Works matching AU Bomble, Yannick J.

Results: 45

Engineering the N-terminal end of CelA results in improved performance and growth of Caldicellulosiruptor bescii on crystalline cellulose.

Published in:

Biotechnology & Bioengineering, 2017, v. 114, n. 5, p. 945, doi. 10.1002/bit.26242

By:

Kim, Sun‐Ki;
Chung, Daehwan;
Himmel, Michael E.;
Bomble, Yannick J.;
Westpheling, Janet

Publication type:

Article

Heterologous co-expression of two β-glucanases and a cellobiose phosphorylase resulted in a significant increase in the cellulolytic activity of the Caldicellulosiruptor bescii exoproteome.

Published in:

Journal of Industrial Microbiology & Biotechnology, 2019, v. 46, n. 5, p. 687, doi. 10.1007/s10295-019-02150-0

By:

Kim, Sun-Ki;
Chung, Daehwan;
Himmel, Michael E.;
Bomble, Yannick J.;
Westpheling, Janet

Publication type:

Article

Structural, mutagenic and in silico studies of xyloglucan fucosylation in Arabidopsis thaliana suggest a water-mediated mechanism.

Published in:

Plant Journal, 2017, v. 91, n. 6, p. 931, doi. 10.1111/tpj.13628

By:

Urbanowicz, Breeanna R.;
Bharadwaj, Vivek S.;
Alahuhta, Markus;
Peña, Maria J.;
Lunin, Vladimir V.;
Bomble, Yannick J.;
Wang, Shuo;
Yang, Jeong‐Yeh;
Tuomivaara, Sami T.;
Himmel, Michael E.;
Moremen, Kelley W.;
York, William S.;
Crowley, Michael F.

Publication type:

Article

Engineering and characterization of carbohydrate‐binding modules for imaging cellulose fibrils biosynthesis in plant protoplasts.

Published in:

Biotechnology & Bioengineering, 2023, v. 120, n. 8, p. 2253, doi. 10.1002/bit.28484

By:

Jayachandran, Dharanidaran;
Smith, Peter;
Irfan, Mohammad;
Sun, Junhong;
Yarborough, John M.;
Bomble, Yannick J.;
Lam, Eric;
Chundawat, Shishir P. S.

Publication type:

Article

In vivo synergistic activity of a CAZyme cassette from Acidothermus cellulolyticus significantly improves the cellulolytic activity of the C. bescii exoproteome.

Published in:

Biotechnology & Bioengineering, 2017, v. 114, n. 11, p. 2474, doi. 10.1002/bit.26366

By:

Kim, Sun‐Ki;
Chung, Daehwan;
Himmel, Michael E.;
Bomble, Yannick J.;
Westpheling, Janet

Publication type:

Article

Streamlining heterologous expression of top carbonic anhydrases in Escherichia coli: bioinformatic and experimental approaches.

Published in:

Microbial Cell Factories, 2024, v. 23, n. 1, p. 1, doi. 10.1186/s12934-024-02463-5

By:

Wei, Hui;
Lunin, Vladimir V.;
Alahuhta, Markus;
Himmel, Michael E.;
Huang, Shu;
Bomble, Yannick J.;
Zhang, Min

Publication type:

Article

Disruption of the Snf1 Gene Enhances Cell Growth and Reduces the Metabolic Burden in Cellulase-Expressing and Lipid-Accumulating Yarrowia lipolytica.

Published in:

Frontiers in Microbiology, 2021, v. 12, p. 1, doi. 10.3389/fmicb.2021.757741

By:

Wei, Hui;
Wang, Wei;
Knoshaug, Eric P.;
Chen, Xiaowen;
Van Wychen, Stefanie;
Bomble, Yannick J.;
Himmel, Michael E.;
Zhang, Min

Publication type:

Article

Iron incorporation both intra- and extra-cellularly improves the yield and saccharification of switchgrass (Panicum virgatum L.) biomass.

