S. 2010. Genetic analysis of central carbon metabolism unveils an amino acid substitution that alters maize NAD-dependent isocitrate dehydrogenase activity. PLoS One. 5(4):e9991.

DNA Markers and Sequences Reveal Geographic Races of Reed Canarygrass (Phalaris arundinacea) - (Abstract Only)

Jakubowski, A., Casler, M.D., Denton, M., Costich, D., Buckler Iv, E.S., Phillips, M., Jackson, R., Krohn, A. 2010. DNA Markers and Sequences Reveal Geographic Races of Reed Canarygrass (Phalaris arundinacea) [abstract]. Proceedings of the 6th International Symposium on the Molecular Breeding of Forage and Turf, March 15-19, 2010, Buenos Aires, Argentina. Abstract P-44: p.98.

Rapid genomic characterization of the genus Vitis - (Peer Reviewed Journal)

Myles, S., Chia, J., Hurwitz, B., Simon, C.J., Zhong, G., Buckler IV, E.S., Ware, D. 2010. Rapid genomic characterization of the genus Vitis. PLoS One. 5(1):e8219.

Genetic Characterization and Linkage Disequilibrium Estimation of a Global Maize Collection Using SNP Markers - (Peer Reviewed Journal)

Yan, J., Shah, T., Warburton, M.L., Buckler IV, E.S., McMullen, M.D., Crouch, J. 2009. Genetic Characterization and Linkage Disequilibrium Estimation of a Global Maize Collection Using SNP Markers. PLoS One. 4:1-14.

A first generation haplotype map of maize - (Peer Reviewed Journal)

Gore, M.A., Chia, J., Elshire, R.J., Sun, Q., Ersoz, E.S., Hurwitz, B.L., Peiffer, J.A., Mcmullen, M.D., Grills, G.S., Ross-Ibarra, J., Ware, D., Buckler Iv, E.S. 2009. A first generation haplotype map of maize. Science. 326(5956):1115-1117.

Software engineering the mixed model for genome-wide association studies on large samples - (Peer Reviewed Journal)

Zhang, Z., Buckler IV, E.S., Casstevens, T., Bradbury, P. 2009. Software engineering the mixed model for genome-wide association studies on large samples. Briefings in Bioinformatics. 10(6):664-675.

Heterosis is Prevalent for Multiple Traits in Diverse Maize Germplasm - (Peer Reviewed Journal)

Flint Garcia, S.A., Buckler IV, E.S., Tiffin, P., Ersoz, E., Springer, N.M. 2009. Heterosis is Prevalent for Multiple Traits in Diverse Maize Germplasm. PLoS One. 4:e7433.

Joint linkage association analysis of aluminum tolerance in maize - (Proceedings)

Hoekenga, O., Buckler Iv, E.S., Kirst, M., Krill, A., Lyi, S., Magalhaes, J., Maron, L., Kochian, L.V. 2009. Joint linkage association analysis of aluminum tolerance in maize. Symposium Proceedings. Proceedings of the 7th International Symposium on Plant-Soil Interaction at Low pH, October 5-10, 2009, Guangzhou, China. p. 136-137.

Association mapping: critical considerations shift from genotyping to experimental design - (Peer Reviewed Journal)

Buckler IV, E.S., Myles, S., Peiffer, J., Brown, P., Ersoz, E., Zhang, Z., Costich, D. 2009. Association mapping: critical considerations shift from genotyping to experimental design. The Plant Cell. 10.1105/tpc.109.068437.

Genetic Properties of the Maize Nested Association Mapping Population - (Peer Reviewed Journal)

Mcmullen, M.D., Kresovich, S., Sanchez-Villeda, H., Bradbury, P., Li, H., Sun, Q., Flint Garcia, S.A., Thornsberry, J., Acharya, C., Bottoms, C., Brown, P., Browne, C.J., Eller, M.S., Guill, K.E., Harjes, C., Kroon, D., Lepak, N.K., Mitchell, S., Peterson, B.E., Pressoir, G., Romero, S.M., Oropeza Rosas, M., Salvo, S.A., Yates, H., Hanson, M., Jones, E., Smith, S., Glaubitz, J., Goodman, M., Ware, D., Holland, J.B., Buckler Iv, E.S. 2009. Genetic Properties of the Maize Nested Association Mapping Population. Science. 325:737-740.

