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List of works by Blake Alexander Simmons

1-Ethyl-3-methylimidazolium tolerance and intracellular lipid accumulation of 38 oleaginous yeast species

scientific article published on 19 October 2017

A Conversation with Blake Simmons, Vice President, Deconstruction Division, and Jon Magnuson, Director, Fungal Biotechnology Group, Joint BioEnergy Institute, Emeryville, CA

A bacterial pioneer produces cellulase complexes that persist through community succession.

scientific article

A comparative genomics study of 23 Aspergillus species from section Flavi

scientific article published on 27 February 2020

A comparative study of ethanol production using dilute acid, ionic liquid and AFEX™ pretreated corn stover

scientific article (publication date: 2014)

A droplet-to-digital (D2D) microfluidic device for single cell assays

scientific article published on January 2015

A facile method for the recovery of ionic liquid and lignin from biomass pretreatment

article published in 2011

A mosaic monoploid reference sequence for the highly complex genome of sugarcane.

scientific article published on 6 July 2018

A new approach to Cas9-based genome editing in Aspergillus niger that is precise, efficient and selectable

scientific article published in PLoS ONE

A single-base resolution map of an archaeal transcriptome

scientific article

A thermophilic ionic liquid-tolerant cellulase cocktail for the production of cellulosic biofuels

scientific article (publication date: 2012)

Accumulation of high-value bioproducts in planta can improve the economics of advanced biofuels

scientific article published on 27 March 2020

Acid enhanced ionic liquid pretreatment of biomass

Acoustic deposition with NIMS as a high-throughput enzyme activity assay

scientific article

Activation of lignocellulosic biomass for higher sugar yields using aqueous ionic liquid at low severity process conditions

scientific article

Addition of a carbohydrate-binding module enhances cellulase penetration into cellulose substrates

scientific article published on 03 July 2013

Addressing the need for alternative transportation fuels: the Joint BioEnergy Institute

scientific article published in January 2008

Advances in modifying lignin for enhanced biofuel production

scientific article published on 30 March 2010

An Investigation on the Economic Feasibility of Macroalgae as a Potential Feedstock for Biorefineries

An auto-inducible mechanism for ionic liquid resistance in microbial biofuel production.

scientific article published on 26 March 2014

An insulator-based (electrodeless) dielectrophoretic concentrator for microbes in water

scientific article published in September 2005

Anaerobic decomposition of switchgrass by tropical soil-derived feedstock-adapted consortia

scientific article

Annotation of the Corymbia terpene synthase gene family shows broad conservation but dynamic evolution of physical clusters relative to Eucalyptus

article

Assay for lignin breakdown based on lignin films: insights into the Fenton reaction with insoluble lignin

Assessment of Lignocellulosic Biomass Using Analytical Spectroscopy: an Evolution to High-Throughput Techniques

article

Author Correction: Jungle Express is a versatile repressor system for tight transcriptional control

scientific article published in Nature Communications

Bacillus coagulans tolerance to 1-ethyl-3-methylimidazolium-based ionic liquids in aqueous and solid-state thermophilic culture

scientific article published on 11 January 2014

Base-Catalyzed Depolymerization of Solid Lignin-Rich Streams Enables Microbial Conversion

BioCompoundML: A General Biofuel Property Screening Tool for Biological Molecules Using Random Forest Classifiers

Biochemical characterization and crystal structure of endoglucanase Cel5A from the hyperthermophilic Thermotoga maritima

scientific article

Biochemical production of ethanol and fatty acid ethyl esters from switchgrass: A comparative analysis of environmental and economic performance

Biocompatible Choline-Based Deep Eutectic Solvents Enable One-Pot Production of Cellulosic Ethanol

Biocomposite adhesion without added resin: understanding the chemistry of the direct conversion of wood into adhesives

scholarly article in RSC Advances, vol. 5 no. 82, 2015

Bioconversion of Giant Cane for Integrated Production of Biohydrogen, Carboxylic Acids, and Polyhydroxyalkanoates (PHAs) in a Multistage Biorefinery Approach

Bioeconomy Leaders and Innovators Q&A

Bioenergy feedstock-specific enrichment of microbial populations during high-solids thermophilic deconstruction

scientific article published on 2 May 2011

Bioenergy from plants and plant residues

article

Biofuel Economics

Biomass Pretreatment Using Dilute Aqueous Ionic Liquid (IL) Solutions with Dynamically Varying IL Concentration and Its Impact on IL Recycling

