A5044634171- Microbial Community Ecology and Physiology
- Genomics and Phylogenetic Studies
- Bacterial Genetics and Biotechnology
- Clostridium difficile and Clostridium perfringens research
- Toxin Mechanisms and Immunotoxins
- Algal biology and biofuel production
- Wastewater Treatment and Nitrogen Removal
- CRISPR and Genetic Engineering
- Microbial Metabolic Engineering and Bioproduction
- Polar Research and Ecology
- Photosynthetic Processes and Mechanisms
- Protist diversity and phylogeny
- Methane Hydrates and Related Phenomena
- Biofuel production and bioconversion
- Hydrocarbon exploration and reservoir analysis
- Legume Nitrogen Fixing Symbiosis
- Plant-Microbe Interactions and Immunity
- Bacterial biofilms and quorum sensing
- Atmospheric and Environmental Gas Dynamics
- Chemical Synthesis and Characterization
- Chromium effects and bioremediation
- Viral gastroenteritis research and epidemiology
- Evolution and Genetic Dynamics
- Advanced Cellulose Research Studies
- RNA and protein synthesis mechanisms
University of Oklahoma
2016-2024
University of Oklahoma Health Sciences Center
2021-2024
Southern Illinois University Carbondale
2012-2019
Summary Gut microbiota typically occupy habitats with definable limits/borders that are comparable to oceanic islands. The gut therefore can be regarded as an ‘island’ for the assembly of microbial communities within ‘sea’ surrounding environments. This study aims reveal ecological mechanisms govern in fish ecosystem. Taxonomic compositions, phylogenetic diversity, and community turnover across host development were analyzed via high‐throughput sequencing 16S rRNA gene amplicons. results...
Significance Networks are fundamental units for studying complex systems, but reconstructing networks from large-scale experimental data is very challenging in systems biology and microbial ecology, primarily due to the difficulty unraveling direct indirect interactions. By tackling several mathematical challenges, this study provides a conceptual framework disentangling relationships association networks. The application of iDIRECT (Inference Direct Indirect Relationships with Effective...
Abstract Unravelling biosphere feedback mechanisms is crucial for predicting the impacts of global warming. Soil priming, an effect fresh plant-derived carbon (C) on native soil organic (SOC) decomposition, a key mechanism that could release large amounts C into atmosphere. However, climate warming priming remain elusive. Here, we show experimental accelerates by 12.7% in temperate grassland. Warming alters bacterial communities, with 38% unique active phylotypes detected under The...
Rhodanobacter species dominate in the Oak Ridge Reservation (ORR) subsurface environments contaminated with acids, nitrate, metal radionuclides, and other heavy metals. To uncover genomic features underlying adaptations to these mixed-waste guide genetic tool development, we sequenced whole genomes of eight strains isolated from ORR site. The genome sizes ranged 3.9 4.2 Mb harboring 3,695 4,035 protein-coding genes GC contents approximately 67%. Seven were classified as R. denitrificans one...
Adaptation via natural selection is an important driver of evolution, and repeatable adaptations replicate populations, under conditions a constant environment, have been extensively reported. However, isolated groups populations in nature tend to harbor both genetic physiological divergence due multiple selective pressures that they encountered. How this affects adaptation these new common environment remains unclear. To determine the impact prior shaping adaptive evolution accommodate...
Rhodanobacter denitrificans is capable of denitrification and also resistant to toxic heavy metals low pH. Accordingly, the presence species at a particular environmental site considered an indicator nitrate uranium contamination.
Summary The mqsRA operon encodes a toxin–antitoxin pair that was characterized to participate in biofilm and persister cell formation Escherichia coli . Notably, the antitoxin MqsA possesses C‐terminal DNA‐binding domain recognizes [5’‐AACCT(N) 2‐4 AGGTT‐3′] motif acts as transcriptional regulator controlling multiple genes including general stress response RpoS. However, it is unknown how circuits of homologues have changed bacteria over evolutionary time. Here, we found mqsA Pseudomonas...