The Genetic Architecture of Maize Flowering Time - (Peer Reviewed Journal)

Buckler Iv, E.S., Holland, J.B., Mcmullen, M.D., Kresovich, S., Acharya, C., Bradbury, P., Brown, P., Browne, C.J., Eller, M.S., Ersoz, E., Flint Garcia, S.A., Garcia, A., Glaubitz, J.C., Goodman, M., Haries, C., Guill, K.E., Kroon, D., Larsson, S., Lepak, N.K., Li, H., Mitchell, S.E., Pressoir, G., Peiffer, J., Oropeza Rosas, M., Rocheford, T., Romay, C., Romero, S., Salvo, S.A., Sanchez Villeda, H., Sun, Q., Tian, F., Upadyayula, N., Ware, D., Yates, H., Yu, J., Zhang, Z. 2009. The Genetic Architecture of Maize Flowering Time. Science. 325(5941):714-718.

Status and Prospects of Association Mapping in Plants - (Review Article)

Buckler Iv, E.S., Gore, M., Zhu, C., Yu, J. 2009. Status and Prospects of Association Mapping in Plants. The Plant Genome. 1(1):5-20.

Tracking footprints of maize domestication and evidence for a massive selective sweep on chromosome 10 - (Peer Reviewed Journal)

Buckler IV, E.S., Tian, F., Stevens, N.M. 2009. Tracking footprints of maize domestication and evidence for a massive selective sweep on chromosome 10. Proceedings of the National Academy of Sciences. 106:9979-9986

Applications of Linkage Disequilibrium and Association Mapping in Maize - (Book / Chapter)

Buckler Iv, E.S., Ersoz, E.S., Jianming, Y. 2009. Applications of Linkage Disequilibrium and Association Mapping in Maize. In: A.L. Kriz, B.A. Larkins, editors. Molecular Genetic Approaches to Maize Improvement, New York, NY: Springer-Verlag Berlin Heidelberg. p. 173.

Discovery and mapping of single feature polymorphisms in wheat using affymetrix arrays - (Peer Reviewed Journal)

Bernardo, A.N., Bradbury, P., Ma, H., Hu, S., Bowden, R.L., Buckler Iv, E.S., Bai, G. 2009. Discovery and mapping of single feature polymorphisms in wheat using affymetrix arrays. Biomed Central (BMC) Genomics. 10:251.

Large-scale enrichment and discovery of gene-associated SNPs - (Peer Reviewed Journal)

Buckler Iv, E.S., Gore, M., Wright, M., Ersoz, E., Bouffard, P., Jarvie, T., Hurwitz, B., Narechania, A., Harkins, T., Grills, G., Ware, D. 2009. Large-scale enrichment and discovery of gene-associated SNPs. The Plant Genome. 2:121-133.

Simulation appraisal of the adequacy of numbers of background markers for relationship estimation in association mapping - (Peer Reviewed Journal)

Buckler Iv, E.S., Yu, J., Zhang, Z., Tabanao, D.A., Gail, P., Kresovich, S., Todhunter, R.J. 2009. Simulation appraisal of the adequacy of numbers of background markers for relationship estimation in association mapping. The Plant Genome. 2:63-77.

Natural variation in maize architecture is mediated by allelic differences at the PINOID co-ortholog barren inflorescence2 - (Peer Reviewed Journal)

Pressoir, G., Brown, P.J., Zhu, W., Upadyayula, N., Rocheford, T., Buckler IV, E.S., 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.

Panzea: An Update on New Content and Features - (Peer Reviewed Journal)

Canaran, P., Buckler Iv, E.S., Glaubitz, J., Stein, L., Sun, Q., Zhao, W., Ware, D. 2009. Panzea: An Update on New Content and Features. Nucleic Acids Research. 36:D1041-D1043.