Biomass deconstruction to sugars

scientific article published on 10 August 2011

Biomass pretreatment using deep eutectic solvents from lignin derived phenols

Biosynthesis and incorporation of side-chain-truncated lignin monomers to reduce lignin polymerization and enhance saccharification

article

Blending municipal solid waste with corn stover for sugar production using ionic liquid process

scientific article

CHAPTER 3. Ionic Liquid Pretreatment of Lignocellulosic Biomass for Biofuels and Chemicals

CO2 enabled process integration for the production of cellulosic ethanol using bionic liquids

article

Calorimetric evaluation indicates that lignin conversion to advanced biofuels is vital to improving energy yields

scholarly article in RSC Advances, vol. 5 no. 63, 2015

Cascade Production of Lactic Acid from Universal Types of Sugars Catalyzed by Lanthanum Triflate

scientific article published on 27 November 2017

Catalytic transfer hydrogenolysis of ionic liquid processed biorefinery lignin to phenolic compounds

Cell Wall Composition and Bioenergy Potential of Rice Straw Tissues Are Influenced by Environment, Tissue Type, and Genotype

article

Changes in microbial dynamics during long-term decomposition in tropical forests

article

Characteristics of Isopentanol as a Fuel for HCCI Engines

Characterization of Lignin Streams during Bionic Liquid-Based Pretreatment from Grass, Hardwood, and Softwood

Characterization of agave bagasse as a function of ionic liquid pretreatment

Characterization of bacterial communities in solarized soil amended with lignocellulosic organic matter

article

Characterization of the acylglycerols and resulting biodiesel derived from vegetable oil and microalgae (Thalassiosira pseudonana and Phaeodactylum tricornutum).

scientific article published on 13 December 2011

Characterization of trapped lignin-degrading microbes in tropical forest soil

scientific article (publication date: 29 April 2011)

Characterization of white poplar and eucalyptus after ionic liquid pretreatment as a function of biomass loading using X-ray diffraction and small angle neutron scattering

scientific article published on 8 February 2017

Chemical profiling of the plant cellwall through Raman microspectroscopy

article

Chemoselective Methylation of Phenolic Hydroxyl Group Prevents Quinone Methide Formation and Repolymerization During Lignin Depolymerization

Co-production of ethanol, biogas, protein fodder and natural fertilizer in organic farming--evaluation of a concept for a farm-scale biorefinery

scientific article published on 25 November 2011

Community dynamics of cellulose-adapted thermophilic bacterial consortia

scientific article

Comparative Community Proteomics Demonstrates the Unexpected Importance of Actinobacterial Glycoside Hydrolase Family 12 Protein for Crystalline Cellulose Hydrolysis.

scientific article

Comparing the Recalcitrance of Eucalyptus, Pine, and Switchgrass Using Ionic Liquid and Dilute Acid Pretreatments

Comparison of Different Biomass Pretreatment Techniques and Their Impact on Chemistry and Structure

Comparison of different pretreatments for the production of bioethanol and biomethane from corn stover and switchgrass.

scientific article published on 11 February 2015

Comparison of dilute acid and ionic liquid pretreatment of switchgrass: Biomass recalcitrance, delignification and enzymatic saccharification

scientific article published on 30 November 2009

Comparison of enzymatic reactivity of corn stover solids prepared by dilute acid, AFEX™, and ionic liquid pretreatments

scientific article (publication date: 2014)

Comparison of soil biosolarization with mesophilic and thermophilic solid digestates on soil microbial quantity and diversity

scientific article published in 2017

Comparison of sugar content for ionic liquid pretreated Douglas-fir woodchips and forestry residues

scientific article published on May 2013

Comparison of the impact of ionic liquid pretreatment on recalcitrance of agave bagasse and switchgrass

Complete genome sequence of "Enterobacter lignolyticus" SCF1

scientific article (publication date: 15 October 2011)

Complete genome sequence of the lignin-degrading bacterium Klebsiella sp. strain BRL6-2.

scientific article

Computational and Spectroscopic Studies of Dichlorofluoroethane Hydrate Structure and Stability

Continuous Particle Filtration and Concentration by Multigradient Dielectrophoresis

Conversion of cellulose rich municipal solid waste blends using ionic liquids: feedstock convertibility and process scale-up

scholarly article in RSC Advances, vol. 7 no. 58, 2017

Correction to: Cloning and Expression of Heterologous Cellulases and Enzymes in Aspergillus niger

scholarly article published in Methods in Molecular Biology

Corrigendum to “Molecular simulations provide new insights into the role of the accessory immunoglobulin-like domain of Cel9A” [FEBS Lett. 584 (2010) 3432-3436]

scholarly article by Hanbin Liu published in August 2010

DNA-Mediated Delivery of Lipophilic Molecules via Hybridization to DNA-Based Vesicular Aggregates

