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Publications 2013-2010

2012

Li, L., K. Petsch, R. Shimizu, S. Liu, W.W. Xu, K. Ying, J. Yu, M.J. Scanlon, P.S. Schnable, M.C.P. Timmermans, N.M. Springer, and G.J. Muehlbauer. 2013. Mendelian and non-Mendelian regulation of gene expression in the maize shoot apex. PLoS Genetics 9:e1003202.

Okagaki, R., S. Cho, W.M. Kruger, W.W. Xu, S. Heinen and G.J. Muehlbauer. 2012. The barley UNICULM2 gene resides in a centromeric region and may be associated with signaling and stress responses. Functional & Integrative Genomics DOI: 10.1007/s10142-012-0299-7.

Jordan, N.R., L. Aldrich-Wolfe, S.C. Huerd, D.L. Larson and G. Muehlbauer. 2012. Soil-occupancy effects of invasive and native grassland plant species on composition and diversity of mycorrhizal associations. Invasive Plant Science and Management (In press).

Berger, G.L., S. Liu, M.D. Hall, W.S. Brooks, S. Chao, G.J. Muehlbauer, B.-K. Baik and C.A. Griffey. Marker-trait associations in Virginia Tech winter barley identified using genome-wide mapping. Theor. Appl. Genet. DOI: 10.1007/s00122-012-2011-7.
The International Barley Genome Consortium. 2012. A physical, genetical and functional sequence assembly of the barley genome. Nature 491:711-716.

Huang, Y., B.P. Millet, K.A. Beaubian, S.K. Dahl, B.J. Steffenson, K.P. Smith and G.J. Muehlbauer. Haplotype diversity and population structure in cultivated and wild barley evaluated for Fusarium head blight responses. Theor. Appl. Genet. DOI:10.1007/s00122-012-2006-4.

Takacs, E.M., J. Li, L. Ponnala, D. Janick-Buckner, J. Yu, G.J. Muehlbauer, M.C.P. Timmermans, P.S. Schnable, Q. Sun, D. Nettleton and M.J. Scanlon. 2012. Ontogeny of the maize shoot apical meristem. The Plant Cell 24:3219-3234.

Blake, V.C., J.G. Kling, P.M. Hayes, J.-L. Jannink, S.R. Jillella, J. Lee, D.E. Matthews, S. Chao, T.J. Close, G.J. Muehlbauer, K.P. Smith, R.P. Wise and J.A. Dickerson. 2012. The Hordeum Toolbox - The barley coordinated agricultural project genotype and phenotype resource. The Plant Genome 5:81-91.

Li, X., C. Zhu, C-T. Yeh, W. Wu, F. Tian, G. Bai, E.S. Buckler, G.J. Muehlbauer, M.C.P. Timmermans, M.J. Scanlon, P.S. Schnable and J. Yu. 2012. Genic and non-genic contributions to quantitative trait variation in maize as detected via GWAS. Genome Research 22:2436-2444.

Zhou, H., G. Muehlbauer and B.J. Steffenson. 2012. Population structure and linkage disequilibrium in elite barley breeding germplasm from the United States. J. Zhejiang Univ. 13:438-451.

Shin, S., J.A. Torres-Acosta, S.J. Heinen, S. McCormick, M. Lemmens, P.M.K. Paris, F. Berthiller, G. Adam and G.J. Muehlbauer. 2012. Transgenic Arabidopsis thaliana expressing a barley UDP-glucosyltransferase exhibit resistance to the mycotoxin deoxynivalenol. J. Exp. Botany 63:4731-4740.

Makarevitch, I., A. Thompson, G.J. Muehlbauer and N.M. Springer. 2012. Brd1 gene in maize encodes brassinosteroid oxidase 6. PLoS ONE 7: e30798.

