Daniel G. Olson
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View article: Author response: Structural characterization and dynamics of AdhE ultrastructures from Clostridium thermocellum show a containment strategy for toxic intermediates
Author response: Structural characterization and dynamics of AdhE ultrastructures from Clostridium thermocellum show a containment strategy for toxic intermediates Open
View article: Intracellular Metabolite Extraction, Peak Detection with El-MAVEN and Quantification Using Python v2
Intracellular Metabolite Extraction, Peak Detection with El-MAVEN and Quantification Using Python v2 Open
This protocol outlines a comprehensive workflow for intracellular metabolite analysis from microbial cultures. It begins with the rapid quenching and extraction of metabolites using a cold solvent mixture of acetonitrile, methanol, and wat…
View article: SARS-CoV-2 secondary attack rates and risks for transmission among agricultural workers and their households in Guatemala, 2022-2023
SARS-CoV-2 secondary attack rates and risks for transmission among agricultural workers and their households in Guatemala, 2022-2023 Open
View article: Rapid expression of pyruvate decarboxylase from <i>Zymomonas mobilis</i> in <i>E. coli</i> BL21 LysY/I<sup>q</sup>
Rapid expression of pyruvate decarboxylase from <i>Zymomonas mobilis</i> in <i>E. coli</i> BL21 LysY/I<sup>q</sup> Open
E. coli BL21 DE3 strain is commonly used to express and purify non-toxic prokaryotic proteins in high yields. Traditionally, IPTG based induction of the host strain at reduced temperatures for extended period (12-16 h) is performed to obta…
View article: A distinct class of ferredoxin:NADP+ oxidoreductase enzymes driving thermophilic ethanol production
A distinct class of ferredoxin:NADP+ oxidoreductase enzymes driving thermophilic ethanol production Open
View article: Association between biomarkers of environmental enteric dysfunction and growth and neurodevelopment in Guatemalan infants
Association between biomarkers of environmental enteric dysfunction and growth and neurodevelopment in Guatemalan infants Open
BACKGROUND There is growing evidence that environmental enteric dysfunction (EED) is a driver of poor growth and neurodevelopment (ND) in early childhood. To further investigate this, we measured the associations between biomarkers reflect…
View article: 694 Phase 1 safety and efficacy of brenetafusp, a PRAME × CD3 ImmTAC bispecific, in post-checkpoint cutaneous melanoma (CM)
694 Phase 1 safety and efficacy of brenetafusp, a PRAME × CD3 ImmTAC bispecific, in post-checkpoint cutaneous melanoma (CM) Open
View article: Pyrophosphate-Free Glycolysis in Clostridium thermocellum Increases Both Thermodynamic Driving Force and Ethanol Titers
Pyrophosphate-Free Glycolysis in Clostridium thermocellum Increases Both Thermodynamic Driving Force and Ethanol Titers Open
Background Clostridium thermocellum is a promising candidate for production of cellulosic biofuels, however its final product titer is too low for commercial application, and this may be due to thermodynamic limitations in glycolysis. Prev…
View article: Performing the Tetrazolium Dye Assay to Assess Substrate Transport in Anaerobic, Thermophilic Microbes v1
Performing the Tetrazolium Dye Assay to Assess Substrate Transport in Anaerobic, Thermophilic Microbes v1 Open
This experimental protocol describes the first-reported application of the well-established tetrazolium dye assay to qualitatively assess substrate transport in the anaerobic, thermophilic microbes Clostridium thermocellum and Thermoanaero…
View article: Structural characterization and dynamics of AdhE ultrastructures from Clostridium thermocellum: A containment strategy for toxic intermediates
Structural characterization and dynamics of AdhE ultrastructures from Clostridium thermocellum: A containment strategy for toxic intermediates Open
Clostridium thermocellum, a cellulolytic thermophilic anaerobe, is considered by many to be a prime candidate for the realization of consolidated bioprocessing (CBP) and is known as an industry standard for biofuel production. C. thermocel…
View article: Author response: Structural characterization and dynamics of AdhE ultrastructures from Clostridium thermocellum: A containment strategy for toxic intermediates
Author response: Structural characterization and dynamics of AdhE ultrastructures from Clostridium thermocellum: A containment strategy for toxic intermediates Open