Empirical Comparison of Simple Sequence Repeats and Single Nucleotide Polymorphisms in Assessment of Maize Diversity and Relatedness - (Peer Reviewed Journal)

Buckler Iv, E.S., Hamblin, M.T., Warburton, M.L. 2008. Empirical Comparison of Simple Sequence Repeats and Single Nucleotide Polymorphisms in Assessment of Maize Diversity and Relatedness. PLoS One. 2(12):e1367.

The Genetic Architecture of Complex Traits in Teosinte (Zea mays ssp. parviglumis): New Evidence from Association Mapping - (Peer Reviewed Journal)

Buckler Iv, E.S., Weber, A.L., Briggs, W.H., Rucker, J., Baltazar, B.M., Sanchez-Gonzalez, J.D., Feng, P., Doebley, J.F. 2008. The Genetic Architecture of Complex Traits in Teosinte (Zea mays ssp.parviglumis): New Evidence from Association Mapping. Genetics. 180(2):1221-1232.

An Arabidopsis haplotype map takes root - (Review Article)

Buckler Iv, E.S., Gore, M. 2008. An Arabidopsis haplotype map takes root. Nature Genetics.39:1056-1057.

Comparison of Mixed-Model Approaches for Association Mapping - (Peer Reviewed Journal)

Stich, B., Mohring, J., Piepho, H., Heckenberger, M., Buckler Iv, E.S., Melchinger, A.E. 2008. Comparison of Mixed-Model Approaches for Association Mapping. Genetics. 178(3):1748-1754.

Natural genetic variation in the lycopene epsilon cyclase gene can enhance provitamin A biofortification of maize - (Peer Reviewed Journal)

Buckler Iv, E.S., Harjes, C., Rocheford, T., Bai, L., Brutnell, T., Kandianis, C.B., Sowinski, S.G., Stapleton, A.E., Vallabhaneni, R., Williams, M., Wurtzel, E., Jianbing, Y. 2008. Natural genetic variation in the lycopene epsilon cyclase gene can enhance provitamin A biofortification of maize. Science. 319(5861):330-333.

GENOME-WIDE COMPLEX TRAIT DISSECTION THROUGH NESTED ASSOCIATION MAPPING - (Peer Reviewed Journal)

Buckler Iv, E.S., Yu, J., Holland, J.B., Mcmullen, M.D. 2008. Genome-wide complex trait dissection through nested association mapping. Genetics. 178:539-551.

Genetic and biochemical analysis of iron bioavailability in maize - (Abstract Only)

Hoekenga, O., Mwaniki, A., Buckler Iv, E.S., Glahn, R.P., Kochian, L.V. 2007. Genetic and biochemical analysis of iron bioavailability in maize (abstract). Agronomy Society of America, Crop Science Society of America, Soil Science Society of America Meeting. Session 176:4

Genetic and biochemical analysis of iron bioavailability in maize - (Abstract Only)

Hoekenga, O., Mwankini, A., Buckler Iv, E.S., Glahn, R.P., Kochian, L.V. 2007. Genetic and biochemical analysis of iron bioavailability in maize. American Society of Agronomy Meetings. Volume 52:102.

Gramene: a growing plant comparative genomics resource - (Peer Reviewed Journal)

Jaiswal, P., Avraham, S., Buckler Iv, E.S., Casstevens, T., Hebbard, C., Liang, C., Ni, J., Ravenscroft, D., Ren, L., Stein, L., Spooner, W., Tecle, I., Thomason, J., Wei Xuehong, Ware, D., Youens-Clark, K., Yap, I., Mccouch, S., Tung, C. 2008. Gramene: a growing plant comparative genomics resource. Nucleic Acids Research. 36:D947-D953.

Using Crossover Breakpoints in Recombinant Inbred Lines to Identify Quantitative Trait Loci Controlling the Global Recombination Frequency - (Peer Reviewed Journal)

Buckler Iv, E.S., Esch, E., Szymaniak, J., Yates, H., Wojciech, P. 2007. Using Crossover Breakpoints in Recombinant Inbred Lines to Identify Quantitative Trait Loci Controlling the Global Recombination Frequency. Genetics. 177:1851-1858.