Published in:

Biotechnology for Biofuels, 2021, v. 14, n. 1, p. 1, doi. 10.1186/s13068-021-01891-4

By:

Lin, Chien-Yuan;
Donohoe, Bryon S.;
Bomble, Yannick J.;
Yang, Haibing;
Yunes, Manal;
Sarai, Nicholas S.;
Shollenberger, Todd;
Decker, Stephen R.;
Chen, Xiaowen;
McCann, Maureen C.;
Tucker, Melvin P.;
Wei, Hui;
Himmel, Michael E.

Publication type:

Article

Comparing Residue Clusters from Thermophilic and Mesophilic Enzymes Reveals Adaptive Mechanisms.

Published in:

PLoS ONE, 2016, v. 11, n. 1, p. 1, doi. 10.1371/journal.pone.0145848

By:

Sammond, Deanne W.;
Kastelowitz, Noah;
Himmel, Michael E.;
Yin, Hang;
Crowley, Michael F.;
Bomble, Yannick J.

Publication type:

Article

Novel multidomain, multifunctional glycoside hydrolases from highly lignocellulolytic Caldicellulosiruptor species.

Published in:

AIChE Journal, 2018, v. 64, n. 12, p. 4218, doi. 10.1002/aic.16354

By:

Conway, Jonathan M.;
Crosby, James R.;
Hren, Andrew P.;
Southerland, Robert T.;
Lee, Laura L.;
Lunin, Vladimir V.;
Alahuhta, Petri;
Himmel, Michael E.;
Bomble, Yannick J.;
Adams, Michael W. W.;
Kelly, Robert M.

Publication type:

Article

Characterization of the Biomass Degrading Enzyme GuxA from Acidothermus cellulolyticus.

Published in:

International Journal of Molecular Sciences, 2022, v. 23, n. 11, p. 6070, doi. 10.3390/ijms23116070

By:

Hengge, Neal N.;
Mallinson, Sam J. B.;
Pason, Patthra;
Lunin, Vladimir V.;
Alahuhta, Markus;
Chung, Daehwan;
Himmel, Michael E.;
Westpheling, Janet;
Bomble, Yannick J.

Publication type:

Article

Occurrence of Thermophilic Microorganisms in Different Full Scale Biogas Plants.

Published in:

International Journal of Molecular Sciences, 2020, v. 21, n. 1, p. 283, doi. 10.3390/ijms21010283

By:

Kushkevych, Ivan;
Cejnar, Jiří;
Vítězová, Monika;
Vítěz, Tomáš;
Dordević, Dani;
Bomble, Yannick J.

Publication type:

Article

Molecular Mechanism of Polysaccharide Acetylation by the Arabidopsis Xylan O-acetyltransferase XOAT1.

Published in:

Plant Cell, 2020, v. 32, n. 7, p. 2367, doi. 10.1105/tpc.20.00028

By:

Lunin, Vladimir V.;
Wang, Hsin-Tzu;
Bharadwaj, Vivek S.;
Alahuhta, Markus;
Peña, Maria J.;
Yang, Jeong-Yeh;
Archer-Hartmann, Stephanie A.;
Azadi, Parastoo;
Himmel, Michael E.;
Moremen, Kelley W.;
York, William S.;
2, Yannick J. Bomble;
2, Breeanna R. Urbanowicz

Publication type:

Article

Metaproteomics reveals enzymatic strategies deployed by anaerobic microbiomes to maintain lignocellulose deconstruction at high solids.

Published in:

Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-31433-x

By:

Chirania, Payal;
Holwerda, Evert K.;
Giannone, Richard J.;
Liang, Xiaoyu;
Poudel, Suresh;
Ellis, Joseph C.;
Bomble, Yannick J.;
Hettich, Robert L.;
Lynd, Lee R.

Publication type:

Article

Alternative Energy Carriers: Unique Interfaces for Electrochemical Hydrogenic Transformations.