Clostridium thermocellum, a cellulolytic thermophilic anaerobe, is considered by many to be a prime candidate for the realization of consolidated bioprocessing (CBP) and is known as an industry standard for biofuel production. C. thermocel…
View article: Planning For Edge Failure in Fixed-Charge Flow Networks
Planning For Edge Failure in Fixed-Charge Flow Networks Open
The Fixed-Charge Network Flow problem is a well-studied NP-hard problem that has the goal of finding a flow in a network where fixed edge costs are incurred, regardless of the amount of flow hosted by the edge. In this paper, we consider s…
View article: Expression and characterization of monofunctional alcohol dehydrogenase enzymes in Clostridium thermocellum
Expression and characterization of monofunctional alcohol dehydrogenase enzymes in Clostridium thermocellum Open
Clostridium thermocellum is a thermophilic anaerobic bacterium that could be used for cellulosic biofuel production due to its strong native ability to consume cellulose, however its ethanol production ability needs to be improved t…
View article: Structural characterization and dynamics of AdhE ultrastructures from Clostridium thermocellum: A containment strategy for toxic intermediates?
Structural characterization and dynamics of AdhE ultrastructures from Clostridium thermocellum: A containment strategy for toxic intermediates? Open
Clostridium thermocellum, a cellulolytic thermophilic anaerobe, is considered by many to be a prime candidate for the realization of consolidated bioprocessing (CBP) and is known as an industry standard for biofuel production. C. thermocel…
View article: Acetaldehyde Quantification in Microbial Fermentation Samples v1
Acetaldehyde Quantification in Microbial Fermentation Samples v1 Open
This protocol details a broadly applicable approach for quantifying the concentration of acetaldehyde present in a microbial fermentation sample. To quantify acetaldehyde, a hydrazine derivatization reaction is performed following sampling…
View article: Assessing vulnerability for future Zika virus outbreaks using seroprevalence data and environmental suitability maps
Assessing vulnerability for future Zika virus outbreaks using seroprevalence data and environmental suitability maps Open
The 2015–17 Zika virus (ZIKV) epidemic in the Americas subsided faster than expected and evolving population immunity was postulated to be the main reason. Herd immunization is suggested to occur around 60–70% seroprevalence, depending on …
View article: Structural characterization and dynamics of AdhE ultrastructures from <i>Clostridium thermocellum:</i> A containment strategy for toxic intermediates
Structural characterization and dynamics of AdhE ultrastructures from <i>Clostridium thermocellum:</i> A containment strategy for toxic intermediates Open
Clostridium thermocellum , a cellulolytic thermophilic anaerobe, is considered by many to be a prime candidate for the realization of consolidated bioprocessing (CBP) and is known as an industry standard for biofuel production. C. thermoce…
View article: Deuterated water as a substrate-agnostic isotope tracer for investigating reversibility and thermodynamics of reactions in central carbon metabolism
Deuterated water as a substrate-agnostic isotope tracer for investigating reversibility and thermodynamics of reactions in central carbon metabolism Open
View article: Engineering an increase in ethanol production by altering cofactor specificity
Engineering an increase in ethanol production by altering cofactor specificity Open
The present invention provides for the manipulation of cofactor usage in a recombinant host cell to increase the formation of desirable products. In some embodiments, the invention provides for a recombinant microorganism comprising a muta…
View article: Ethanol tolerance in engineered strains of Clostridium thermocellum
Ethanol tolerance in engineered strains of Clostridium thermocellum Open
Clostridium thermocellum is a natively cellulolytic bacterium that is promising candidate for cellulosic biofuel production, but the ethanol titers produced thus far are too low for commercial application. In several strains of C. thermoce…
View article: Changes in Transmission and Symptoms of SARS-CoV-2 in United States Households, April 2020–September 2022
Changes in Transmission and Symptoms of SARS-CoV-2 in United States Households, April 2020–September 2022 Open
