Publications

When it comes to interdisciplinary collaboration, the titles of GLBRC publications speak for themselves. Each new year of operation has seen more publications from multiple labs that span our research themes, accelerating the Center's production of the basic research that generates technology to convert cellulosic biomass to advanced biofuels and bioproducts.
Year Publication Keywords
2013
Chen, X., Alonso, A.P. & Shachar-Hill, Y. "Dynamic metabolic flux analysis of plant cell wall synthesis." Metabolic Engineering 18, 78-85+ (2013). [DOI: 10.1016/j.ymben.2013.04.006]
Feedstocks
2013
Christopherson, M.R. & Suen, G. "Nature's bioreactor: the rumen as a model for biofuel production." Biofuels 4,5, 511-521+ (2013). [DOI: 10.4155/bfs.13.36]
Deconstruction
2013
Christopherson, M.R., Suen, G., Bramhacharya, S., Jewell, K.A., Aylward, F.O., Mead, D. & Brumm, P.J. "The genome sequences of Cellulomonas fimi and “Cellvibrio gilvus” reveal the cellulolytic strategies of two facultative anaerobes, transfer of “Cellvibrio gilvus” to the genus Cellulomonas, and proposal of Cellulomonas gilvus sp. nov." PLOS ONE 8,1, (2013). [DOI: 10.1371/journal.pone.0053954]
Deconstruction
2013
Chundawat, S.P.S., Bals, B., Campbell, T., Sousa, L., Gao, D., Jin, M., Eranki, P.L., Garlock, R., Teymouri, F., Balen, V., et al. "Primer on ammonia fiber expansion pretreatment." in Aqueous Pretreatment of Plant Biomass for Biological and Chemical Conversion to Fuels and Chemicals. 173-204+ (John Wiley & Sons, Ltd., 2013). [DOI: 10.1002/9780470975831.ch9]
Deconstruction
2013
Chung, D., Park, D., Myers, K., Grass, J., Kiley, P., Landick, R. & Keleş, S. "dPeak: High resolution identification of transcription factor binding sites from PET and SET ChIP-Seq data." PLOS Computational Biology 9,10, (2013). [DOI: 10.1371/journal.pcbi.1003246]
Conversion
2013
Chylla, R., Van Acker, R., Kim, H., Azarpira, A., Mukerjee, P., Markley, J.L., Storme, V., Boerjan, W. & Ralph, J. "Plant cell wall profiling by fast maximum likelihood reconstruction (FMLR) and region-of-interest (ROI) segmentation of solution-state 2D 1H–13C NMR spectra." Biotechnology for Biofuels 6,45, 1-14+ (2013). [DOI: 10.1186/1754-6834-6-45]
Feedstocks
2013
Cotten, C. & Reed, J.L. "Mechanistic analysis of multi-omics datasets to generate kinetic parameters for constraint-based metabolic models." BMC Bioinformatics 14, 32+ (2013). [DOI: 10.1186/1471-2105-14-32]
Conversion
2013
Cotten, C. & Reed, J.L. "Constraint-based strain design using continuous modifications (CosMos) of flux bounds finds new strategies for metabolic engineering." Biotechnology Journal 8,5, 595-604+ (2013). [DOI: 10.1002/biot.201200316]
Conversion
2013
Culbertson, A., Jin, M., Sousa, L. da C., Dale, B.E. & Balan, V. "In-house cellulase production from AFEX™ pretreated corn stover using Trichoderma reesei RUT C-30." RSC Advances 3,48, 25960-25969+ (2013). [DOI: 10.1039/c3ra44847a]
Deconstruction
2013
de Leon, N., Kaeppler, S.M. & Lauer, J.G. "Breeding maize for lignocellulosic biofuel production." in Bioenergy Feedstocks: Breeding and Genetics. 151-172+ (Wiley Blackwell, 2013). [DOI: 10.1002/9781118609477.ch8]
Feedstocks
2013
Decanio, M.S., Landick, R. & Haft, R.J. "The non-pathogenic Escherichia coli strain W secretes SslE via the virulence-associated type II secretion system beta." BioMed Central Microbiology 13,1, 130+ (2013). [DOI: 10.1186/1471-2180-13-130]
Conversion
2013
Donohue, T.J. "Interview with Professor Timothy Donohue." Biofuels 4,3, 255-258+ (2013). [DOI: 10.4155/bfs.13.11]
2013