TASSEL: Software for Association Mapping of Complex Traits in Diverse Samples - (Peer Reviewed Journal)

Bradbury, P., Zhang, Z., Kroon, D., Casstevens, T., Ramdoss, Y., Buckler Iv, E.S. 2007. Tassel: software for association mapping of complex traits in diverse samples. Bioinformatics. 23:2633-2635.

Gramene: a bird's eye view of cereal genomes - (Peer Reviewed Journal)

Jaiswal, P., Ni, J., Yap, I., Ware, D., Spooner, W., Youens-Clark, K., Ren, L., Liang, C., Zhao, W., Ratnapu, K., Faga, B., Canaran, P., Fogleman, M., Hebbard, C., Avraham, S., Schmidt, S., Casstevens, T., Buckler Iv, E.S., Stein, L., Mccouch, S. 2007. Gramene: a bird's eye view of cereal genomes. Nucleic Acids Research. 34:D717-D723. Available: http://nar.oxfordjournals.org/

Evaluation of Target Preparation Methods for Single Feature Polymorphism Detection in Large Complex Plant Genomes - (Peer Reviewed Journal)

Gore, M., Bradbury, P., Hogers, R., Kirst, M., Verstege, E., Van Oeveren, J., Peleman, J., Buckler Iv, E.S., Van Eijk, M. 2007. Evaluation of Target Preparation Methods for Single Feature Polymorphism Detection in Large Complex Plant Genomes. Crop Science. 47:S135-S148.

APPLICATIONS OF LINKAGE DISEQUILIBRIUM AND ASSOCIATION MAPPING IN CROP PLANTS - (Review Article)

Buckler Iv, E.S., Ersoz, E., Yu, J. 2007. Applications of linkage disequilibrium and association mapping in crop plants. Book Chapter. In: Genomics Assisted Crop Improvement Vol. 1: Genomics Approaches and Platforms, R.K. Varshney and R. Ruberosa, editors. pp 97-119. Publisher: Springer, Dordrecht, The Netherlands

Panzea: A Database and Resource for Molecular and Functional Diversity in the Maize Genome - (Peer Reviewed Journal)

Zhao, W., Canaran, P., Jurkuta, R., Fulton, T., Glaubitz, J., Buckler Iv, E.S., Doebley, J., Gaut, B., Goodman, M., Holland, J.B., Kresovich, S., Mcmullen, M.D., Stein, L., Ware, D. 2007. Panzea: A Database and Resource for Molecular and Functional Diversity in the Maize Genome. Nucleic Acids Research. 34:D752-D757.

POWER TO DETECT HIGHER-ORDER EPISTATIC INTERACTIONS IN A METABOLIC PATHWAY USING NESTED ASSOCIATION MAPPING AND DIALLEL ASSOCIATION MAPPING - (Peer Reviewed Journal)

Buckler Iv, E.S., Stich, B., Yu, J., Maurer, H.P., Melchinger, A.E., Utz, H. 2007. Power to detect higher-order epistatic interactions in a metabolic pathway using nested association mapping and diallel association mapping. Genetics. Vol. 176:563-570

Joint linkage-association analysis of aluminum tolerance in maize - (Abstract Only)

Hoekenga, O., Buckler Iv, E.S., Maron, L., Magalhaes, J., Kirst, M., Krill, A., Lyi, M., Rose, J., Thannhauser, T.W., Kochian, L.V. 2007. Joint linkage-association analysis of aluminum tolerance in maize [abstract]. Plant and Animal Genome VX Conference Abstracts. p. 55.

Technical note: Use of marker-based relationships with multiple-trait derivative-free restricted maximal likelihood - (Peer Reviewed Journal)

Zhang, Z., Todhunter, R.J., Buckler Iv, E.S., Van Vleck, L.D. 2007. Technical note: Use of marker-based relationships with multiple-trait derivative-free restricted maximal likelihood. Journal of Animal Science. 85:881-885.