Published in:

Advanced Energy Materials, 2023, v. 13, n. 14, p. 1, doi. 10.1002/aenm.202203751

By:

Carroll, Gerard M.;
Gebbie, Matthew A.;
Stahl, Shannon S.;
Johnson, Mathew R.;
Luca, Oana R.;
Petersen, Haley A.;
Bomble, Yannick J.;
Neale, Nathan R.;
Cortright, Randy D.

Publication type:

Article

Prediction of reaction knockouts to maximize succinate production by Actinobacillus succinogenes.

Published in:

PLoS ONE, 2018, v. 13, n. 1, p. 1, doi. 10.1371/journal.pone.0189144

By:

Nag, Ambarish;
St. John, Peter C.;
Crowley, Michael F.;
Bomble, Yannick J.

Publication type:

Article

Target highlights in CASP14: Analysis of models by structure providers.

Published in:

Proteins, 2021, v. 89, n. 12, p. 1647, doi. 10.1002/prot.26247

By:

Alexander, Leila T.;
Lepore, Rosalba;
Kryshtafovych, Andriy;
Adamopoulos, Athanassios;
Alahuhta, Markus;
Arvin, Ann M.;
Bomble, Yannick J.;
Böttcher, Bettina;
Breyton, Cécile;
Chiarini, Valerio;
Chinnam, Naga babu;
Chiu, Wah;
Fidelis, Krzysztof;
Grinter, Rhys;
Gupta, Gagan D.;
Hartmann, Marcus D.;
Hayes, Christopher S.;
Heidebrecht, Tatjana;
Ilari, Andrea;
Joachimiak, Andrzej

Publication type:

Article

Target highlights in CASP13: Experimental target structures through the eyes of their authors.

Published in:

Proteins, 2019, v. 87, n. 12, p. 1037, doi. 10.1002/prot.25805

By:

Lepore, Rosalba;
Kryshtafovych, Andriy;
Alahuhta, Markus;
Veraszto, Harshul A.;
Bomble, Yannick J.;
Bufton, Joshua C.;
Bullock, Alex N.;
Caba, Cody;
Cao, Hongnan;
Davies, Owen R.;
Desfosses, Ambroise;
Dunne, Matthew;
Fidelis, Krzysztof;
Goulding, Celia W.;
Gurusaran, Manickam;
Gutsche, Irina;
Harding, Christopher J.;
Hartmann, Marcus D.;
Hayes, Christopher S.;
Joachimiak, Andrzej

Publication type:

Article

Strategies to reduce end-product inhibition in family 48 glycoside hydrolases.

Published in:

Proteins, 2016, v. 84, n. 3, p. 295, doi. 10.1002/prot.24965

By:

Chen, Mo;
Bu, Lintao;
Alahuhta, Markus;
Brunecky, Roman;
Xu, Qi;
Lunin, Vladimir V.;
Brady, John W.;
Crowley, Michael F.;
Himmel, Michael E.;
Bomble, Yannick J.

Publication type:

Article

Ethanol tolerance in engineered strains of Clostridium thermocellum.

Published in:

Biotechnology for Biofuels & Bioproducts, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13068-023-02379-z

By:

Olson, Daniel G.;
Maloney, Marybeth I.;
Lanahan, Anthony A.;
Cervenka, Nicholas D.;
Xia, Ying;
Pech-Canul, Angel;
Hon, Shuen;
Tian, Liang;
Ziegler, Samantha J.;
Bomble, Yannick J.;
Lynd, Lee R.

Publication type:

Article

Simultaneous expression of an endogenous spermidine synthase and a butanol dehydrogenase from Thermoanaerobacter pseudethanolicus in Clostridium thermocellum results in increased resistance to acetic acid and furans, increased ethanol production and an increase in thermotolerance

Published in:

Biotechnology for Biofuels & Bioproducts, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13068-023-02291-6

By:

Kim, Sun-Ki;
Bomble, Yannick J.;
Westpheling, Janet

Publication type:

Article

Composition and yield of non-cellulosic and cellulosic sugars in soluble and particulate fractions during consolidated bioprocessing of poplar biomass by Clostridium thermocellum.

