Publications

Three most recent:

Thomas H. Hohle, William L. Franck, Gary Stacey and Mark R. O’Brian (2011) A bacterial outer membrane channel for nutritional divalent metal ion transport. Proc. Natl. Acad, Sci. USA 108 (37) 15390-15395.

Jixian Zhai, Dong-Hoon Jeong, Emanuele De Paoli, Sunhee Park, Benjamin D. Rosen, Yupeng Li, Alvaro J. González, Zhe Yan, Scott A. Jackson, Gary Stacey, Doug R. Cook, Pamela J. Green, D. Janine Sherrier, and Blake C. Meyers (2011) microRNAs as Master Regulators of the Plant NB-LRR Defense Gene Family via the Production of Phased, Trans-acting siRNAs. Genes and Development 25: 2540-2553

Trupti Joshi, Kapil Patil, Michael R. Fitzpatrick, Levi D. Franklin, Qiuming Yao, Zheng Wang, Marc Libault, Laurent Brechenmacher, Babu Valliyodan, Xiaolei Wu, Jianlin Cheng, Gary Stacey, Henry Nguyen, Dong Xu (2012) Soybean Knowledge Base (SoyKB): A Web Resource for Soybean Translational Genomics. BMC Genomics (in press)

Project publications in chronological order

Wan, J., M. Torres, A. Ganapathy, J. Thelen, B. B. DaGue, B. Mooney, D. Xu, and G. Stacey. (2005) "Proteomic analysis of soybean root hairs after infection by Bradyrhizobium japonicum", Mol. Plant-Microbe Int. 18: p. 458.

Collier R, Fuchs B, Walter N, Lutke WK, Taylor CG. 2005. Ex vitro composite plants: an inexpensive, rapid method for root biology. The Plant Journal 43: 449-57

Stacey G, Libault M, Brechenmacher L, Wan J, May GD (2006) "Genetics and functional genomics of legume nodulation.” Curr. Opin. Plant Biol. 9: p. 110.

Stacey, G, McAlvin, C.B., Kim, S-Y, Olivares, J., Soto, M.J. (2006) "Effects of endogenous salicylic acid on nodulation in the model legumes Lotus japonicus and Medicago truncatula.", Plant Physiol. 141: p. 1473.

Subramanian S, Stacey G, Yu Oliver 2006) "Endogenous isoflavones are essential for the establishment of symbiosis between soybean and Bradyrhizobium japonicum", Plant Journal 48: p. 261.

Song, Z., Chen, L, Ganapathy, A., Wan, X-F, Brechenmacher, L., Tao, N., Emerich, D., Stacey, G, Xu, Dong (2007) "Development and assessment of scoring functions for protein identification using peptide mass fingerprinting data.", Electrophoresis 28: p. 864.

Subramanian S, Stacey G, Yu O (2007) "Distinct, critical roles of flavonoids during determinate and indeterminate legume nodulation." Trends in Plant Science 12: p. 282.

Song Z, Chen L, Ganapathy A, Wan X-F, Brechenmacher L, Tao N, Emerich D, Stacey G, Xu D (2007) “Development and assessment of scoring functions for protein identification using peptide mass fingerprinting data.” Electrophoresis 28: p. 864.

Veena V, Taylor C. 2007. Agrobacterium rhizogenes: recent developments and promising applications. In Vitro Cellular & Developmental Biology - Plant 43: 383-403

Libault M, Thibivilliers S, Radman O, Clough SJ, Stacey G (2008) “Identification of four soybean reference genes for gene expression normalization.” Plant Genome. 1: p. 44.

Govindarajulu M, Elmore JM, Fester T, Taylor CG. (2008) “Evaluation of constitutive viral promoters in transgenic soybean roots and nodules.” Molecular Plant-Microbe Interactions 21: p. 1027 (cover photo).

Brechenmacher L, Kim MY, Benitez M, Li M, Joshi T, Calla B, Lee MP, Libault M, Vodkin LO, Xu D, Lee SH, Clough SJ, Stacey G (2008) “Transcription profiling of soybean nodulation by Bradyrhizobium japonicum.” Molecular Plant-Microbe Interactions. 21: p. 631.

Stacey G. Brechenmacher L, Libault M, Sachdev S (2008) Functional genomics of soybean root hair infection. IN “Biological Nitrogen Fixation: Towards Poverty Alleviation Through Sustainable Agriculture”; edited by Felix D. Dakora, Samson B.M. Chimphango, Alex J. Valentine, Claudine Emerich and William E. Newton, Springer Publ., The Netherlands, p. 181-182.

Govindarajulu M, Kim S-Y, Libault M, Berg RH, Tanaka K, et al. (2009) “GS52 ecto-apyrase plays a critical role during soybean nodulation.” Plant Physiol.: 149: p. 994.

Govindarajulu M, Kim SY, Libault M, Berg RH, Tanaka K, et al. 2009. GS52 ecto-apyrase plays a critical role during soybean nodulation. Plant Physiol 149: 994-1004

Brechenmacher L, Lee J, Sachdev S, Song Z, Nguyen THN, Trupti J, Dague B, Oehrle N, Libault M, Mooney B, Xu D, Cooper B, Stacey G (2009) “Establishment of a protein reference map for soybean root hair cells.” Plant Physiol. 149: p. 670.

Dalton DA, Boniface C, Turner Z, Lindahl A, Kim HJ, Jelinek L, Govindarajulu M, Finger RE, Taylor CG (2009) “Physiological roles of Glutathione S-transferases in soybean root nodules.” Plant Physiology (in press).

