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Items: 1 to 50 of 77

1.

Correction to: Multiple levers for overcoming the recalcitrance of lignocellulosic biomass.

Holwerda EK, Worthen RS, Kothari N, Lasky RC, Davison BH, Fu C, Wang ZY, Dixon RA, Biswal AK, Mohnen D, Nelson RS, Baxter HL, Mazarei M, Stewart CN Jr, Muchero W, Tuskan GA, Cai CM, Gjersing EE, Davis MF, Himmel ME, Wyman CE, Gilna P, Lynd LR.

Biotechnol Biofuels. 2019 Feb 9;12:25. doi: 10.1186/s13068-019-1363-5. eCollection 2019.

2.

Production of deuterated biomass by cultivation of Lemna minor (duckweed) in D2O.

Evans BR, Foston M, O'Neill HM, Reeves D, Rempe C, McGrath K, Ragauskas AJ, Davison BH.

Planta. 2019 May;249(5):1465-1475. doi: 10.1007/s00425-019-03097-3. Epub 2019 Jan 29.

PMID:
30697645
3.

Multiple levers for overcoming the recalcitrance of lignocellulosic biomass.

Holwerda EK, Worthen RS, Kothari N, Lasky RC, Davison BH, Fu C, Wang ZY, Dixon RA, Biswal AK, Mohnen D, Nelson RS, Baxter HL, Mazarei M, Stewart CN Jr, Muchero W, Tuskan GA, Cai CM, Gjersing EE, Davis MF, Himmel ME, Wyman CE, Gilna P, Lynd LR.

Biotechnol Biofuels. 2019 Jan 17;12:15. doi: 10.1186/s13068-019-1353-7. eCollection 2019. Erratum in: Biotechnol Biofuels. 2019 Feb 9;12:25. Stewart CN Jr [added].

4.

Hemicellulose-Cellulose Composites Reveal Differences in Cellulose Organization after Dilute Acid Pretreatment.

Shah R, Huang S, Pingali SV, Sawada D, Pu Y, Rodriguez M Jr, Ragauskas AJ, Kim SH, Evans BR, Davison BH, O'Neill H.

Biomacromolecules. 2019 Feb 11;20(2):893-903. doi: 10.1021/acs.biomac.8b01511. Epub 2019 Jan 10.

PMID:
30554514
5.

Ultrastructure and Enzymatic Hydrolysis of Deuterated Switchgrass.

Bhagia S, Meng X, Evans BR, Dunlap JR, Bali G, Chen J, Reeves KS, Ho HC, Davison BH, Pu Y, Ragauskas AJ.

Sci Rep. 2018 Sep 5;8(1):13226. doi: 10.1038/s41598-018-31269-w.

6.

Hemicellulose characterization of deuterated switchgrass.

Bhagia S, Pu Y, Evans BR, Davison BH, Ragauskas AJ.

Bioresour Technol. 2018 Dec;269:567-570. doi: 10.1016/j.biortech.2018.08.034. Epub 2018 Aug 11.

PMID:
30145003
7.

KBase: The United States Department of Energy Systems Biology Knowledgebase.

Arkin AP, Cottingham RW, Henry CS, Harris NL, Stevens RL, Maslov S, Dehal P, Ware D, Perez F, Canon S, Sneddon MW, Henderson ML, Riehl WJ, Murphy-Olson D, Chan SY, Kamimura RT, Kumari S, Drake MM, Brettin TS, Glass EM, Chivian D, Gunter D, Weston DJ, Allen BH, Baumohl J, Best AA, Bowen B, Brenner SE, Bun CC, Chandonia JM, Chia JM, Colasanti R, Conrad N, Davis JJ, Davison BH, DeJongh M, Devoid S, Dietrich E, Dubchak I, Edirisinghe JN, Fang G, Faria JP, Frybarger PM, Gerlach W, Gerstein M, Greiner A, Gurtowski J, Haun HL, He F, Jain R, Joachimiak MP, Keegan KP, Kondo S, Kumar V, Land ML, Meyer F, Mills M, Novichkov PS, Oh T, Olsen GJ, Olson R, Parrello B, Pasternak S, Pearson E, Poon SS, Price GA, Ramakrishnan S, Ranjan P, Ronald PC, Schatz MC, Seaver SMD, Shukla M, Sutormin RA, Syed MH, Thomason J, Tintle NL, Wang D, Xia F, Yoo H, Yoo S, Yu D.

Nat Biotechnol. 2018 Jul 6;36(7):566-569. doi: 10.1038/nbt.4163. No abstract available.

8.