Published in:

Biotechnology for Biofuels & Bioproducts, 2022, v. 15, n. 1, p. 1, doi. 10.1186/s13068-022-02119-9

By:

Biswal, Ajaya K.;
Hengge, Neal N.;
Black, Ian M.;
Atmodjo, Melani A.;
Mohanty, Sushree S.;
Ryno, David;
Himmel, Michael E.;
Azadi, Parastoo;
Bomble, Yannick J.;
Mohnen, Debra

Publication type:

Article

Efficient estimation of the maximum metabolic productivity of batch systems.

Published in:

Biotechnology for Biofuels, 2017, v. 10, p. 1, doi. 10.1186/s13068-017-0709-0

By:

John, Peter C. St.;
Crowley, Michael F.;
Bomble, Yannick J.

Publication type:

Article

Heterologous expression of family 10 xylanases from Acidothermus cellulolyticus enhances the exoproteome of Caldicellulosiruptor bescii and growth on xylan substrates.

Published in:

Biotechnology for Biofuels, 2016, v. 9, p. 1, doi. 10.1186/s13068-016-0588-9

By:

Sun-Ki Kim;
Daehwan Chung;
Himmel, Michael E.;
Bomble, Yannick J.;
Westpheling, Janet

Publication type:

Article

New perspective on glycoside hydrolase binding to lignin from pretreated corn stover.

Published in:

Biotechnology for Biofuels, 2015, v. 8, p. 1, doi. 10.1186/s13068-015-0397-6

By:

Yarbrough, John M.;
Mittal, Ashutosh;
Mansfield, Elisabeth;
Taylor II, Larry E.;
Hobdey, Sarah E.;
Sammond, Deanne W.;
Bomble, Yannick J.;
Crowley, Michael F.;
Decker, Stephen R.;
Himmel, Michael E.;
Vinzant, Todd B.

Publication type:

Article

Multiscale modeling of nucleic acids: Insights into DNA flexibility.

Published in:

Biopolymers, 2008, v. 89, n. 9, p. 722, doi. 10.1002/bip.21000

By:

Bomble, Yannick J.;
Case, David A.

Publication type:

Article

Expression of the Acidothermus cellulolyticus E1 endoglucanase in Caldicellulosiruptor bescii enhances its ability to deconstruct crystalline cellulose.

Published in:

Biotechnology for Biofuels, 2015, v. 8, n. 1, p. 1, doi. 10.1186/s13068-015-0296-x

By:

Daehwan Chung;
Jenna Young;
Minseok Cha;
Brunecky, Roman;
Bomble, Yannick J.;
Himmel, Michael E.;
Westpheling, Janet

Publication type:

Article

Deletion of Caldicellulosiruptor bescii CelA reveals its crucial role in the deconstruction of lignocellulosic biomass.

Published in:

Biotechnology for Biofuels, 2014, v. 7, n. 1, p. 1, doi. 10.1186/s13068-014-0142-6

By:

Young, Jenna;
Daehwan Chung;
Bomble, Yannick J.;
Himmel, Michael E.;
Westpheling, Janet

Publication type:

Article

Improving activity of minicellulosomes by integration of intra- and intermolecular synergies.

Published in:

Biotechnology for Biofuels, 2013, v. 6, n. 1, p. 1, doi. 10.1186/1754-6834-6-126

By:

Qi Xu;
Shi-You Ding;
Brunecky, Roman;
Bomble, Yannick J.;
Himmel, Michael E.;
Baker, John O.

Publication type:

Article

Exozymes for Biomanufacturing: Toward Clarity and Precision in the Cell-Free Space.