CONTRIBUTION OF GENETIC DIVERSITY TO TYPE I ERRORS IN SHORT-OLIGONUCLEOTIDE MICROARRAY ANALYSIS - (Peer Reviewed Journal)

Kirst, M., Caldo, R., Casati, P., Tanimoto, G., Walbot, V., Wise, R.P., Buckler Iv, E.S. 2006. Contribution of genetic diversity to type 1 errors in short-oligonucleotide microarray analysis. Plant Biotechnology Journal. 4:489-498.

RECURRENT MUTATION AND GENOME EVOLUTION: EXAMPLE OF SUGARY1 AND THE ORIGIN OF SWEET MAIZE - (Peer Reviewed Journal)

Tracy, W.F., Whitt, S.R., Buckler Iv, E.S. 2006. Recurrent mutation and genome evolution: example of sugary1 and the origin of sweet maize. The Plant Genome. 1:1-6.

GENETIC ASSOCIATION MAPPING AND GENOME ORGANIZATION OF MAIZE - (Review Article)

Yu, J., Buckler Iv, E.S. 2006. Genetic association mapping and genome organization of maize. Current Opinion in Biotechnology. 17:155-160.

MOLECULAR AND FUNCTIONAL DIVERSITY OF MAIZE - (Review Article)

Buckler Iv, E.S., Gaut, B.S., Mcmullen, M.D. 2006. Molecular and functional diversity of maize. Current Opinion in Plant Biology. 9:172-176.

INTERDISCIPLINARY ANALYSIS OF ALUMINUM TOLERANCE IN MAIZE - (Abstract Only)

Hoekenga, O., Buckler Iv, E.S., Maron, L., Magalhaes, J., Isaacson, T., Kirst, M., Krill, A., Lyi, S.M., Rose, J., Thannhauser, T.W., Kochian, L.V. 2006. Interdisciplinary analysis of aluminum tolerance in maize [abstract]. Plant and Animal Genome VX Conference Abstracts. p. 226.

ARCHITECTURE OF FLORAL BRANCH SYSTEMS IN MAIZE AND RELATED GRASSES - (Peer Reviewed Journal)

Vollbrecht, E., Springer, P.S., Goh, L., Buckler Iv, E.S., Martienssen, R. 2005. Architecture of floral branch systems in maize and related grasses. Nature. 436:1119-1126.

A UNIFIED MIXED-MODEL METHOD FOR ASSOCIATION MAPPING ACCOUNTING FOR MULTIPLE LEVELS OF RELATEDNESS - (Peer Reviewed Journal)

Yu, J., Pressoir, G., Briggs, W., Vroh, B., Yamasaki, M., Doebley, J.F., Mcmullen, M.D., Gaut, B.S., Holland, J.B., Kresovich, S., Buckler Iv, E.S. 2006. A unified mixed-model method for association mapping accounting for multiple levels of relatedness. Nature Genetics. 38:203-208.

MAIZE ASSOCIATION POPULATION: A HIGH RESOLUTION PLATFORM FOR QUANTITATIVE TRAIT LOCUS DISSECTION - (Peer Reviewed Journal)

Flint Garcia, S.A., Thuillet, A., Yu, J., Pressoir, G., Romero, S.M., Mitchell, S.E., Doebley, J., Kresovich, S., Goodman, M.M., Buckler Iv, E.S. 2005. Maize association population: a high resolution platform for quantitative trait locus dissection. Plant Journal. 44:1054-1064.

BRIDGING MOLECULAR DIVERSITY AND FUNCTIONAL DIVERSITY: COMPLEX TRAITS DISSECTION IN MAIZE - (Abstract Only)

Yu, J., Pressoir, G., Holland, J.B., Kresovich, S., Buckler Iv, E.S. 2005. Bridging molecular diversity and functional diversity: complex traits dissection in maize. Agronomy Abstracts.

ASSOCIATION ANALYSIS OF CANDIDATE GENES FOR MAYSIN AND CHLOROGENIC ACID ACCUMULATION IN MAIZE SILKS - (Peer Reviewed Journal)

Szalma, S.J., Buckler Iv, E.S., Snook, M.E., Mcmullen, M.D. 2005. Association analysis of candidate genes for maysin and chlorogenic acid accumulation in maize silks. Journal of Theoretical and Applied Genetics. 110(7):1324-1333.