Rex in Caldicellulosiruptor bescii: Novel regulon members and its effect on the production of ethanol and overflow metabolites.

Sander K, Chung D, Hyatt D, Westpheling J, Klingeman DM, Rodriguez M Jr, Engle NL, Tschaplinski TJ, Davison BH, Brown SD.

Microbiologyopen. 2019 Feb;8(2):e00639. doi: 10.1002/mbo3.639. Epub 2018 May 23.

9.

Sugar release and growth of biofuel crops are improved by downregulation of pectin biosynthesis.

Biswal AK, Atmodjo MA, Li M, Baxter HL, Yoo CG, Pu Y, Lee YC, Mazarei M, Black IM, Zhang JY, Ramanna H, Bray AL, King ZR, LaFayette PR, Pattathil S, Donohoe BS, Mohanty SS, Ryno D, Yee K, Thompson OA, Rodriguez M Jr, Dumitrache A, Natzke J, Winkeler K, Collins C, Yang X, Tan L, Sykes RW, Gjersing EL, Ziebell A, Turner GB, Decker SR, Hahn MG, Davison BH, Udvardi MK, Mielenz JR, Davis MF, Nelson RS, Parrott WA, Ragauskas AJ, Neal Stewart C Jr, Mohnen D.

Nat Biotechnol. 2018 Mar;36(3):249-257. doi: 10.1038/nbt.4067. Epub 2018 Feb 12.

PMID:
29431741
10.

Development and use of a switchgrass (Panicum virgatum L.) transformation pipeline by the BioEnergy Science Center to evaluate plants for reduced cell wall recalcitrance.

Nelson RS, Stewart CN Jr, Gou J, Holladay S, Gallego-Giraldo L, Flanagan A, Mann DGJ, Hisano H, Wuddineh WA, Poovaiah CR, Srivastava A, Biswal AK, Shen H, Escamilla-Treviño LL, Yang J, Hardin CF, Nandakumar R, Fu C, Zhang J, Xiao X, Percifield R, Chen F, Bennetzen JL, Udvardi M, Mazarei M, Dixon RA, Wang ZY, Tang Y, Mohnen D, Davison BH.

Biotechnol Biofuels. 2017 Dec 22;10:309. doi: 10.1186/s13068-017-0991-x. eCollection 2017.

11.

Progress in understanding and overcoming biomass recalcitrance: a BioEnergy Science Center (BESC) perspective.

Gilna P, Lynd LR, Mohnen D, Davis MF, Davison BH.

Biotechnol Biofuels. 2017 Nov 30;10:285. doi: 10.1186/s13068-017-0971-1. eCollection 2017.

12.

The effect of coumaryl alcohol incorporation on the structure and composition of lignin dehydrogenation polymers.

Harman-Ware AE, Happs RM, Davison BH, Davis MF.

Biotechnol Biofuels. 2017 Nov 30;10:281. doi: 10.1186/s13068-017-0962-2. eCollection 2017.

13.

Anaerobic microplate assay for direct microbial conversion of switchgrass and Avicel using Clostridium thermocellum.

Oguntimein GB, Rodriguez M Jr, Dumitrache A, Shollenberger T, Decker SR, Davison BH, Brown SD.

Biotechnol Lett. 2018 Feb;40(2):303-308. doi: 10.1007/s10529-017-2467-2. Epub 2017 Nov 9.

14.

Dynamics of water bound to crystalline cellulose.

O'Neill H, Pingali SV, Petridis L, He J, Mamontov E, Hong L, Urban V, Evans B, Langan P, Smith JC, Davison BH.

Sci Rep. 2017 Sep 19;7(1):11840. doi: 10.1038/s41598-017-12035-w.

15.

Bioavailability of Carbohydrate Content in Natural and Transgenic Switchgrasses for the Extreme Thermophile Caldicellulosiruptor bescii.

Zurawski JV, Khatibi PA, Akinosho HO, Straub CT, Compton SH, Conway JM, Lee LL, Ragauskas AJ, Davison BH, Adams MWW, Kelly RM.

Appl Environ Microbiol. 2017 Aug 17;83(17). pii: e00969-17. doi: 10.1128/AEM.00969-17. Print 2017 Sep 1.

16.

Transgenic miR156 switchgrass in the field: growth, recalcitrance and rust susceptibility.

Baxter HL, Mazarei M, Dumitrache A, Natzke JM, Rodriguez M Jr, Gou J, Fu C, Sykes RW, Turner GB, Davis MF, Brown SD, Davison BH, Wang ZY, Stewart CN Jr.

