• Lee S. and C. Chapple."Overexpression of a serine carboxypeptidase-like acyltransferase alters sinapate ester accumulation and localization in Arabidopsis" (in preparation, 2012).
• Lee, S., Y. Kaminaga, B. Cooper, E. Pichersky, N. Dudareva, and C. Chapple. "Benzoylation and sinapoylation of glucosinolate R-groups in Arabidopsis." The Plant Journal, 72 (3) 411-422, doi: 10.1111/j.1365-313X.2012.05096.x (2012).
• Weng J-K., Y. Li, H. Mo., D. A. Colby, and C. Chapple C. "Assembly of a new pathway for alpha-pyrone biosynthesis in Arabidopsis." Science (in revision, 2012).
• Bonawitz, N. D., W. L. Soltau, M. R. Blatchley, B. L. Powers, A. K. Hurlock, L. A. Seals, J-K. Weng, J. Stout, and C. Chapple. "REF4 and RFR1, subunits of the transcriptional coregulatory complex mediator, are required for phenylpropanoid homeostasis in Arabidopsis." Journal of Biological Chemistry 287, no. 8, 5434-5445 (2012).

• Loarie, S. R., D. B. Lobell, G. P. Asner, and C. B. Field. 2011a. “Land-Cover and Surface Water Change Drive Large Albedo Increases in South America,” Earth Interactions 15, 1-16, doi:10.1175/2010EI342.1 (2011).
• Loarie, S. R., D. B. Lobell, G. P. Asner, Q. Mu, and C. B. Field. 2011b. “Direct impacts on local climate of sugar-cane expansion in Brazil.” Nature Climate Change 1, 105-109, doi:10.1038/nclimate1067 (2011).
  
• Asner, G. P., S. R. Loarie, and U. Heyder, “Combined effects of climate and land-use change on the future of humid tropical forests,”Conservation Letters 3, 6, 395-403, doi:10.1111/j.1755-263X.2010.00133.x (2010).
• Georgescu, M., D. B. Lobell, and C. B. Field. “Direct climate effects of perennial bioenergy crops in the United States,” Proceedings of the National Academy of Sciences, doi:10.1073/pnas.1008779108 (2011).
• Lobell, D. B., K. G. Cassman, and C. B. Field. “Crop yield gaps: Their importance, magnitudes, and causes.” Annual Review of Environment and Resources, Vol. 34, doi:10.1146/annurev.environ.041008.093740 (2009).
  
• Campbell, J. E., D. B. Lobell, and C.B. Field. “Greater transportation energy and GHG offsets from bioelectricity than ethanol.” Science, Vol. 324, No. 5930, pp. 1055-1057, doi: 10.1126/science.1168885 (2009).
  
• Loarie, S. R., G. P. Asner, and C. B. Field. “Boosted carbon emissions from Amazon deforestation.” Geophysical Research Letters, Vol. 36, No. 14, L14810, doi:10.1029/2009GL037526 (2009).
  
• Field, C. B., J. E. Campbell, and D. B. Lobell. “Biomass energy: The scale of the potential resource.” Trends in Ecology & Evolution, Vol. 23, No. 2, pp. 65-72, doi:10.1016/j.tree.2007.12.001 (2008).
  
• Campbell, J. E., D. B. Lobell, R. C. Genova, and C. B. Field. “The global potential of bioenergy on abandoned agriculture lands.” Environmental Science Technology, Vol. 42, No. 15, pp. 579-5794, doi:10.1021/es800052w (2008).
  

• Wenger, J., K. Schwartz, and G. Sherlock. “Characterization on the innate xylose metabolic pathway in naturally occurring yeast strains capable of utilizing xylose.” (In preparation, 2009).
• Kroll, J., J. Piotrowski, K. Chiotti, B. Dunn, G. Sherlock, and F. Rosenzweig. “Directed evolution of interspecific yeast hybrids for improved biomass conversion.” (In preparation, 2009).

