A5020006358- Microbial Metabolic Engineering and Bioproduction
- Fungal and yeast genetics research
- Biofuel production and bioconversion
- Evolution and Genetic Dynamics
- Bacterial Genetics and Biotechnology
- Plant biochemistry and biosynthesis
- Antifungal resistance and susceptibility
- CRISPR and Genetic Engineering
- Gene Regulatory Network Analysis
- Probiotics and Fermented Foods
- Antioxidant Activity and Oxidative Stress
- Bioinformatics and Genomic Networks
- Algal biology and biofuel production
- Viral Infectious Diseases and Gene Expression in Insects
- RNA and protein synthesis mechanisms
- Fermentation and Sensory Analysis
- Anaerobic Digestion and Biogas Production
- Gut microbiota and health
- Gene expression and cancer classification
- Plant Pathogens and Fungal Diseases
- Microbial Community Ecology and Physiology
- Microbial Metabolites in Food Biotechnology
- Microbial Natural Products and Biosynthesis
- Lignin and Wood Chemistry
- Fungal Infections and Studies
San Jose State University
2019-2024
Texas A&M University
2011-2021
Davidson College
2021
College Station Medical Center
2014-2017
Mitchell Institute
2013-2017
Stanford University
2010
University of California, Los Angeles
2002-2005
This study characterized the transcript profile of Escherichia coli in acetate cultures using DNA microarray on glass slides. Glucose-grown were used as a reference. At 95% confidence level, 354 genes up-regulated acetate, while 370 down-regulated compared with glucose-grown culture. Generally, more metabolic than other gene groups, involved cell replication, transcription, and translation machinery tended to be down-regulated. It appears that E. commits resources metabolism at expense...
Combinatorial pretreatments with a low holding temperature were developed in an effort to synergistically improve the carbohydrate output and lignin processability from corn stover.
Background n-Butanol is a promising emerging biofuel, and recent metabolic engineering efforts have demonstrated the use of several microbial hosts for its production. However, most organisms very low tolerance to n-butanol (up 2% (v/v)), limiting economic viability this biofuel. The rational more robust production relies upon understanding mechanisms involved in tolerance. existing knowledge genes limited. goal study therefore identify E. coli that are Methodology/Principal Findings Using...
Lignocellulosic biomass has become an important feedstock to mitigate current ethical and economical concerns related the bio-based production of fuels chemicals. During pre-treatment hydrolysis lignocellulosic biomass, a complex mixture sugars inhibitors are formed. The interfere with microbial growth product yields. This study uses adaptive laboratory evolution method called visualizing in real-time (VERT) uncover molecular mechanisms associated tolerance hydrolysates Saccharomyces...
Cells adjust gene expression profiles in response to environmental and physiological changes through a series of signal transduction pathways. Upon activation or deactivation, the terminal regulators bind dissociate from DNA, respectively, modulate transcriptional activities on particular promoters. Traditionally, individual reporter genes have been used detect activity transcription factors. This approach works well for simple, non-overlapping For complex networks, more sophisticated tools...
The Dobzhansky-Muller (D-M) model of speciation by genic incompatibility is widely accepted as the primary cause interspecific postzygotic isolation. Since introduction this model, there have been theoretical and experimental data supporting existence such incompatibilities. However, genes largely elusive, with only a handful candidate identified in few organisms. Saccharomyces sensu stricto yeasts, which small genomes can mate interspecifically to produce sterile hybrids, are thus an ideal...
<italic>C. echinulata</italic> FR3, a non-basidiomycete oleaginous fungus with strong lignin degradation machinery, could convert all cell wall components to lipid without chemi-physical pretreatment.
ABSTRACT Biocatalyst robustness toward stresses imposed during fermentation is important for efficient bio-based production. Osmotic stress, by high osmolyte concentrations or dense populations, can significantly impact growth and productivity. In order to better understand the osmotic stress tolerance phenotype, we evolved sexual (capable of in situ DNA exchange) asexual Escherichia coli strains under sodium chloride (NaCl) stress. All isolates had improved selection could grow up 0.80 M...
ABSTRACT Cross-tolerance and antagonistic pleiotropy have been observed between different complex phenotypes in microbial systems. These relationships adaptive landscapes are important for the design of industrially relevant strains, which generally subjected to multiple stressors. In our previous work, we evolved Escherichia coli enhanced tolerance biofuel n -butanol discovered a molecular mechanism that also conferred cationic antimicrobial peptide polymyxin B one specific lineage (green...
To make biorefineries sustainable, codesign of fractionation technologies and lignin valorization has been found to be essential. Combinatorial organosolv pretreatment (COP) was thus developed in an effort efficiently produce sugars improve processability for the fabrication nanoparticles (LNPs). COP produced greater than a 90% glucose yield 73% xylose yield, suggesting improved sugar release from biomass. LNPs were fabricated fractionated by via antisolvent precipitation. The smallest...
Candida is a member of the normal human microbiota and often resides on mucosal surfaces such as oral cavity or gastrointestinal tract. In addition to their commensality, species can opportunistically become pathogenic if host disrupted immune system becomes compromised. An important factor for pathogenesis its ability form biofilm communities. The two most medically species-Candida albicans glabrata-are coisolated from infection sites, suggesting importance coculture biofilms. this work, we...
In bacterial adaptation to the dynamic environment, metabolic genes are typically thought be executors, whereas global transcription regulators regarded as decision makers. Although feedback from consequence is believed important, much less understood. This work demonstrates that gluconeogenic in Escherichia coli, ppsA, sfcA, and maeB, provide a loop regulator, cAMP receptor protein (CRP), carbon source transition. Disruption of one pathways has no phenotype balanced growth, but causes...
Background The presence of anti-microbial phenolic compounds, such as the model compound ferulic acid, in biomass hydrolysates pose significant challenges to widespread use conjunction with whole cell biocatalysis or fermentation. Currently, these inhibitory compounds must be removed through additional downstream processing sufficiently diluted create environments suitable for most industrially important microbial strains. Simultaneously, product toxicity also overcome allow efficient...
β-Caryophyllene is a plant terpenoid with therapeutic and biofuel properties. Production of terpenoids through microbial cells potentially sustainable alternative for production. Adaptive laboratory evolution complementary technique to metabolic engineering strain improvement, if the product-of-interest coupled growth. Here we use combination pathway adaptive improve production β-caryophyllene, an extracellular product, by leveraging antioxidant potential compound.Using oxidative stress as...
While mechanisms of resistance to major antifungal agents have been characterized in Candida albicans, little is known about the evolutionary trajectories during emergence drug resistance. Here, we examined dynamics C. albicans that evolved vitro presence or absence fluconazole using visualizing evolution real-time (VERT) method, a novel experimental approach facilitates systematic isolation adaptive mutants arise population. We found an increase frequency events compared no-drug controls....