Plant Biotechnol J. 2018 Jan;16(1):39-49. doi: 10.1111/pbi.12747. Epub 2017 Jun 20.

17.

Plasticity, elasticity, and adhesion energy of plant cell walls: nanometrology of lignin loss using atomic force microscopy.

Farahi RH, Charrier AM, Tolbert A, Lereu AL, Ragauskas A, Davison BH, Passian A.

Sci Rep. 2017 Mar 10;7(1):152. doi: 10.1038/s41598-017-00234-4.

18.

Specialized activities and expression differences for Clostridium thermocellum biofilm and planktonic cells.

Dumitrache A, Klingeman DM, Natzke J, Rodriguez M Jr, Giannone RJ, Hettich RL, Davison BH, Brown SD.

Sci Rep. 2017 Feb 27;7:43583. doi: 10.1038/srep43583.

19.

Transgenic switchgrass (Panicum virgatum L.) targeted for reduced recalcitrance to bioconversion: a 2-year comparative analysis of field-grown lines modified for target gene or genetic element expression.

Dumitrache A, Natzke J, Rodriguez M Jr, Yee KL, Thompson OA, Poovaiah CR, Shen H, Mazarei M, Baxter HL, Fu C, Wang ZY, Biswal AK, Li G, Srivastava AC, Tang Y, Stewart CN Jr, Dixon RA, Nelson RS, Mohnen D, Mielenz J, Brown SD, Davison BH.

Plant Biotechnol J. 2017 Jun;15(6):688-697. doi: 10.1111/pbi.12666. Epub 2017 Feb 20.

20.

Strain and bioprocess improvement of a thermophilic anaerobe for the production of ethanol from wood.

Herring CD, Kenealy WR, Joe Shaw A, Covalla SF, Olson DG, Zhang J, Ryan Sillers W, Tsakraklides V, Bardsley JS, Rogers SR, Thorne PG, Johnson JP, Foster A, Shikhare ID, Klingeman DM, Brown SD, Davison BH, Lynd LR, Hogsett DA.

Biotechnol Biofuels. 2016 Jun 16;9:125. doi: 10.1186/s13068-016-0536-8. eCollection 2016.

21.

Consolidated bioprocessing of Populus using Clostridium (Ruminiclostridium) thermocellum: a case study on the impact of lignin composition and structure.

Dumitrache A, Akinosho H, Rodriguez M Jr, Meng X, Yoo CG, Natzke J, Engle NL, Sykes RW, Tschaplinski TJ, Muchero W, Ragauskas AJ, Davison BH, Brown SD.

Biotechnol Biofuels. 2016 Feb 4;9:31. doi: 10.1186/s13068-016-0445-x. eCollection 2016.

22.

Biological lignocellulose solubilization: comparative evaluation of biocatalysts and enhancement via cotreatment.

Paye JM, Guseva A, Hammer SK, Gjersing E, Davis MF, Davison BH, Olstad J, Donohoe BS, Nguyen TY, Wyman CE, Pattathil S, Hahn MG, Lynd LR.

Biotechnol Biofuels. 2016 Jan 12;9:8. doi: 10.1186/s13068-015-0412-y. eCollection 2016.

23.

Clostridium thermocellum DSM 1313 transcriptional responses to redox perturbation.

Sander K, Wilson CM, Rodriguez M Jr, Klingeman DM, Rydzak T, Davison BH, Brown SD.

Biotechnol Biofuels. 2015 Dec 12;8:211. doi: 10.1186/s13068-015-0394-9. eCollection 2015.

24.

Production of bacterial cellulose with controlled deuterium-hydrogen substitution for neutron scattering studies.

O'Neill H, Shah R, Evans BR, He J, Pingali SV, Chundawat SP, Jones AD, Langan P, Davison BH, Urban V.

Methods Enzymol. 2015;565:123-46. doi: 10.1016/bs.mie.2015.08.031. Epub 2015 Oct 23.

PMID:
26577730
25.

Heterobimetallic Zeolite, InV-ZSM-5, Enables Efficient Conversion of Biomass Derived Ethanol to Renewable Hydrocarbons.

Narula CK, Li Z, Casbeer EM, Geiger RA, Moses-Debusk M, Keller M, Buchanan MV, Davison BH.

Sci Rep. 2015 Nov 3;5:16039. doi: 10.1038/srep16039.

26.

Opto-nanomechanical spectroscopic material characterization.

Tetard L, Passian A, Farahi RH, Thundat T, Davison BH.

Nat Nanotechnol. 2015 Oct;10(10):870-7. doi: 10.1038/nnano.2015.168. Epub 2015 Aug 10.