Zhang J, Subramanian S, Stacey G, Oliver Y (2009) “Flavones and flavanols play distinct, critical roles during nodulation of Medicago truncatula by Sinorhizobium meliloti.” Plant J. 57: p. 171.

Joshi T, Yan Z, Libault M, Jeong H, Park S, Green PJ, Sherrier DJ, Farmer A, May G, Meyers B, Xu D, Stacey G (2009) “Prediction of novel miRNAs and associated target genes in Glycine max.” BMC Bioinformatics 11(Suppl 1):S14.

Brechenmacher L, Lee J, Sachdev S, Song Z, Nguyen TH, et al. 2009. Establishment of a protein reference map for soybean root hair cells. Plant Physiol 149: 670-82

Libault M, Joshi T, Benedito VA, Xu D, Udvardi MK, Stacey G. 2009. Legume transcription factor genes: what makes legumes so special? Plant Physiol 151: 991-1001

Libault M, Joshi T, Takahashi K, Hurley-Sommer A, Puricelli K, et al. 2009. Large-scale analysis of putative soybean regulatory gene expression identifies a Myb gene involved in soybean nodule development. Plant Physiol 151: 1207-20

Brechenmacher, L, Zhentian Lei, Marc Libault, Seth Findley, Masayuki Sugawara,Michael J Sadowsky, Lloyd W Sumner, and Gary Stacey (2010) Soybean metabolites regulated in root hairs in response to the symbiotic bacterium Bradyrhizobium japonicum. Plant J. 153: 1808-1822

Joshi T, Yan Z, Libault M, Jeong H, Park S, et al. 2010. Prediction of novel miRNAs and associated target genes in Glycine max. BMC Bioinformatics 11(Suppl 1): S14

Libault M, Farmer A, Brechenmacher L, Drnevich J, Langley RJ, et al. 2010. Complete transcriptome of the soybean root hair cell, a single cell model, and its alteration in response to Bradyrhizobium japonicum infection. Plant Physiol. 152: 541-52

Libault M, Farmer A, Joshi T, Takahashi K, Langley RJ, et al. 2010. An integrated transcriptome atlas of the crop model Glycine max and its use in comparative analysis in plants. Plant Journal 63: 86-99

Schmutz J, Cannon SB, Schlueter J, Ma J, Mitros T, et al. 2010. Genome sequence of the paleopolyploid soybean (Glycine max (L.) Merr.). Nature 463: 178-183

Libault, Marc, Andrew Farmer, Laurent Brechenmacher, Gregory D. May, Gary Stacey 2010) Soybean root hairs: a valuable system to investigate plant biology at the cellular level. Plant Signaling and Behavior 5:419-421

Libault, Marc, Stacey, Gary (2010) Evolution of FW2.2-Like and PLAC8 genes in eukaryotes. Plant Signaling and Behavior 5: 1-3.

Wang Z, Libault M, Joshi T, Valliyodan B, Nguyen HT, et al. 2010. SoyDB: A knowledge database of soybean transcription factors. BMC Plant Biology 10:14

Libault,Marc, Xue-Cheng Zhang, Manjula Govindarajulu, Yee Tsuey Ong, Laurent Brechenmacher, Jing Qiu, R. Howard Berg, Andrea Hurley-Sommer, Christopher G. Taylor, Gary Stacey (2010) A member of the highly conserved FWL (tomato FW2.2-like) gene family is essential for soybean nodule organogenesis. Plant Journal 62(5):852-864

Libault, Marc, Brechenmacher, Laurent, Cheng, Jianlin, Xu, Dong, Stacey, Gary (2010) Root hair systems biology. Trends in Plant Science 15: 641-650.

Libault, Marc, Stacey, Gary (2010) Evolution of FW2.2-Like and PLAC8 genes in eukaryotes. Plant Signaling and Behavior 5: 1-3

Libault, M, Govindarajulu, M., Berg, R.H., Ong, Y.T., Puricelli, K., Taylor, C.G., Xu, D., Stacey, G. (2011) A dual targeted soybean protein is essential for Bradyrhizobium japonicum infection of soybean root hair and cortical cells. Mol. Plant-Microbe Int. 24: 1051-1060.Cover photo.

Thomas H. Hohle, William L. Franck, Gary Stacey and Mark R. O’Brian (2011) A bacterial outer membrane channel for nutritional divalent metal ion transport. Proc. Natl. Acad, Sci. USA 108 (37) 15390-15395.

Jixian Zhai, Dong-Hoon Jeong, Emanuele De Paoli, Sunhee Park, Benjamin D. Rosen, Yupeng Li, Alvaro J. González, Zhe Yan, Scott A. Jackson, Gary Stacey, Doug R. Cook, Pamela J. Green, D. Janine Sherrier, and Blake C. Meyers (2011) microRNAs as Master Regulators of the Plant NB-LRR Defense Gene Family via the Production of Phased, Trans-acting siRNAs. Genes and Development 25: 2540-2553

Trupti Joshi, Kapil Patil, Michael R. Fitzpatrick, Levi D. Franklin, Qiuming Yao, Zheng Wang, Marc Libault, Laurent Brechenmacher, Babu Valliyodan, Xiaolei Wu, Jianlin Cheng, Gary Stacey, Henry Nguyen, Dong Xu (2012) Soybean Knowledge Base (SoyKB): A Web Resource for Soybean Translational Genomics. BMC Genomics (in press)

Xue-Cheng Zhang, Zheng Wang, Mi Ha Le, Xinyan Zhang, Jianguo Sun, Dong Xu, Jianlin Cheng, and Gary Stacey (2012) Evolutionary dynamics of protein domain architecture in plants. BMC Evolutionary Biology (in press)