Background The natural history of SARS-CoV-2 infection and transmission dynamics may have changed as SARS-CoV-2 has evolved and population immunity has shifted. Methods Household contacts, enrolled from two multi-site case-ascertained hous…
View article: A detailed genome-scale metabolic model of Clostridium thermocellum investigates sources of pyrophosphate for driving glycolysis
A detailed genome-scale metabolic model of Clostridium thermocellum investigates sources of pyrophosphate for driving glycolysis Open
View article: Increased ethanol production by thermophilic microorganisms with deletion of individual hfs hydrogenase subunits
Increased ethanol production by thermophilic microorganisms with deletion of individual hfs hydrogenase subunits Open
Disclosed are methods for engineering bacteria, for example, Thermoanaerobacterium saccharolyticum, that convert biomass to ethanol at high yield by deleting a single gene. Deletion of subunit A or subunit B of the hfs hydrogenase, but not…
View article: COVID-19 Attitudes and Vaccine Hesitancy Among an Agricul-Tural Community in Southwest Guatemala: A Cross-Sectional Survey
COVID-19 Attitudes and Vaccine Hesitancy Among an Agricul-Tural Community in Southwest Guatemala: A Cross-Sectional Survey Open
Despite offering free-of-charge COVID-19 vaccines starting July 2021, Guatemala has one of the lowest vaccination rates in Latin America. During September 28, 2021 to April 11, 2022, we conducted a cross-sectional survey of community membe…
View article: Characterization and Amelioration of Filtration Difficulties Encountered in Metabolomic Studies of Clostridium thermocellum at Elevated Sugar Concentrations
Characterization and Amelioration of Filtration Difficulties Encountered in Metabolomic Studies of Clostridium thermocellum at Elevated Sugar Concentrations Open
The accurate measurement of intracellular metabolites (metabolomics) is an integral part of metabolic engineering for the enhanced production of industrially important compounds and a useful technique to understand microbial physiology. Pr…
View article: Characterization and amelioration of filtration difficulties encountered in metabolomic studies of Clostridium thermocellum at elevated sugar concentrations
Characterization and amelioration of filtration difficulties encountered in metabolomic studies of Clostridium thermocellum at elevated sugar concentrations Open
Datasets and python codes to generate figures for the research paper published in Applied and Environmental Microbiology (DOI:10.1128/aem.00406-23).
View article: Characterization and amelioration of filtration difficulties encountered in metabolomic studies of Clostridium thermocellum at elevated sugar concentrations
Characterization and amelioration of filtration difficulties encountered in metabolomic studies of Clostridium thermocellum at elevated sugar concentrations Open
Datasets and python codes to generate figures for the research paper published in Applied and Environmental Microbiology (DOI:10.1128/aem.00406-23).
View article: Engineering microorganisms to increase ethanol production by metabolic redirection
Engineering microorganisms to increase ethanol production by metabolic redirection Open
The present invention provides for the manipulation of carbon flux in a recombinant host cell to increase the formation of desirable products. The invention relates to cellulose-digesting organisms that have been genetically modified to al…
View article: 1741. Antibiotic Prescribing Practices in Pediatric Acute Respiratory Illnesses in Northern Vietnam
1741. Antibiotic Prescribing Practices in Pediatric Acute Respiratory Illnesses in Northern Vietnam Open
Background Antimicrobial resistance (AMR) is a global challenge and influenced by several factors including antibiotic overprescribing. Antibiotics are frequently prescribed in Vietnam, especially in pediatric acute respiratory illnesses (…
View article: 1039. Clinical and Economic Impact of COVID-19 and Serologic Protection among Farm Workers: Results from the Guatemala Agricultural Workers and Respiratory Illness Impact (AGRI) Study
1039. Clinical and Economic Impact of COVID-19 and Serologic Protection among Farm Workers: Results from the Guatemala Agricultural Workers and Respiratory Illness Impact (AGRI) Study Open
Background In the Guatemala AGricultural workers and Respiratory Impact (AGRI) study, we evaluated the clinical and socioeconomic burdens of respiratory disease in a cohort of Guatemalan banana farm workers. Methods All eligible workers we…