Demonstrating a separation-free process coupling ionic liquid pretreatment, saccharification, and fermentation with Rhodosporidium toruloides to produce advanced biofuels

Dependence of amine-accelerated silicate condensation on amine structure

Design of low-cost ionic liquids for lignocellulosic biomass pretreatment

article by Anthe George et al published 2015 in Green Chemistry

Development and characterization of a thermophilic, lignin degrading microbiota

article

Development of a High Throughput Platform for Screening Glycoside Hydrolases Based on Oxime-NIMS

scientific article

Development of a native Escherichia coli induction system for ionic liquid tolerance

scientific article

Development of an E. coli strain for one-pot biofuel production from ionic liquid pretreated cellulose and switchgrass

article

Development of an integrated approach for α-pinene recovery and sugar production from loblolly pine using ionic liquids

article by Gabriella Papa et al published 2017 in Green Chemistry

Dielectrophoretic Particle Manipulation in Ridged Microchannels

Dielectrophoretic concentration and separation of live and dead bacteria in an array of insulators

scientific article

Dimethyl Sulfoxide Assisted Ionic Liquid Pretreatment of Switchgrass for Isoprenol Production

Dimethyl sulfoxide assisted dissolution of cellulose in 1-ethyl-3-methylimidazoium acetate: small angle neutron scattering and rheological studies

Discovery and characterization of ionic liquid-tolerant thermophilic cellulases from a switchgrass-adapted microbial community

scientific article published on 29 January 2014

Discovery of microorganisms and enzymes involved in high-solids decomposition of rice straw using metagenomic analyses

scientific article

Discovery of two novel β-glucosidases from an Amazon soil metagenomic library

scientific article

Draft Genome Sequence of Neurospora crassa Strain FGSC 73.

scientific article

Draft Genome Sequence of the Lignin-Degrading Burkholderia sp. Strain LIG30, Isolated from Wet Tropical Forest Soil.

scientific article

Dynamic changes of substrate reactivity and enzyme adsorption on partially hydrolyzed cellulose.

scientific article

Editorial: Biomass Modification, Characterization, and Process Monitoring Analytics to Support Biofuel and Biomaterial Production

scientific article

Effect of Ionic Liquid Pretreatment on the Porosity of Pine: Insights from Small-Angle Neutron Scattering, Nitrogen Adsorption Analysis, and X-ray Diffraction

Effect of aging on lignin content, composition and enzymatic saccharification in Corymbia hybrids and parental taxa between years 9 and 12

article

Effect of ionic liquid treatment on the structures of lignins in solutions: molecular subunits released from lignin

scientific article published on 2 August 2012

Efficient Eucalypt Cell Wall Deconstruction and Conversion for Sustainable Lignocellulosic Biofuels

scientific article

Efficient biomass pretreatment using ionic liquids derived from lignin and hemicellulose.

scientific article

Efficient conversion of lignin into a water-soluble polymer by a chelator-mediated Fenton reaction: optimization of H2O2 use and performance as a dispersant

Efficient dehydration and recovery of ionic liquid after lignocellulosic processing using pervaporation

scientific article

Elucidating transfer hydrogenation mechanisms in non-catalytic lignin depolymerization

Engineering and two-stage evolution of a lignocellulosic hydrolysate-tolerant Saccharomyces cerevisiae strain for anaerobic fermentation of xylose from AFEX pretreated corn stover

scientific article

Engineering glycoside hydrolase stability by the introduction of zinc binding

Engineering high-level production of fatty alcohols by Saccharomyces cerevisiae from lignocellulosic feedstocks

scientific article published on 9 June 2017

Engineering to produce the biogasoline isopentenol from plant biomass hydrolysates

article

Enrichment of microbial communities tolerant to the ionic liquids tetrabutylphosphonium chloride and tributylethylphosphonium diethylphosphate

scientific article

Enrichment, isolation and characterization of fungi tolerant to 1-ethyl-3-methylimidazolium acetate

scientific article published on 21 February 2011

Enzymatic hydrolysis of cellulose by the cellobiohydrolase domain of CelB from the hyperthermophilic bacterium Caldicellulosiruptor saccharolyticus

scientific article published on 13 February 2011

Enzyme activities of aerobic lignocellulolytic bacteria isolated from wet tropical forest soils

scientific article

Eucalypts as a biofuel feedstock

article

Evaluation of Relationships between Growth Rate, Tree Size, Lignocellulose Composition, and Enzymatic Saccharification in Interspecific Corymbia Hybrids and Parental Taxa

scientific article

Evaluation of agave bagasse recalcitrance using AFEX™, autohydrolysis, and ionic liquid pretreatments

scientific article published on 22 March 2016

Evidence supporting dissimilatory and assimilatory lignin degradation in Enterobacter lignolyticus SCF1.