PMID:
26258550
27.

Genome-scale resources for Thermoanaerobacterium saccharolyticum.

Currie DH, Raman B, Gowen CM, Tschaplinski TJ, Land ML, Brown SD, Covalla SF, Klingeman DM, Yang ZK, Engle NL, Johnson CM, Rodriguez M, Shaw AJ, Kenealy WR, Lynd LR, Fong SS, Mielenz JR, Davison BH, Hogsett DA, Herring CD.

BMC Syst Biol. 2015 Jun 26;9:30. doi: 10.1186/s12918-015-0159-x.

28.

Production of deuterated switchgrass by hydroponic cultivation.

Evans BR, Bali G, Foston M, Ragauskas AJ, O'Neill HM, Shah R, McGaughey J, Reeves D, Rempe CS, Davison BH.

Planta. 2015 Jul;242(1):215-22. doi: 10.1007/s00425-015-2298-0. Epub 2015 Apr 21.

PMID:
25896375
29.

Systems and synthetic biology approaches to alter plant cell walls and reduce biomass recalcitrance.

Kalluri UC, Yin H, Yang X, Davison BH.

Plant Biotechnol J. 2014 Dec;12(9):1207-16. doi: 10.1111/pbi.12283. Epub 2014 Nov 3. Review.

30.

Karhunen-Loève treatment to remove noise and facilitate data analysis in sensing, spectroscopy and other applications.

Zaharov VV, Farahi RH, Snyder PJ, Davison BH, Passian A.

Analyst. 2014 Nov 21;139(22):5927-35. doi: 10.1039/c4an01300j.

PMID:
25252650
31.

Elucidation of Zymomonas mobilis physiology and stress responses by quantitative proteomics and transcriptomics.

Yang S, Pan C, Hurst GB, Dice L, Davison BH, Brown SD.

Front Microbiol. 2014 May 22;5:246. doi: 10.3389/fmicb.2014.00246. eCollection 2014.

32.

Consolidated bioprocessing of transgenic switchgrass by an engineered and evolved Clostridium thermocellum strain.

Yee KL, Rodriguez M Jr, Thompson OA, Fu C, Wang ZY, Davison BH, Mielenz JR.

Biotechnol Biofuels. 2014 May 22;7:75. doi: 10.1186/1754-6834-7-75. eCollection 2014.

33.

Lignin valorization: improving lignin processing in the biorefinery.

Ragauskas AJ, Beckham GT, Biddy MJ, Chandra R, Chen F, Davis MF, Davison BH, Dixon RA, Gilna P, Keller M, Langan P, Naskar AK, Saddler JN, Tschaplinski TJ, Tuskan GA, Wyman CE.

Science. 2014 May 16;344(6185):1246843. doi: 10.1126/science.1246843. Review.

PMID:
24833396
34.

Chemical factors that control lignin polymerization.

Sangha AK, Davison BH, Standaert RF, Davis MF, Smith JC, Parks JM.

J Phys Chem B. 2014 Jan 9;118(1):164-70. doi: 10.1021/jp411998t. Epub 2013 Dec 30.

PMID:
24341896
35.

Systems biology analysis of Zymomonas mobilis ZM4 ethanol stress responses.

Yang S, Pan C, Tschaplinski TJ, Hurst GB, Engle NL, Zhou W, Dam P, Xu Y, Rodriguez M Jr, Dice L, Johnson CM, Davison BH, Brown SD.

PLoS One. 2013 Jul 16;8(7):e68886. doi: 10.1371/journal.pone.0068886. Print 2013. Erratum in: PLoS One. 2014;9(6):e101305.

36.

Genome Sequences of Industrially Relevant Saccharomyces cerevisiae Strain M3707, Isolated from a Sample of Distillers Yeast and Four Haploid Derivatives.

Brown SD, Klingeman DM, Johnson CM, Clum A, Aerts A, Salamov A, Sharma A, Zane M, Barry K, Grigoriev IV, Davison BH, Lynd LR, Gilna P, Hau H, Hogsett DA, Froehlich AC.

Genome Announc. 2013 Jun 27;1(3). pii: e00323-13. doi: 10.1128/genomeA.00323-13.

37.

Assessing the molecular structure basis for biomass recalcitrance during dilute acid and hydrothermal pretreatments.

Pu Y, Hu F, Huang F, Davison BH, Ragauskas AJ.

Biotechnol Biofuels. 2013 Jan 28;6(1):15. doi: 10.1186/1754-6834-6-15.

38.