Published in:

GEN Biotechnology, 2025, v. 4, n. 2, p. 66, doi. 10.1089/genbio.2025.0008

By:

Brückner, Adrian;
Vögeli, Bastian;
Billingsley, John M.;
Opgenorth, Paul H.;
Vielmas, Erika;
Sarnik, Sylvia A.;
Heltzen, Michael;
Görlitz, Lasse;
Bowie, James U.;
Sun, Zachary Z.;
Lalonde, James;
Brazeau, Brian;
Bomble, Yannick J.;
Korman, Tyler P.

Publication type:

Article

Nanoscale resolution of microbial fiber degradation in action.

Published in:

eLife, 2022, p. 1, doi. 10.7554/eLife.76523

By:

Tatli, Meltem;
Moraïs, Sarah;
Tovar-Herrera, Omar E.;
Bomble, Yannick J.;
Bayer, Edward A.;
Medalia, Ohad;
Mizrahi, Itzhak

Publication type:

Article

Approaches to Computational Strain Design in the Multiomics Era.

Published in:

Frontiers in Microbiology, 2019, p. N.PAG, doi. 10.3389/fmicb.2019.00597

By:

St. John, Peter C.;
Bomble, Yannick J.

Publication type:

Article

Homologous Expression of the Caldicellulosiruptor bescii CelA Reveals that the Extracellular Protein Is Glycosylated.

Published in:

PLoS ONE, 2015, v. 10, n. 3, p. 1, doi. 10.1371/journal.pone.0119508

By:

Chung, Daehwan;
Young, Jenna;
Bomble, Yannick J.;
Vander Wall, Todd A.;
Groom, Joseph;
Himmel, Michael E.;
Westpheling, Janet

Publication type:

Article

Bayesian inference of metabolic kinetics from genome-scale multiomics data.

Published in:

PLoS Computational Biology, 2019, v. 15, n. 11, p. 1, doi. 10.1371/journal.pcbi.1007424

By:

St. John, Peter C.;
Strutz, Jonathan;
Broadbelt, Linda J.;
Tyo, Keith E. J.;
Bomble, Yannick J.

Publication type:

Article

Long-Term Stability of Nicotinamide Cofactors in Common Aqueous Buffers: Implications for Cell-Free Biocatalysis.

Published in:

Molecules, 2024, v. 29, n. 22, p. 5453, doi. 10.3390/molecules29225453

By:

Wolfe, Kody D.;
Alahuhta, Markus;
Himmel, Michael E.;
Bomble, Yannick J.;
Jennings, G. Kane;
Cliffel, David E.

Publication type:

Article

Self-assembling Dimeric and Trimeric Aggregates Based on Solvophobic and Charge-pairing Interactions.

Published in:

Supramolecular Chemistry, 2004, v. 16, n. 7, p. 521, doi. 10.1080/10610270412331295995

By:

Hennrich, Gunther;
David, Wendi M.;
Bomble, Yannick J.;
Anslyn, Eric V.;
Brodbelt, Jennifer S.;
Stanton, John F.

Publication type:

Article

Creation of a functional hyperthermostable designer cellulosome.

Published in:

Biotechnology for Biofuels, 2019, v. 12, n. 1, p. N.PAG, doi. 10.1186/s13068-019-1386-y

By:

Kahn, Amaranta;
Moraïs, Sarah;
Galanopoulou, Anastasia P.;
Chung, Daehwan;
Sarai, Nicholas S.;
Hengge, Neal;
Hatzinikolaou, Dimitris G.;
Himmel, Michael E.;
Bomble, Yannick J.;
Bayer, Edward A.

Publication type:

Article

Deletion of a single glycosyltransferase in Caldicellulosiruptor bescii eliminates protein glycosylation and growth on crystalline cellulose.

Published in:

Biotechnology for Biofuels, 2018, v. 11, n. 1, p. N.PAG, doi. 10.1186/s13068-018-1266-x

By:

Russell, Jordan;
Duma, Justin;
Szymanski, Christine M.;
Westpheling, Janet;
Kim, Sun-Ki;
Nothaft, Harald;
Himmel, Michael E.;
Bomble, Yannick J.