GENETIC DIVERSITY AND POPULATION STRUCTURE OF TEOSINTE - (Peer Reviewed Journal)

Fukunaga, K., Hill, J., Vigouroux, Y., Matsuoka, Y., G, J.S., Liu, K., Buckler Iv, E.S., Doebley, J. 2005. Genetic diversity and population structure of teosinte. Genetics. 169:2241-2254.

THE COLLABORATIVE CROSS, A COMMUNITY RESOURCE FOR THE GENETIC ANALYSIS OF COMPLEX TRAITS - (Peer Reviewed Journal)

Churchill, G.A., Airey, D.C., Allayee, H., Angel, J.M., Attie, A.D., Beatty, J., Beavis, W.D., Belknap, J.K., Bennett, B., Buckler Iv, E.S., 2005. The collaborative cross, a community resource for the genetic analysis of complex traits. Nature Genetics. 36(11):1133-1137.

MOLECULAR AND FUNCTIONAL DIVERSITY IN THE MAIZE GENOME - (Abstract Only)

Briggs, W., Buckler Iv, E.S., Canaran, P., Doebley, J., Fulton, T., Gaut, B., Goodman, M., Holland, J.B., Kresovich, S., Mcmullen, M.D., Stein, L., Ware, D., Wright, S., Zhao, W. 2005. Molecular and functional diversity in the maize genome [abstract]. Maize Genetics Conference. Paper No. 177. p. 126.

MOLECULAR AND FUNCTIONAL DIVERSITY IN THE MAIZE GENOME - (Abstract Only)

Doebley, J., Buckler Iv, E.S., Fulton, T., Gaut, B., Goodman, M., Holland, J.B., Kresovich, S., Mcmullen, M., Stein, L., Ware, D., Zhao, W. 2005. Molecular and functional diversity in the maize genome. Plant and Animal Genome XIII. [Abstracts].

SNP GENOTYPING FOR DIVERSITY AND MAPPING STUDIES IN MAIZE AND TEOSINTE - (Abstract Only)

Briggs, W., Vroh, B., Yamasaki, M., Pressoir, G., Mcmullen, M.D., Gaut, B., Kresovich, S., Buckler Iv, E.S., Doebley, J. 2005. Snp genotyping for diversity and mapping studies in maize and teosinte [abstract]. Maize Genetics Conference. Paper No. 182. p. 129.

DISSECTION OF MAIZE KERNEL COMPOSITION AND STARCH PRODUCTION BY CANDIDATE GENE ASSOCIATION - (Peer Reviewed Journal)

Wilson, L.M., Whitt, S.R., Ibanez, A.M., Rocheford, T.R., Goodman, M.M., Buckler Iv, E.S. 2004. Dissection of maize kernel composition and starch production by candidate gene association. The Plant Cell. 16:2719-2733.

PHYLOGEOGRAPHY OF THE WILD SUBSPECIES OF ZEA MAYS - (Peer Reviewed Journal)

Buckler Iv, E.S., Goodman, M.M., Holtsford, T.P., Doebley, J.F., G, J.S. 2006. Phylogeography of the wild subspecies of zea mays. Maydica. 51:123-134.

GDPC: THE GENOMIC DIVERSITY AND PHENOTYPE CONNECTION - (Peer Reviewed Journal)

Casstevens, T.M., Buckler Iv, E.S. 2004. GDPC: The Genomic Diversity and Phenotype Connection. Bioinformatics. 20:2839-2840.

DARWIN'S HARVEST: NEW APPROACHES TO THE ORIGINS, EVOLUTION, AND CONSERVATION OF CROPS - (Book / Chapter)

Buckler Iv, E.S., Stevens, N.M. 2006. Darwin's harvest: new approaches to the origins, evolution, and conservation of crops. In: Motley, T.J., Zerega, N., Cross, H. (eds.) Maize Origins, Domestication, and Selection. New York: Columbia University Press. p. 67-90.