Down-regulation of the caffeic acid O-methyltransferase gene in switchgrass reveals a novel monolignol analog.

Tschaplinski TJ, Standaert RF, Engle NL, Martin MZ, Sangha AK, Parks JM, Smith JC, Samuel R, Jiang N, Pu Y, Ragauskas AJ, Hamilton CY, Fu C, Wang ZY, Davison BH, Dixon RA, Mielenz JR.

Biotechnol Biofuels. 2012 Sep 21;5(1):71. doi: 10.1186/1754-6834-5-71.

39.

Nanometrology of delignified Populus using mode synthesizing atomic force microscopy.

Tetard L, Passian A, Farahi RH, Davison BH, Jung S, Ragauskas AJ, Lereu AL, Thundat T.

Nanotechnology. 2011 Nov 18;22(46):465702. doi: 10.1088/0957-4484/22/46/465702. Epub 2011 Oct 25.

PMID:
22024985
40.

Optomechanical spectroscopy with broadband interferometric and quantum cascade laser sources.

Tetard L, Passian A, Farahi RH, Davison BH, Thundat T.

Opt Lett. 2011 Aug 15;36(16):3251-3. doi: 10.1364/OL.36.003251.

PMID:
21847224
41.

Spectroscopy and atomic force microscopy of biomass.

Tetard L, Passian A, Farahi RH, Kalluri UC, Davison BH, Thundat T.

Ultramicroscopy. 2010 May;110(6):701-7. doi: 10.1016/j.ultramic.2010.02.035. Epub 2010 Feb 25.

PMID:
20236767
42.

Piezoresistive cantilever array sensor for consolidated bioprocess monitoring.

Kim S, Rahman T, Senesac LR, Davison BH, Thundat T.

Scanning. 2009 Sep-Oct;31(5):204-10. doi: 10.1002/sca.20159.

PMID:
20027646
43.

Session 9: Advances in bioprocessing and related separations technology.

Dodge TC, Davison BH.

Appl Biochem Biotechnol. 2009 May;155(1-3):429-30. doi: 10.1007/s12010-009-8614-z. No abstract available.

PMID:
19319696
44.

Transcriptomic and metabolomic profiling of Zymomonas mobilis during aerobic and anaerobic fermentations.

Yang S, Tschaplinski TJ, Engle NL, Carroll SL, Martin SL, Davison BH, Palumbo AV, Rodriguez M Jr, Brown SD.

BMC Genomics. 2009 Jan 20;10:34. doi: 10.1186/1471-2164-10-34.

45.

Solubility of toluene, benzene and TCE in high-microbial concentration systems.

Barton JW, Vodraska CD, Flanary SA, Davison BH.

Chemosphere. 2008 Dec;73(11):1737-40. doi: 10.1016/j.chemosphere.2008.09.008. Epub 2008 Oct 16.

PMID:
18929392
46.

Production of ethanol from starch by co-immobilized Zymomonas mobilis-glucoamylase in a fluidized-bed reactor.

Sun MY, Nghiem NP, Davison BH, Webb OF, Bienkowski PR.

Appl Biochem Biotechnol. 1998 Spring;70-72:429-39. doi: 10.1007/BF02920158.

PMID:
18576011
47.

Techno-economic analysis of biocatalytic processes for production of alkene epoxides.

Borole AP, Davison BH.

Appl Biochem Biotechnol. 2007 Apr;137-140(1-12):437-49. doi: 10.1007/s12010-007-9070-2.

PMID:
18478407
48.

Improving activity of salt-lyophilized enzymes in organic media.

Borole AP, Davison BH.

Appl Biochem Biotechnol. 2008 Mar;146(1-3):215-22. doi: 10.1007/s12010-007-8033-y. Epub 2007 Sep 15.

PMID:
18421599
49.

Variation of S/G ratio and lignin content in a Populus family influences the release of xylose by dilute acid hydrolysis.

Davison BH, Drescher SR, Tuskan GA, Davis MF, Nghiem NP.

Appl Biochem Biotechnol. 2006 Spring;129-132:427-35.

PMID:
16915659
50.

Determination and comparison of the baseline proteomes of the versatile microbe Rhodopseudomonas palustris under its major metabolic states.

VerBerkmoes NC, Shah MB, Lankford PK, Pelletier DA, Strader MB, Tabb DL, McDonald WH, Barton JW, Hurst GB, Hauser L, Davison BH, Beatty JT, Harwood CS, Tabita FR, Hettich RL, Larimer FW.

J Proteome Res. 2006 Feb;5(2):287-98.

PMID:
16457594

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