Publication type:

Article

An iterative computational design approach to increase the thermal endurance of a mesophilic enzyme.

Published in:

Biotechnology for Biofuels, 2018, v. 11, n. 1, p. N.PAG, doi. 10.1186/s13068-018-1178-9

By:

Sammond, Deanne W.;
Kastelowitz, Noah;
Donohoe, Bryon S.;
Alahuhta, Markus;
Lunin, Vladimir V.;
Chung, Daehwan;
Sarai, Nicholas S.;
Yin, Hang;
Mittal, Ashutosh;
Himmel, Michael E.;
Guss, Adam M.;
Bomble, Yannick J.

Publication type:

Article

High activity CAZyme cassette for improving biomass degradation in thermophiles.

Published in:

Biotechnology for Biofuels, 2018, v. 11, p. 1, doi. 10.1186/s13068-018-1014-2

By:

Brunecky, Roman;
Chung, Daehwan;
Sarai, Nicholas S.;
Hengge, Neal;
Russell, Jordan F.;
Young, Jenna;
Mittal, Ashutosh;
Pason, Patthra;
Vander Wall, Todd;
Michener, William;
Shollenberger, Todd;
Westpheling, Janet;
Himmel, Michael E.;
Bomble, Yannick J.

Publication type:

Article

Natural diversity of glycoside hydrolase family 48 exoglucanases: insights from structure.

Published in:

Biotechnology for Biofuels, 2017, v. 10, p. 1, doi. 10.1186/s13068-017-0951-5

By:

Brunecky, Roman;
Alahuhta, Markus;
Sammond, Deanne W.;
Qi Xu;
Mo Chen;
Wilson, David B.;
Brady, John W.;
Himmel, Michael E.;
Bomble, Yannick J.;
Lunin, Vladimir V.

Publication type:

Article

Undefined cellulase formulations hinder scientific reproducibility.

Published in:

Biotechnology for Biofuels, 2017, v. 10, p. 1, doi. 10.1186/s13068-017-0974-y

By:

Himmel, Michael E.;
Abbas, Charles A.;
Baker, John O.;
Bayer, Edward A.;
Bomble, Yannick J.;
Brunecky, Roman;
Xiaowen Chen;
Felby, Claus;
Jeoh, Tina;
Kumar, Rajeev;
McCleary, Barry V.;
Pletschke, Brett I.;
Tucker, Melvin P.;
Wyman, Charles E.;
Decker, Stephen R.

Publication type:

Article

Structure of a Thermobifida fusca lytic polysaccharide monooxygenase and mutagenesis of key residues.

Published in:

Biotechnology for Biofuels, 2017, v. 10, p. 1, doi. 10.1186/s13068-017-0925-7

By:

Kruer-Zerhusen, Nathan;
Alahuhta, Markus;
Lunin, Vladimir V.;
Himmel, Michael E.;
Bomble, Yannick J.;
Wilson, David B.

Publication type:

Article

Glycosyltransferase family 47 (GT47) proteins in plants and animals.

Published in:

Essays in Biochemistry, 2023, v. 67, n. 3, p. 639, doi. 10.1042/EBC20220152

By:

Zhang, Liang;
Prabhakar, Pradeep Kumar;
Bharadwaj, Vivek S.;
Bomble, Yannick J.;
Peña, Maria J.;
Urbanowicz, Breeanna R.

Publication type:

Article

Glycosylation of hyperthermostable designer cellulosome components yields enhanced stability and cellulose hydrolysis.

Published in:

FEBS Journal, 2020, v. 287, n. 20, p. 4370, doi. 10.1111/febs.15251

By:

Kahn, Amaranta;
Moraïs, Sarah;
Chung, Daehwan;
Sarai, Nicholas S.;
Hengge, Neal N.;
Kahn, Audrey;
Himmel, Michael E.;
Bayer, Edward A.;
Bomble, Yannick J.

Publication type:

Article