2011

Muñoz-Amatriaín, M., M.J. Moscou, P.R. Bhat, J.T. Svensson, J. Bartoš, P. Suchánková, H. Šimková, T.R. Endo, R.D. Fenton, S. Lonardi, A.M. Castillo, S. Chao, L. Cistué, A. Cuesta-Marcos, K.L. Forrest, M.J. Hayden, P.M. Hayes, R.D. Horsley, K. Makoto, D. Moody, K. Sato, M.P. Vallés, B.B.H. Wulff, G.J. Muehlbauer, J. Doležel and T.J. Close. 2011. An improved consensus linkage map of barley based on flow sorted chromosomes and SNP markers. The Plant Genome 4:238-249.

Wang, H., K.P. Smith, E. Combs, T. Blake, R. Horsley and G.J. Muehlbauer. 2011. Effect of population size and unbalanced data sets on QTL detection using genome-wide association mapping in barley breeding germplasm. Theor. Appl. Genet. DOI 10.1007/s00122-011-1691-8.

von Zitzewitz, J., F. Condon, A. Corey, A. Cuesta‐Marcos, T.Filichkina, K. Haggard, S.P. Fisk, K.P. Smith, G.J. Muehlbauer, I. Karsai and P.M. Hayes. 2011. The genetics of winterhardiness in barley: perspectives from genome‐wide association mapping. The Plant Genome 4:76-91.

Bolon, Y-T., W.J. Haun, W.W. Xu, D. Grant, M.G. Stacey, R.T. Nelson, D.J. Gerhardt, J.A. Jeddeloh, G. Stacey, G.J. Muehlbauer, J.H. Orf, S.L. Naeve, R.M. Stupar and C.P. Vance. 2011. Phenotypic and genomic analyses of a fast neutron mutant population resource in soybean. Plant Physiol. 156:240-253

Sato, K., T.J. Close, P. Bhat, M. Muñoz-Amatriaín and G.J. Muehlbauer. 2011. Genetic mapping and alignment of recombinant chromosome substitution lines from a cross of EST donors by SNP typing in barley. Plant and Cell Physiology 52:728-737

St. Pierre, S., N.M. Springer and G.J. Muehlbauer. 2011. Density stress has minimal impacts on the barley or maize seedling transcriptome. The Plant Genome 4:47-54

Li, X., C. Zhu, Z. Lin, Y. Wu, D. Zhang, G. Bai, W. Song, J. Ma, G.J. Muehlbauer, M.J. Scanlon, M. Zhang and J. Yu. 2011. A conserved boundary of chromosome size variation in diploid eukaryotic genomes. Molecular Biology and Evolution 28:1901-1911

Ramsay, L., J. Comadran, A. Druka, D.F. Marshall, W.T.B. Thomas, M. Macaulay, K. MacKenzie, C. Simpson, J. Fuller, N. Bonar, P.M. Hayes, U. Lunqvist, J.D. Franckowiak, T.J. Close, G.J. Muehlbauer and R. Waugh. 2011. INTERMEDIUM-C, a modifier of lateral spikelet fertility in barley, is an ortholog of the maize domestication gene TEOSINTE BRANCHED 1. Nature Genetics 43:169-172

Comadran, J., L. Ramsay, K. MacKenzie, P. Hayes, T.J. Close, G. Muehlbauer, N. Stein and R. Waugh. 2011. Patterns of polymorphism and linkage disequilibrium in cultivated barley. Theor. Appl. Genet. 122:523-531

Jia, H., B.P. Millett, S. Cho, H. Bilgic, W.W. Xu, K.P. Smith and G.J. Muehlbauer. 2011. Quantitative trait loci conferring resistance to Fusarium head blight in barley respond differentially to Fusarium graminearum infection. Functional & Integrative Genomics 11:95-102

Woody, J.L., A.J. Severin, Y-T. Bolon, B. Joseph, B.W. Diers, A.D. Farmer, N. Weeks, G.J. Muehlbauer, R.T. Nelson, D. Grant, J.E. Specht, M.A. Graham, S.B. Cannon, G.D. May, C.P. Vance and R.C. Shoemaker. 2011. Gene expression patterns are correlated with genomic and genic structure in soybean. Genome 54:10-18

Massman, J., B. Cooper, R. Horsley, S. Neate, R. Dill-Macky, S. Chao, Y. Dong, P. Schwarz, G.J. Muehlbauer and K.P. Smith. 2011. Genome-wide association mapping of Fusarium head blight resistance in contemporary barley breeding germplasm. Mol. Breeding 27:439-454