scientific article published on 19 September 2013

Exploring the effect of different plant lignin content and composition on ionic liquid pretreatment efficiency and enzymatic saccharification of Eucalyptus globulus L. mutants.

scientific article published on 25 April 2012

Expression of Aspergillus niger CAZymes is determined by compositional changes in wheat straw generated by hydrothermal or ionic liquid pretreatments

scientific article

Expression of S-adenosylmethionine Hydrolase in Tissues Synthesizing Secondary Cell Walls Alters Specific Methylated Cell Wall Fractions and Improves Biomass Digestibility

scientific article published on 19 July 2016

Expression of a bacterial 3-dehydroshikimate dehydratase reduces lignin content and improves biomass saccharification efficiency.

scientific article published on 13 January 2015

Fabrication and characterization of polymer microfluidic devices for bio-agent detection

Feasibility Study on the Use of Temperature-Dependent Liposomes for Variable Concentration Profiles in Drug Delivery Applications

Forward genetics screen coupled with whole-genome resequencing identifies novel gene targets for improving heterologous enzyme production in Aspergillus niger

scientific article published on 6 January 2018

Fractional pretreatment of raw and calcium oxalate-extracted agave bagasse using ionic liquid and alkaline hydrogen peroxide

From lignin association to nano-/micro-particle preparation: extracting higher value of lignin

scholarly article by Wenwen Zhao et al published 2016 in Green Chemistry

From lignin subunits to aggregates: insights into lignin solubilization

From soil to structure, a novel dimeric β-glucosidase belonging to glycoside hydrolase family 3 isolated from compost using metagenomic analysis

scientific article published on 11 April 2013

Functional antibody immobilization on 3-dimensional polymeric surfaces generated by reactive ion etching.

scientific article

Generation of a platform strain for ionic liquid tolerance using adaptive laboratory evolution

scientific article published on 16 November 2017

Genome sequence and description of the anaerobic lignin-degrading bacterium Tolumonas lignolytica sp. nov

scientific article

Genomic Analysis of Xylose Metabolism in Members of the Deinoccocus-Thermus Phylum from Thermophilic Biomass-Deconstructing Bacterial Consortia

article published in 2015

Global transcriptome response to ionic liquid by a tropical rain forest soil bacterium, Enterobacter lignolyticus

scientific article (publication date: 7 August 2012)

Glycoside hydrolase activities of thermophilic bacterial consortia adapted to switchgrass

scientific article

Glycoside hydrolases from a targeted compost metagenome, activity-screening and functional characterization

scientific article

High throughput nanostructure-initiator mass spectrometry screening of microbial growth conditions for maximal β-glucosidase production

scientific article

High-Quality Draft Genome Sequences of Four Lignocellulose-Degrading Bacteria Isolated from Puerto Rican Forest Soil: Gordonia sp., Paenibacillus sp., Variovorax sp., and Vogesella sp.

scientific article

High-Throughput Prediction of Acacia and Eucalypt Lignin Syringyl/Guaiacyl Content Using FT-Raman Spectroscopy and Partial Least Squares Modeling

article

High-throughput enzymatic hydrolysis of lignocellulosic biomass via in-situ regeneration

scientific article published on 29 September 2010

High-throughput prediction of eucalypt lignin syringyl/guaiacyl content using multivariate analysis: a comparison between mid-infrared, near-infrared, and Raman spectroscopies for model development

scientific article (publication date: 2014)

Hitherto unrecognized fluorescence properties of coniferyl alcohol.

scientific article published on 11 March 2010

How Alkyl Chain Length of Alcohols Affects Lignin Fractionation and Ionic Liquid Recycle During Lignocellulose Pretreatment

Human ORFeome version 1.1: a platform for reverse proteomics

scientific article

Identification of a haloalkaliphilic and thermostable cellulase with improved ionic liquid tolerance

Impact of Pretreatment Technologies on Saccharification and Isopentenol Fermentation of Mixed Lignocellulosic Feedstocks

article published in 2015

Impact of engineered lignin composition on biomass recalcitrance and ionic liquid pretreatment efficiency

article

Impact of high biomass loading on ionic liquid pretreatment

scientific article published on 11 April 2013

Impact of ionic liquid pretreated plant biomass on Saccharomyces cerevisiae growth and biofuel production

article

Impact of ionic liquid pretreatment conditions on cellulose crystalline structure using 1-ethyl-3-methylimidazolium acetate.