Duran, B.E.L. & Kucharik, C.J. "Comparison of two chamber methods for measuring soil trace-gas fluxes in bioenergy cropping systems." Soil Science Society of America Journal 77,5, 1601-1612+ (2013). [DOI: 10.2136/sssaj2013.01.0023]
Sustainability
2013
Egbendewe-Mondzozo, A., Swinton, S.M., Bals, B.D. & Dale, B.E. "Can dispersed biomass processing protect the environment and cover the bottom line for biofuel?" Environmental Science & Technology 47,3, 1695-1703+ (2013). [DOI: 10.1021/es303829w]
Sustainability
2013
Egbendewe-Mondzozo, A., Swinton, S.M., Izaurralde, C., Manowitz, D.H. & Zhang, X. "Maintaining environmental quality while expanding biomass production: sub-regional U.S. policy simulations." Energy Policy 58,June 2013, 518-531+ (2013). [DOI: 10.1016/j.enpol.2013.02.021]
Sustainability
2013
Eranki, P.L., Manowitz, D.H., Bals, B.D., Izaurralde, C., Kim, S. & Dale, B.E. "The watershed-scale optimized and rearranged landscape design (WORLD) model and local biomass processing depots for sustainable biofuel production: integrated life cycle assessments." Biofuels, Bioproducts and Biorefining 7,5, 537-550+ (2013). [DOI: 10.1002/bbb.1426]
Sustainability
2013
Fish, J.A., Chai, B., Wang, Q., Sun, Y., Brown, T., Tiedje, J.M. & Cole, J.R. "FunGene: the functional gene pipeline and repository." Frontiers in Microbiology 4, 291+ (2013). [DOI: 10.3389/fmicb.2013.00291]
Sustainability
2013
Gall, D.L., Ralph, J., Donohue, T.J. & Noguera, D.R. "Benzoyl coenzyme A pathway-mediated metabolism of meta-hydroxy-aromatic acids in Rhodopseudomonas palustris." Journal of Bacteriology 195,18, 4112-4120+ (2013). [DOI: 10.1128/JB.00634-13]
Feedstocks, Conversion
2013
Gallo, J.M.R., Alonso, D.M., Mellmer, M.A., Yeap, J.H., Wong, H.C. & Dumesic, J.A. "Production of furfural from lignocellulosic biomass using Beta Zeolite and biomass-derived solvent." Topics in Catalysis 56, 1775-1781+ (2013). [DOI: 10.1007/s11244-013-0113-3]
Conversion
2013
Gao, D., Chundawat, S.P.S., Sethi, A., Balan, V., Gnanakaran, S. & Dale, B.E. "Increased enzyme binding to substrate is not necessary for more efficient cellulose hydrolysis." Proceedings of the National Academy of Sciences of the United States of America 110,27, 10922-10927+ (2013). [DOI: 10.1073/pnas.1213426110]
Deconstruction
2013
Gao, J., Thelen, K.D. & Hao, X. "Life cycle analyses of corn harvest strategies for bioethanol production." Agronomy Journal 105,3, 705-712+ (2013). [DOI: 10.2134/agronj2012.0420]
Sustainability
2013
Gelfand, I., Sahajpal, R., Zhang, X., Izaurralde, C., Gross, K.L. & Robertson, P. "Sustainable bioenergy production from marginal lands in the US Midwest." Nature 493, 514-517+ (2013). [DOI: 10.1038/nature11811]
Sustainability
2013
Gidda, S.K., Watt, S., Collins-Silva, J., Kilaru, A., Arondel, V., Yurchenko, O., Horn, P.J., James, C.N., Shintani, D., Ohlrogge, J.B., et al. "Lipid droplet-associated proteins (LDAPs) are involved in the compartmentalization of lipophilic compounds in plant cells." Plant Signaling & Behavior 8,11, (2013). [DOI: 10.4161/psb.27141]
Feedstocks
2013
Góngora-Castillo, E. & Buell, R. "Bioinformatics challenges in de novo transcriptome assembly using short read sequences in the absence of a reference genome sequence." Natural Product Reports 30,4, 490-500+ (2013). [DOI: 10.1039/C3NP20099J]
Feedstocks
2013
Gurbuz, E.I., Gallo, J.M.R., Alonso, D.M., Wettstein, S.G., Lim, W.Y. & Dumesic, J.A. "Conversion of hemicellulose into furfural using solid acid catalysts in γ-valerolactone." Angewandte Chemie (International Edition) 53,4, 1270-1274+ (2013). [DOI: 10.1002/anie.201207334]
Conversion