2010

Cuesta-Marcos, A., P. Szucs, T.J. Close, T. Filichkin, G.J. Muehlbauer, K.P. Smith and P.M. Hayes. 2010. Genome-wide SNPs and re-sequencing of growth habit and inflorescence genes in barley: implications for association mapping in germplasm arrays varying in size and structure. BMC Genomics 11:707

Muñoz-Amatriaín, M., Y. Xiong, H. Bilgic, A.D. Budde, M.R. Schmitt, K.P. Smith and G.J. Muehlbauer. 2010. Transcriptome analysis of a breeding program pedigree examines gene expression diversity and reveals target genes for the improvement of malting quality. BMC Genomics 11:653

Nair, S., S.E. Ullrich, T.K. Blake, B. Cooper, C.A. Griffey, P.M. Hayes, D.J. Hole, R.D. Horsley, D.E. Obert, K.P. Smith, G.J. Muehlbauer and B.-K. Baik. 2010. Variation in kernel hardness and assocated traits in U.S. barley breeding lines. Cereal Chem. 87:461-466

Waugh, R., D. Marshall, B. Thomas, J. Comadran, J. Russell, T. Close, N. Stein, P. Hayes, G. Muehlbauer, J. Cockram, D. O’Sullivan, I. Mackay, A. Flavell, AGOUEB, BarleyCAP and L. Ramsay. 2010. Whole-genome association mapping in elite inbred crop varieties. Genome 53:967-972

Severin, A., J.L. Woody, Y-T. Bolon, B. Joseph, B.W. Diers, A.D. Farmer, G.J. Muehlbauer, R. Nelson, D. Grant, J.E. Specht, M.A. Graham, S.B. Cannon, G.D. May, C.P. Vance and R.C. Shoemaker. 2010. RNA-Seq Atlas of Glycine max: A guide to the soybean transcriptome. BMC Plant Biology 10:160

Bolon, Y-T., B. Joseph, S.B. Cannon, M.A. Graham, B.W. Diers, A.D. Farmer, G.D. May, G.J. Muehlbauer, J.E. Specht, Z.J. Tu, N. Weeks, W.W. Xu, R.C. Shoemaker and C.P. Vance. 2010. Complementary genetic and genomic approaches help characterize the linkage group I seed protein QTL in soybean. BMC Plant Biology 10:41

Dabbert, T., R.J. Okagaki, S. Cho, J. Boddu, and G.J. Muehlbauer. 2010. The genetics of barley low-tillering mutants: low number of tillers-1 (lnt1). Theor. Appl. Genet. 121:705-715

Gardiner, S.A., J. Boddu, F. Berthiller, C. Hametner, R. Stupar, G. Adam and G.J. Muehlbauer. 2010. Transcriptome analysis of the barley-deoxynivalenol interaction: evidence for a role of glutathione in deoxynivalenol detoxification. Mol. Plant-Microbe Interact. 23:962-976

Roy, J.K., K.P. Smith, G.J. Muehlbauer, S. Chao, T.J. Close and B.J. Steffenson. 2010. Assocition mapping of spot blotch resistance in wild barley. Mol. Breeding 26:243-256

Schweiger, W., J. Boddu, S. Shin, B. Poppenberger, F. Berthiller, M. Lemmens, G.J. Muehlbauer and G. Adam. 2010. Validation of a candidate deoxynivalenol-inactivating UDP-glucosyltransferase from barley by heterologous expression in yeast. Mol. Plant-Microbe Interact. 23:977-986

Hamblin, M.T., T.J. Close, P.R. Bhat, S. Chao, J.G. Kling, K.J. Abraham, T. Blake, W.S. Brooks, B. Cooper, C.A. Griffey, P.M. Hayes, D.J. Hole, R.D. Horsley, D.E. Obert, K.P. Smith, S.E. Ullrich, G.J. Muehlbauer and J-L. Jannink. 2010. Population structure and linkage disequilibrium in US barley germplasm: implications for association mapping. Crop Sci. 50:556-566