scientific article published on 10 August 2012

Impact of lignin polymer backbone esters on ionic liquid pretreatment of poplar

scientific article

Impact of mixed feedstocks and feedstock densification on ionic liquid pretreatment efficiency

article

Improved activity of a thermophilic cellulase, Cel5A, from Thermotoga maritima on ionic liquid pretreated switchgrass

scientific article

In vivo lipidomics using single-cell Raman spectroscopy

scientific article

Influence of connectivity and porosity on ligand-based luminescence in zinc metal-organic frameworks

scientific article

Influence of physico-chemical changes on enzymatic digestibility of ionic liquid and AFEX pretreated corn stover.

scientific article published on 8 April 2011

Injection molded microfluidic devices for biological sample separation and detection

Interactions of endoglucanases with amorphous cellulose films resolved by neutron reflectometry and quartz crystal microbalance with dissipation monitoring

scientific article published on 17 May 2012

Investigation of inter- and intraspecies variation through genome sequencing of Aspergillus section Nigri

article

Ionic Liquids Impact the Bioenergy Feedstock-Degrading Microbiome and Transcription of Enzymes Relevant to Polysaccharide Hydrolysis

scientific article

Ionic liquid tolerant hyperthermophilic cellulases for biomass pretreatment and hydrolysis

Ionic liquid-tolerant microorganisms and microbial communities for lignocellulose conversion to bioproducts

scientific article

Jungle Express is a versatile repressor system for tight transcriptional control

scientific article published in Nature Communications

Life-Cycle Greenhouse Gas and Water Intensity of Cellulosic Biofuel Production Using Cholinium Lysinate Ionic Liquid Pretreatment

Lignin depolymerization by fungal secretomes and a microbial sink

Lignin fate and characterization during ionic liquid biomass pretreatment for renewable chemicals and fuels production

article

Lignin-modifying processes in the rhizosphere of arid land grasses

scientific article

Lignocellulosic ethanol production without enzymes--technoeconomic analysis of ionic liquid pretreatment followed by acidolysis

scientific article published on 15 February 2014

Linking secondary metabolites to gene clusters through genome sequencing of six diverse Aspergillus species ⬇️

scientific article published on 9 January 2018

Localization of polyhydroxybutyrate in sugarcane using Fourier-transform infrared microspectroscopy and multivariate imaging

scientific article

Low cost ionic liquid-water mixtures for effective extraction of carbohydrate and lipid from algae

scientific article published on 22 September 2017

Low-distortion, high-strength bonding of thermoplastic microfluidic devices employing case-II diffusion-mediated permeant activation

scientific article

Low-temperature combustion chemistry of biofuels: pathways in the initial low-temperature (550 K-750 K) oxidation chemistry of isopentanol

scientific article published on 30 January 2012

MOF-Based Catalysts for Selective Hydrogenolysis of Carbon–Oxygen Ether Bonds

MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets

scientific article published on 29 October 2015

MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm

scientific article

Mechanical Stress Analysis as a Method to Understand the Impact of Genetically Engineered Rice and Arabidopsis Plants

article

Metagenomes of tropical soil-derived anaerobic switchgrass-adapted consortia with and without iron

scientific article published on 25 February 2013

Metathesis Depolymerization for Removable Surfactant Templates

Metatranscriptomic analysis of lignocellulolytic microbial communities involved in high-solids decomposition of rice straw

scientific article

Microbial Community Structure and Functional Potential Along a Hypersaline Gradient

scientific article published in 2018

Microfluidic electroporation of robust 10-microm vesicles for manipulation of picoliter volumes

scientific article published on 17 February 2006

Microfluidic glycosyl hydrolase screening for biomass-to-biofuel conversion

scientific article published on 22 October 2010

Microstructure determination of AOT + phenol organogels utilizing small-angle X-ray scattering and atomic force microscopy

scientific article published in March 2001

Modifying plants for biofuel and biomaterial production

scientific article

Molecular dynamics study of polysaccharides in binary solvent mixtures of an ionic liquid and water

scientific article published on 9 August 2011

Molecular simulations provide new insights into the role of the accessory immunoglobulin-like domain of Cel9A

scientific article published on 06 July 2010

Monitoring and Analyzing Process Streams Towards Understanding Ionic Liquid Pretreatment of Switchgrass (Panicum virgatum L.)

article published in 2010

Morphology of CdS Nanocrystals Synthesized in a Mixed Surfactant System

article

N-Heterocyclic Carbene Promoted Decarboxylation of Lignin-Derived Aromatic Acids

Nanoimprint fabrication of polymer cell substrates with combined microscale and nanoscale topography

article

Nanosilica formation at lipid membranes induced by the parent sequence of a silaffin peptide

scientific article

Nanostructured Materials Synthesis in a Mixed Surfactant Mesophase

Natural Variation in the Multidrug Efflux Pump SGE1 Underlies Ionic Liquid Tolerance in Yeast

scientific article published on 25 July 2018

Neutron reflectometry and QCM-D study of the interaction of cellulases with films of amorphous cellulose

scientific article published on 23 May 2011

New experimental density data and soft-SAFT models of alkylimidazolium ([C(n)C₁im]⁺) chloride (Cl⁻), methylsulfate ([MeSO₄]⁻), and dimethylphosphate ([Me₂PO₄]⁻) based ionic liquids.