Indole is well known as an interspecies signalling molecule to modulate bacterial physiology; however, it not clear how the indole signal perceived and responded by plant growth promoting rhizobacteria (PGPR) in rhizosphere. Here, we demonstrated that enhanced antibiotic tolerance of Pseudomonas fluorescens 2P24, a PGPR for its biocontrol capacity. Proteomic analysis revealed influenced expression multiple genes including emhABC operon encoding major multidrug efflux pump. The was regulated...
Lake Vanda is a perennially ice-covered and stratified lake in the McMurdo Dry Valleys, Antarctica. The develops distinct chemocline at about 50-m depth, where waters transition from cool, oxic, fresh to warm, sulfidic, hypersaline. bottom water brine unique, as highly chaotropic salts CaCl2 MgCl2 predominate, levels are highest of those any known microbial habitat. Enrichment techniques were used isolate 15 strains heterotrophic bacteria brine. Despite direct supplementation samples with...
Rapid genetic and phenotypic adaptation of the sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough to salt stress was observed during experimental evolution. In order identify key metabolites important for tolerance, a clone, ES10-5, which isolated from population ES10 allowed experimentally evolve under 5,000 generations, analyzed compared clone ES9-11, ES9 had evolved same conditions 1,200 generations. These two clones were chosen because they represented best-adapted among six...
The production of secondary metabolites is a major mechanism used by beneficial rhizobacteria to antagonize plant pathogens. These bacteria have evolved coordinate the different due heavy metabolic burden imposed metabolism. However, for most produced bacteria, it not known how their biosynthesis coordinated. Here, we showed that PhlH from rhizobacterium Pseudomonas fluorescens TetR-family regulator coordinating expression enzymes related several metabolites, including...
Two-component signal transduction systems (TCSs), consisting of a sensor histidine kinase (HK) and response regulator (RR), sense environmental stimuli then modulate cellular responses, typically through changes in gene expression. Our previous work identified the DNA binding motif CD1586, an RR implicated Clostridioides difficile strain R20291 sporulation. To determine role this sporulation pathway C. difficile, we generated deletion cd1688 historical 630 strain, homolog cd1586. The Δcd1688...
Bacterial lipids are well-preserved in ancient rocks and certain ones have been used as indicators of specific bacterial metabolisms or environmental conditions existing at the time rock deposition. Here we show that an anaerobic bacterium produces 3-methylhopanoids, pentacyclic previously detected only aerobic bacteria widely biomarkers for methane-oxidizing bacteria. Both Rhodopila globiformis, a phototrophic purple nonsulfur isolated from acidic warm spring Yellowstone, newly species...
ABSTRACT A large amount of bacterial biomass is transferred from land to ocean annually. Most bacteria should not survive, but undoubtedly some do. It unclear what mechanisms these use in order survive and even thrive a new marine environment. Myroides profundi D25 T , member the Bacteroidetes phylum, was isolated deep-sea sediment southern Okinawa Trough near China mainland had high genomic sequence identity synteny with human opportunistic pathogen odoratimimus . Phylogenetic physiological...
The Gram-positive bacterium Clostridioides difficile is a primary cause of hospital-acquired diarrhea, threatening both immunocompromised and healthy individuals. An important aspect defining mechanisms that drive C. persistence virulence relies on developing more complete understanding sporulation. sporulation the single determinant transmission complicates treatment prevention due to chemical physical resilience spores. By extension, identification druggable targets significantly attenuate...
Electronic waste (e-waste) has caused a severe worldwide pollution problem. Despite increasing isolation of degradative microorganisms from e-waste contaminated environments, the mechanisms underlying their adaptive evolution in such habitats remain unclear. Sphingomonads generally have xenobiotic-degrading ability and may play important roles bioremediation. Sphingobium hydrophobicum C1T, characterized with superior cell surface hydrophobicity, was recently isolated river sediment. To...