Efficient Biomass Conversion: Delineating the Best Lignin Monomer Substitutes

• Zhu, Y., A. Mohammadi, and J. Ralph. "Facile Synthesis of 4-Hydroxycinnamaldehydes." BioEnergy Research 5, no. 2, 407-411 (2012).
• Vanholme, R., K. Morreel, C. Darrah, J. H. Grabber, J. Ralph and W. Boerjan. "Phenolic metabolism as a natural resource for the engineering of lignin in feedstocks for biofuels and biomaterials production." New Phytologist (2012).
• Ress D. K. and J. Ralph. Synthesis of 3-O-vanillate and 3-O-ferulate esters of (-)-epicatechin. Journal of Agricultural and Food Chemistry, 2012, submitted 8/25/2011; updating with synthetic lignins. "
• Grabber, J. H., D. Ress, and J. Ralph. "Identifying new lignin bioengineering targets: impact of epicatechin, quercetin glycoside, and gallate derivatives on the lignification and fermentation of maize cell walls." Journal of agricultural and food chemistry 60, no. 20 (2012): 5152-5160."
• Elumalai, S., J. H. Grabber, J. Ralph and X. Pan. Incorporation of epicatechin derivatives into cell walls, and assessment of responses to pretreatment methods and subsequent enzymatic hydrolysis.BioEnergy Research, 2012, in preparation.
• Tobimatsu, Y., S. Elumalai, J. H. Grabber, C. L. Davidson, X. Pan, and J. Ralph. “Cover Picture: Hydroxycinnamate Conjugates as Potential Monolignol Replacements: In vitro Lignification and Cell Wall Studies with Rosmarinic Acid.” ChemSusChem, 5: 4, 601, doi: 10.1002/cssc.201290013 (2012).
• Ress, D. K., J. H. Grabber, and J. Ralph. “Lignin monomer replacement strategies: Syntheses of (-)-epicatechin ferulate, (-)-epicatechin vanillate, and 1,2-diferuloyl-(L)-tartaric Acid,” (in preparation, 2011).
• Elumalai, S., J. H. Grabber, J. Ralph, and X. Pan. “Incorporation of epicatechin derivatives into cell walls, and assessment of responses to pretreatment methods and subsequent enzymatic hydrolysis,” (in preparation, 2011).
• Zhu, Y. and J. Ralph. “Stereoselective synthesis of 1-O-β-feruloyl and 1-O-β-sinapoyl glucopyranoses,” European Journal of Organic Chemistry (submitted, March 25, 2011).
• Tobimatsu, Y., C. L. Davidson, J. H. Grabber, and J. Ralph. “Fluorescence tagged monolignols: Synthesis and application to studying in vitro lignication,” Biomacromolecules (in press, accepted, March 16, 2011).
• Morreel, K., O. Dima, H. Kim, F. Lu, C. Niculaes, R. Vanholme, R. Dauwe, G. Goeminne, D. Inzé, E. Messens, J. Ralph, and W. Boerjan. “Mass spectrometry based sequencing of lignin oligomers,” Plant Physiology, 153, 1464-1478, doi:10.1104/pp.110.156489 (2010).
• Vanholme, R., K. Morreel, J. Ralph, and W. Boerjan. “Lignin biosynthesis and structure.” Plant Physiology, Vol. 153, pp. 895-905, doi:10.1104/pp.110.155119 (2010).
• van Parijs, F., K. Morreel, J. Ralph, W. Boerjan, and R. M. H. Merks. “Modeling lignin polymerization. Part 1: simulation model of dehydrogenation polymers.” Plant Physiology, Vol. 153, pp. 1332-1344, doi:10.1104/pp.110.154468 (2010).
• Grabber, J. H., P. F. Schatz, H. Kim, F. Lu, and J. Ralph. “Identifying new lignin bioengineering targets: 1. Monolignol substitute impacts on lignin formation and cell wall fermentability.” BMC Plant Biology, 10:114, doi:10.1186/1471-2229-10-114 (2010).
• Vanholme, R., J. Ralph, T. Akiyama, F. Lu, J. Rencoret Pazo, J. Christensen, A. Rohde, K. Morreel, R. DeRycke, H. Kim, B. Van Reusel, and W. Boerjan. “Engineering traditional monolignols out of lignins: The effects of concomitant F5H1-up-regulation and COMT-down-regulation in Arabidopsis,” (in final preparation, 2010).

Efficient, Highly Productive Hydrogen Production from Glucose

• Smith, P. R., A. S. Bingham, and J. R. Swartz. "Generation of hydrogen from NADPH using an [FeFe] hydrogenase." International Journal of Hydrogen Energy 37, no. 3 (2012): 2977-2983.

• Liu, T., H. Vora, and C. Khosla. “Quantitative analysis and engineering of fatty acid biosynthesis in E. coli.” Metabolic Eng. (In press, 2010).
• Lu, X., H. Vora, and C. Khosla. “Overproduction of free fatty acids in E. coli: implications for biodiesel production.” Metabolic Eng. 10, 333-339 (2008).

• Morreel, K., O. Dima, F. Kim, F. Lu, C. Niculaes, R. Vanholme, R. Dauwe, G. Goeminne, D. Inzé, E. Messens, J. Ralph, and W. Boerjan. “Mass spectrometry-based sequencing of lignin.” Plant Physiol. (submitted, 2010).
• Morreel, K., H. Kim, F. C. Lu, O. Dima, T. Akiyama, R. Vanholme, C. Niculaes, G. Goeminne, D. Inzé, E. Messens, J. Ralph, and W. Boerjan. “Lignomics: unraveling collision-induced dissociation pathways of lignin bonding structures.” Anal. Chem. (submitted, 2010).
• van Parijs, F., K. Morreel, J. Ralph, W. Boerjan, and R. Merk. “A simulation model of synthetic lignin polymerization.” Plant Physiol. (submitted, 2010).