scientific article

Next-generation ammonia pretreatment enhances cellulosic biofuel production

article

Nitrogen amendment of green waste impacts microbial community, enzyme secretion and potential for lignocellulose decomposition

article published in 2017

Non-invasive imaging of cellulose microfibril orientation within plant cell walls by polarized Raman microspectroscopy

scientific article

ORIGINAL RESEARCH: Efficient attachment of native & deglycosylated glucose oxidase to Amberzyme oxirane polymeric support

One-pot integrated biofuel production using low-cost biocompatible protic ionic liquids

One-pot ionic liquid pretreatment and saccharification of switchgrass

article

Opportunities and challenges in advanced biofuel production: the importance of synthetic biology and combustion science

article

Optimization of renewable pinene production from the conversion of macroalgae Saccharina latissima.

scientific article published on 28 September 2014

Order and charge collection correlations in organic materials for neutron detection

Overexpression of the maize Corngrass1 microRNA prevents flowering, improves digestibility, and increases starch content of switchgrass ⬇️

scientific article (publication date: 18 October 2011)

Parametric study for the optimization of ionic liquid pretreatment of corn stover

scientific article published on 30 May 2017

Performance impact of dynamic surface coatings on polymeric insulator-based dielectrophoretic particle separators

scientific article

Perspective on oligomeric products from lignin depolymerization: their generation, identification, and further valorization

scientific article published in 2023

Phase Transition Dynamics and Microstructure Evolution in a Crystalline Surfactant Mesophase Using Time-Dependent Small-Angle Neutron Scattering

Photoionization mass spectrometric measurements of initial reaction pathways in low-temperature oxidation of 2,5-dimethylhexane

scientific article

Phylogenomically guided identification of industrially relevant GH1 β-glucosidases through DNA synthesis and nanostructure-initiator mass spectrometry

scientific article

Polymer cell culture substrates with combined nanotopographical patterns and micropatterned chemical domains

article

Polymeric microfluidic devices for the monitoring and separation of water-borne pathogens utilizing insulative dielectrophoresis

article published in 2005

Potential for Genetic Improvement of Sugarcane as a Source of Biomass for Biofuels

scientific article

Predictive modeling to de-risk bio-based manufacturing by adapting to variability in lignocellulosic biomass supply

scientific article published on 30 June 2017

Preservation of microbial communities enriched on lignocellulose under thermophilic and high-solid conditions

scientific article

Production and extraction of sugars from switchgrass hydrolyzed in ionic liquids

scientific article published on 20 March 2013

Proteogenomic analysis of a thermophilic bacterial consortium adapted to deconstruct switchgrass

scientific article (publication date: 2013)

Rapid determination of syringyl: guaiacyl ratios using FT-Raman spectroscopy

scientific article

Rapid kinetic characterization of glycosyl hydrolases based on oxime derivatization and nanostructure-initiator mass spectrometry (NIMS).

scientific article published on 12 May 2014

Rapid room temperature solubilization and depolymerization of polymeric lignin at high loadings

Recent developments in materials synthesis in surfactant systems

Recent innovations in analytical methods for the qualitative and quantitative assessment of lignin

article

Recovery of Sugars from Ionic Liquid Biomass Liquor by Solvent Extraction

Refining the phylum Chlorobi by resolving the phylogeny and metabolic potential of the representative of a deeply branching, uncultivated lineage

scientific article published on September 2015

Regulation of Yeast-to-Hyphae Transition in Yarrowia lipolytica

scientific article published in 2018

Reply to Kiser: Dioxygen binding in NOV1 crystal structures.

scientific article published on 5 July 2017

Restricting lignin and enhancing sugar deposition in secondary cell walls enhances monomeric sugar release after low temperature ionic liquid pretreatment

scientific article

Rethinking renewable energy in Japan

Revealing the thermal sensitivity of lignin during glycerol thermal processing through structural analysis

scholarly article in RSC Advances, vol. 6 no. 36, 2016

Rhodosporidium toruloides: a new platform organism for conversion of lignocellulose into terpene biofuels and bioproducts

scientific article

Sample concentration and impedance detection on a microfluidic polymer chip

scientific article published in October 2008

SbCOMT (Bmr12) is involved in the biosynthesis of tricin-lignin in sorghum

scientific article

Scale-Up of Ionic Liquid-Based Fractionation of Single and Mixed Feedstocks

Scale-up and evaluation of high solid ionic liquid pretreatment and enzymatic hydrolysis of switchgrass

scientific article published on 25 October 2013

Scale-up and process integration of sugar production by acidolysis of municipal solid waste/corn stover blends in ionic liquids.

