A5076724110- Microbial Natural Products and Biosynthesis
- Photosynthetic Processes and Mechanisms
- Plant biochemistry and biosynthesis
- Genomics and Phylogenetic Studies
- Marine Sponges and Natural Products
- Enzyme Structure and Function
- Legume Nitrogen Fixing Symbiosis
- Algal biology and biofuel production
- Microbial Metabolism and Applications
- Microbial Community Ecology and Physiology
- Molecular Biology Techniques and Applications
- Folate and B Vitamins Research
- Plant tissue culture and regeneration
- Metabolism and Genetic Disorders
- Carbohydrate Chemistry and Synthesis
- Biochemical and Structural Characterization
- Biocrusts and Microbial Ecology
- Metal-Catalyzed Oxygenation Mechanisms
- Plant-Microbe Interactions and Immunity
- Click Chemistry and Applications
- Microbial Metabolic Engineering and Bioproduction
- Ginseng Biological Effects and Applications
- Toxin Mechanisms and Immunotoxins
- Porphyrin Metabolism and Disorders
- Aquatic Ecosystems and Phytoplankton Dynamics
Oregon State University
2016-2025
Biocom
2020
Corvallis Environmental Center
2019
Texas A&M University
2010-2016
Agricultural Research Service
2015
University of Hawaiʻi at Mānoa
2008-2011
Mitchell Institute
2011
University of Hawaii System
2003-2009
Cancer Center of Hawaii
2008
Cancer Research Center
2008
Abstract With an ever-increasing amount of (meta)genomic data being deposited in sequence databases, (meta)genome mining for natural product biosynthetic pathways occupies a critical role the discovery novel pharmaceutical drugs, crop protection agents and biomaterials. The genes that encode these are often organised into gene clusters (BGCs). In 2015, we defined Minimum Information about Biosynthetic Gene cluster (MIBiG): standardised format describes minimally required information to...
Abstract Western diet (WD) is one of the major culprits metabolic disease including type 2 diabetes (T2D) with gut microbiota playing an important role in modulating effects diet. Herein, we use a data-driven approach (Transkingdom Network analysis) to model host-microbiome interactions under WD infer which members contribute altered host metabolism. Interrogation this network pointed taxa potential beneficial or harmful on host’s We then validate functional predicted bacteria regulating...
Abstract Specialized or secondary metabolites are small molecules of biological origin, often showing potent activities with applications in agriculture, engineering and medicine. Usually, the biosynthesis these natural products is governed by sets co-regulated physically clustered genes known as biosynthetic gene clusters (BGCs). To share information about BGCs a standardized machine-readable way, Minimum Information Biosynthetic Gene cluster (MIBiG) data standard repository was initiated...
With the rise of multi-drug resistant pathogens and decline in number potential new antibiotics development there is a fervent need to reinvigorate natural products discovery pipeline. Most are derived from secondary metabolites produced by microorganisms plants. To avoid suicide, an antibiotic producer harbors resistance genes often found within same biosynthetic gene cluster (BGC) responsible for manufacturing antibiotic. Existing mining tools excellent at detecting BGCs or general, but...
Blooms that are formed by cyanobacteria consist of toxic and nontoxic strains.The mechanisms result in the occurrence strains enigmatic.All filamentous cyanobacterium Planktothrix were isolated from 9 European countries found to have lost 90% a large microcystin synthetase (mcy) gene cluster encoded synthesis peptide (MC).Those still contain flanking regions mcy along with remnants transposable elements between.The majority coding for distinct thioesterase type II (mcyT), which is putatively...
Cyanobacteria are prolific producers of bioactive natural products that mostly belong to the nonribosomal peptide and polyketide classes. We show here how a linear precursor microviridin K, new member class peptidase inhibitors, is processed become mature tricyclic inhibitor. The (mvd) biosynthetic gene cluster P. agardhii comprises six genes encoding an apparently unexpressed second microviridin, two RimK homologues, acetyltransferase, ABC transporter. have over-expressed three enzymes this...
Cofactors play key roles in metabolic pathways. Among them F(420) has proved to be a very attractive target for the selective inhibition of archaea and actinobacteria. Its biosynthesis, unique manner, involves enzyme, F(0)-synthase. This enzyme is large monomer actinobacteria, while it constituted two subunits cyanobacteria. We report here purification both types F(0)-synthase their vitro activities. Our study allows us establish that F(0)-synthase, from types, uses...
Anabaenopeptins (AP) are bioactive cyclic hexapeptides synthesized nonribosomally in cyanobacteria. APs characterized by several conserved motifs, including the ureido bond, N-methylation position 5, and d-Lys 2. All other positions of AP molecule variable, resulting numerous structural variants. We have identified a nonribosomal peptide synthetase (NRPS) operon from Planktothrix agardhii strain CYA126/8 consisting five genes (apnA to apnE) encoding six NRPS modules confirmed its role...
Metabolic co-regulation between biosynthetic pathways for secondary metabolites is common in microbes and can play an important role microbial interactions. Here, we describe a novel mechanism of metabolic which intermediate one pathway converted into signals that activate second pathway. Our study focused on the 2,4-diacetylphloroglucinol (DAPG) pyoluteorin, two antimicrobial produced by soil bacterium Pseudomonas protegens. We show DAPG biosynthesis, phloroglucinol, transformed halogenase...