GENETIC STRUCTURE AND DIVERSITY AMONG MAIZE INBRED LINES AS INFERRED FROM DNA MICROSATELLITES - (Peer Reviewed Journal)

Liu, K., Goodman, M., Muse, S., Smith, J.S., Buckler Iv, E.S., Doebley, J. 2003. Genetic structure and diversity among maize inbred lines as inferred from dna microsatellites. Genetics. 165:2117-2128.

A BRIEF INTRODUCTION TO THE PHYLOGENETIC ANALYSIS LIBRARY, VERSION 1.5 - (Peer Reviewed Journal)

Goode, M., Strimmer, K., Drummond, A., Buckler Iv, E.S., Rodrigo, A. 2004. A brief introduction to the phylogenetic analysis library, version 1.5. Conferences in Research and Practice in Information Technology. 29:175-179.

EARLY ALLELIC SELECTION IN MAIZE AS REVEALED BY ANCIENT DNA - (Peer Reviewed Journal)

JAENICKE, V., BUCKLER IV, E.S., SMITH, B.D., GILBERT, T.P., COOPER, A., DOEBLEY, J., PAABO, S. EARLY ALLELIC SELECTION IN MAIZE AS REVEALED BY ANCIENT DNA. SCIENCE. 2003. v. 302. p. 1206-1208.

STRUCTURE OF LINKAGE DISEQUILIBRIUM IN PLANTS - (Review Article)

FLINT-GARCIA, S.A., THORNSBERRY, J.M., BUCKLER IV, E.S. STRUCTURE OF LINKAGE DISEQUILIBRIUM IN PLANTS. ANNUAL REVIEWS OF PLANT BIOLOGY. 2003. v. 54. p. 357-374.

DEVELOPMENT OF A MAIZE MOLECULAR EVOLUTIONARY GENOMIC DATABASE - (Peer Reviewed Journal)

DU, C., BUCKLER IV, E.S., MUSE, S. DEVELOPMENT OF A MAIZE MOLECULAR EVOLUTIONARY GENOMIC DATABASE. COMPARATIVE AND FUNCTIONAL GENOMICS. 2003. v. 4. p. 246-249.

USING NATURAL ALLELIC DIVERSITY TO EVALUATE GENE FUNCTION. - (Other) - (20-Aug-02)

ASSOCIATIONS BETWEEN GLOSSY15 POLYMORPHISMS AND VARIATION IN JUVENILE LEAF NUMBER - (Abstract Only)

LIU, D., FROST, J., SZALMA, S., ANDALUZ, S., MUSKET, T., BUCKLER IV, E.S., MCMULLEN, M.D., DAVIS, G. ASSOCIATIONS BETWEEN GLOSSY15 POLYMORPHISMS AND VARIATION IN JUVENILE LEAF NUMBER. MAIZE GENETICS CONFERENCE. 2002. ABSTRACT. P. 118.

MAIZE DOMESTICATION AND DIVERSIFICATION INFERRED FROM MICROSATELLITE DNA - (Proceedings) - (07-Mar-02)

PLANT MOLECULAR DIVERSITY AND APPLICATIONS TO GENOMICS - (Peer Reviewed Journal) - (06-Feb-02)

STRUCTURE OF LINKAGE DISEQUILIBRIUM AND PHENOTYPIC ASSOCIATIONS IN THE MAIZE GENOME. - (Peer Reviewed Journal) - (27-Jul-01)

MOLECULAR DIVERSITY, STRUCTURE AND DOMESTICATION OF GRASSES - (Peer Reviewed Journal) - (27-Jun-01)

DWARF8 POLYMORPHISMS ASSOCIATE WITH VARIATION IN FLOWERING TIME. - (Peer Reviewed Journal) - (18-May-01)

QUANTITATIVE TRAIT LOCI ANALYSIS OF GROWTH RESPONSE TO VARYING NITROGEN SOURCES IN ARABIDOPSIS THALIANA. - (Peer Reviewed Journal) - (30-Apr-01)