scientific article published on 05 January 2017

Scale-up of biomass conversion using 1-ethyl-3-methylimidazolium acetate as the solvent

Sequential enzymatic saccharification and fermentation of ionic liquid and organosolv pretreated agave bagasse for ethanol production

scientific article published on 16 November 2016

Short-chain ketone production by engineered polyketide synthases in Streptomyces albus ⬇️

scientific article published in Nature Communications

Silica Particle Formation in Confined Environments via Bioinspired Polyamine Catalysis at Near-Neutral pH

article

Simulations reveal conformational changes of methylhydroxyl groups during dissolution of cellulose Iβ in ionic liquid 1-ethyl-3-methylimidazolium acetate

scientific article published on 10 July 2012

Simultaneous application of predictive model and least cost formulation can substantially benefit biorefineries outside Corn Belt in United States: A case study in Florida

scholarly article by Akash Narani et al published January 2019 in Bioresource Technology

Small Angle Neutron Scattering Study of Microstructural Transitions in a Surfactant-Based Gel Mesophase

Small Angle Neutron Scattering Study of Mixed AOT + Lecithin Reverse Micelles

Spatial Compartmentalization of Nanoparticles into Strands of a Self-Assembled Organogel

Spectroscopic analyses of the biofuels-critical phytochemical coniferyl alcohol and its enzyme-catalyzed oxidation products.

scientific article published on 23 November 2009

Strategies for Enhancing the Effectiveness of Metagenomic-based Enzyme Discovery in Lignocellulolytic Microbial Communities

article

Strategy for Extending the Stability of Bio-oil-Derived Phenolic Oligomers by Mild Hydrotreatment with Ionic-Liquid-Stabilized Nanoparticles

scientific article published on 19 December 2016

Structural Basis of Stereospecificity in the Bacterial Enzymatic Cleavage of β-Aryl Ether Bonds in Lignin

scientific article

Structural Design of Ionic Liquids for Optimizing Aromatic Dissolution

Structural and Biochemical Characterization of the Early and Late Enzymes in the Lignin β-Aryl Ether Cleavage Pathway from Sphingobium sp. SYK-6

scientific article

Structural and chemical characterization of hardwood from tree species with applications as bioenergy feedstocks

scientific article

Structural features affecting the enzymatic digestibility of pine wood pretreated with ionic liquids

scientific article

Structure and activity of thermophilic methanogenic microbial communities exposed to quaternary ammonium sanitizer

scientific article published on 27 October 2016

Structure and mechanism of NOV1, a resveratrol-cleaving dioxygenase

scientific article

Structure of aryl O-demethylase offers molecular insight into a catalytic tyrosine-dependent mechanism.

scientific article published on 3 April 2017

Structure of endoglucanase Cel9A from the thermoacidophilicAlicyclobacillus acidocaldarius

scientific article

Structure-based Engineering of a Plant-Fungal Hybrid Peroxidase for Enhanced Temperature and pH Tolerance

article

Structured materials syntheses in a self-assembled surfactant mesophase

article published in 2000

Substrate perturbation alters the glycoside hydrolase activities and community composition of switchgrass-adapted bacterial consortia

scientific article

Substrate-Specific Development of Thermophilic Bacterial Consortia by Using Chemically Pretreated Switchgrass

scientific article

Sugars Production for Green Chemistry from 2nd Generation Crop (Arundo donax L.): A Full Field Approach

Supramolecular self-assembled chaos: polyphenolic lignin's barrier to cost-effective lignocellulosic biofuels

scientific article

Surface Patterning of Gram Positive and Gram Negative Bacterial Cells Using a Small Hydrophobic Molecule

Survey of Lignin-Structure Changes and Depolymerization during Ionic Liquid Pretreatment

article published in 2017

Survey of renewable chemicals produced from lignocellulosic biomass during ionic liquid pretreatment

scientific article published on 28 January 2013

Switchable ionic liquids based on di-carboxylic acids for one-pot conversion of biomass to an advanced biofuel

article published in 2016

Synthesis of three advanced biofuels from ionic liquid-pretreated switchgrass using engineered Escherichia coli

scientific article

Targeted discovery of glycoside hydrolases from a switchgrass-adapted compost community

scientific article (publication date: 21 January 2010)