Cyanobacteria are well-known producers of natural products highly varied structure and biological properties. However, the long doubling times, difficulty in establishing genetic methods for marine cyanobacteria, low compound titers have hindered research into biosynthesis their secondary metabolites. While a few attempts to heterologously express cyanobacterial occurred, results been success. Here, we report first steps developing model freshwater cyanobacterium Anabaena sp. strain PCC 7120...
ABSTRACT Secondary metabolites are synthesized by many microorganisms and provide a fitness benefit in the presence of competitors predators. metabolism also can be costly, as it shunts energy intermediates from primary metabolism. In Pseudomonas spp., secondary is controlled GacS-GacA global regulatory system. Intriguingly, spontaneous mutations gacS or gacA (Gac − mutants) commonly observed laboratory cultures. Here we investigated role accumulation Gac mutants protegens strain Pf-5. Our...
Two homotyrosine-bearing cyanopeptolins are described from Planktothrix agardhii CYA 126/8. The compounds feature a common homotyrosine-containing cyclohexadepsipeptide and differ by sulfation of an exocyclically located 2-O-methyl-d-glyceric acid residue. In addition we describe two anabaenopeptins, which contain homotyrosine residues, one is N-methylated. anabaenopeptins have cyclopentapeptide portion in the amino linked to it via ureido bond, arginine tyrosine, respectively.
Pseudomonas spp. are prolific producers of natural products from many structural classes. Here we show that the soil bacterium protegens Pf-5 is capable producing trace levels triazine product toxoflavin (1) under microaerobic conditions. We evaluated production by derivatives with deletions in specific biosynthesis genes, which led us to propose a revised biosynthetic pathway for shares first two steps riboflavin biosynthesis. also report toxM, not present well-characterized cluster...
In Saccharomyces cerevisiae , thiamin pyrimidine is formed from histidine and pyridoxal phosphate (PLP). The origin of all the atoms has been previously determined using labeling studies suggests that remarkable chemistry without chemical or biochemical precedent. Here we report overexpression closely related Candida albicans synthase (THI5p) reconstitution preliminary characterization enzymatic activity. A structure C. THI5p shows PLP bound at active site via an imine with Lys62 His66 in...
Coenzyme F420 is a redox cofactor found in methanogens and various actinobacteria. Despite the major biological importance of this cofactor, biosynthesis its deazaflavin core (8-hydroxy-5-deazaflavin, Fo) still poorly understood. Fo synthase, enzyme involved, an unusual multidomain radical SAM that uses two separate 5′-deoxyadenosyl radicals to catalyze formation. In paper, we report detailed mechanistic study on complex led us identify (1) hydrogen atoms abstracted from substrate by...
The cyanobacterial protease inhibitor microviridin K is ribosomally biosynthesized as a prepeptide (MvdE) and subsequently modified posttranslationally by double lactonization followed lactamization. Two proteins belonging to the GRASP superfamily of ligases catalyze these ring closures. We here show that one (MvdD) forms lactones in specific order, larger being formed first, size requirement for both lactonizations stringent. However, first cyclization MvdD accepts alanine substitution all...
Toxoflavin, a toxic secondary metabolite produced by variety of bacteria, has been implicated as causative agent in food poisoning and virulence factor phytopathogenic bacteria. This toxin is genes encoded the tox operon Burkholderia glumae, which protein, ToxD, was previously characterized essential for toxoflavin production. To better understand function ToxD biosynthesis provide basis future work to develop inhibitors we undertook identification structurally catalytically important amino...
Polyynes produced by bacteria have promising applications in agriculture and medicine due to their potent antimicrobial activities. Polyyne biosynthetic genes been identified Pseudomonas Burkholderia. However, the molecular mechanisms underlying regulation of polyyne biosynthesis remain largely unknown. In this study, we used a soil bacterium protegens Pf-5, which was recently reported produce called protegenin, as model investigate bacterial production. Our results show that Pf-5 controls...
β-Ketoacyl-acyl carrier protein (β-Ketoacyl-ACP) synthase (KAS) III catalyzes the first step in fatty acid biosynthesis, involving a Claisen condensation of acetyl-CoA starter unit with extender unit, malonyl-ACP, to form acetoacetyl-ACP. KAS III-like proteins have also been reported catalyze acyltransferase reactions using coenzyme A esters or discrete ACP-bound substrates. Here, we report vivo and vitro characterizations (PtmR), which directly transfers 6-methylsalicylyl moiety from an...
Cyanobacteria are tremendous producers of biologically active natural products, including the potent anti-inflammatory compound tolypodiol. However, linking biosynthetic gene clusters with production in cyanobacteria has lagged behind that other bacterial genera. Tolypodiol is a meroterpenoid originally isolated from cyanobacterium HT-58-2. Here we describe identification tolypodiol cluster through heterologous expression
Laboratory science requires careful maintenance of sterile reagents and tools as well the sterilization waste prior to disposal. However, steam autoclaves typically used for this purpose may not be readily accessible everyone in scientific community, such K-12 teachers, researchers field, students under-funded laboratories, or persons developing world who lack funding resources. This work examines use commercial electric pressure cookers an alternative method media, instruments, waste. Four...
Jizanpeptins A–E (1–5) are micropeptin depsipeptides isolated from a Red Sea specimen of Symploca sp. cyanobacterium. The planar structures the jizanpeptins were established using NMR spectroscopy and mass spectrometry contain 3-amino-6-hydroxy-2-piperidone (Ahp) as one eight residues in typical motif, well side chain terminal glyceric acid sulfate moiety. absolute configurations assigned combination Marfey's methodology chiral-phase HPLC analysis hydrolysis products compared to commercial...