Techno-economic analysis and life-cycle greenhouse gas mitigation cost of five routes to bio-jet fuel blendstocks

Techno-economic analysis of a lignocellulosic ethanol biorefinery with ionic liquid pre-treatment

article

Technoeconomic analysis of biofuels: A wiki-based platform for lignocellulosic biorefineries

article

Ternary ionic liquid-water pretreatment systems of an agave bagasse and municipal solid waste blend

scientific article

The DOE Bioenergy Research Centers: History, Operations, and Scientific Output

The challenge of enzyme cost in the production of lignocellulosic biofuels

scientific article published on 21 November 2011

The completion of the Mammalian Gene Collection (MGC).

scientific article published on 18 September 2009

The effect of ionic liquid cation and anion combinations on the macromolecular structure of lignins

scholarly article by Anthe George et al published 2011 in Green Chemistry

The impact of ionic liquid pretreatment on the chemistry and enzymatic digestibility of Pinus radiata compression wood

article by Kirk M. Torr et al published 2012 in Green Chemistry

The role of organic matter amendment level on soil heating, organic acid accumulation, and development of bacterial communities in solarized soil

scholarly article by Christopher W. Simmons et al published October 2016 in Applied Soil Ecology

The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)

scientific article

The zeta potential of cyclo-olefin polymer microchannels and its effects on insulative (electrodeless) dielectrophoresis particle trapping devices

scientific article published in May 2005

Theoretical Insights into the Role of Water in the Dissolution of Cellulose Using IL/Water Mixed Solvent Systems.

scientific article published on 25 September 2015

Theoretical study on the microscopic mechanism of lignin solubilization in Keggin-type polyoxometalate ionic liquids

scientific article published on 17 January 2020

Theory, practice and prospects of X-ray and neutron scattering for lignocellulosic biomass characterization: towards understanding biomass pretreatment

article published in 2015

Thermally cleavable surfactants based on furan-maleimide Diels-Alder adducts

scientific article published in April 2005

Thermoascus aurantiacus is a promising source of enzymes for biomass deconstruction under thermophilic conditions

scientific article

Three Novel Rice Genes Closely Related to the Arabidopsis IRX9, IRX9L, and IRX14 Genes and Their Roles in Xylan Biosynthesis

scientific article published on 10 April 2013

Tolerance Characterization and Isoprenol Production of Adapted Escherichia coli in the Presence of Ionic Liquids

scholarly article by Shizeng Wang et al published 4 December 2018 in ACS Sustainable Chemistry & Engineering

Tracing determinants of dual substrate specificity in glycoside hydrolase family 5.

scientific article

Transforming biomass conversion with ionic liquids: process intensification and the development of a high-gravity, one-pot process for the production of cellulosic ethanol

article

Transition of cellulose crystalline structure and surface morphology of biomass as a function of ionic liquid pretreatment and its relation to enzymatic hydrolysis

scientific article published on 25 February 2011

Treatment of lignite and thermal coal with low cost amino acid based ionic liquid-water mixtures

Triacylglycerol accumulation and profiling in the model diatoms Thalassiosira pseudonana and Phaeodactylum tricornutum (Baccilariophyceae) during starvation

article

Understanding changes in lignin of Panicum virgatum and Eucalyptus globulus as a function of ionic liquid pretreatment

scientific article published on 31 August 2012

Understanding cost drivers and economic potential of two variants of ionic liquid pretreatment for cellulosic biofuel production.

scientific article

Understanding factors controlling depolymerization and polymerization in catalytic degradation of β-ether linked model lignin compounds by versatile peroxidase

Understanding pretreatment efficacy of four cholinium and imidazolium ionic liquids by chemistry and computation

Understanding the impact of ionic liquid pretreatment on cellulose and lignin via thermochemical analysis

article

Understanding the impact of ionic liquid pretreatment on eucalyptus

article

Understanding the interactions of cellulose with ionic liquids: a molecular dynamics study

scientific article published in April 2010

Understanding the role of water during ionic liquid pretreatment of lignocellulose: co-solvent or anti-solvent?

article published in 2014

Understanding tissue specific compositions of bioenergy feedstocks through hyperspectral Raman imaging

scientific article published in February 2011

Unveiling high-resolution, tissue specific dynamic changes in corn stover during ionic liquid pretreatment

scholarly article in RSC Advances, vol. 3 no. 6, 2013

Vibrational Spectra of Methane Clathrate Hydrates from Molecular Dynamics Simulation

article

Visualization of biomass solubilization and cellulose regeneration during ionic liquid pretreatment of switchgrass.

scientific article published in September 2009

Yeast tolerance to the ionic liquid 1-ethyl-3-methylimidazolium acetate

scientific article

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