A5025570546- Genomics and Phylogenetic Studies
- Microbial Community Ecology and Physiology
- Plant Pathogens and Fungal Diseases
- Plant-Microbe Interactions and Immunity
- Plant Disease Resistance and Genetics
- Agriculture, Soil, Plant Science
- Microbial bioremediation and biosurfactants
- Probiotics and Fermented Foods
- Plant Pathogenic Bacteria Studies
- Mycorrhizal Fungi and Plant Interactions
- Microbial Natural Products and Biosynthesis
- Fungal Biology and Applications
- Nematode management and characterization studies
- Environmental DNA in Biodiversity Studies
- Food Quality and Safety Studies
- Legume Nitrogen Fixing Symbiosis
- Bacteriophages and microbial interactions
- Enzyme Production and Characterization
- Molecular Biology Techniques and Applications
- Microbial Metabolic Engineering and Bioproduction
- Microbial Metabolism and Applications
- Soil Carbon and Nitrogen Dynamics
- Identification and Quantification in Food
- Mycotoxins in Agriculture and Food
- Protist diversity and phylogeny
Rural Development Administration
2016-2025
National Center for Toxicological Research
2011-2024
United States Food and Drug Administration
2008-2024
National Institute of Agricultural Science and Technology
2003-2023
Instituto de Ciencias Agrarias
2016
National Academy of Agricultural Science
2009-2015
University of Arkansas at Little Rock
2012
Seoul National University
2009
Czech Academy of Sciences, Institute of Microbiology
2004-2007
Mycobacterium vanbaalenii PYR-1 was the first bacterium isolated by virtue of its ability to metabolize high-molecular-weight polycyclic aromatic hydrocarbon (PAH) pyrene. We used metabolic, genomic, and proteomic approaches in this investigation construct a complete integrated pyrene degradation pathway for M. PYR-1. Genome sequence analyses identified genes involved that we have proposed bacterium. To identify proteins degradation, conducted proteome analysis cells exposed using...
Rieske non-heme iron aromatic ring-hydroxylating oxygenases (RHOs) are multi-component enzyme systems that remarkably diverse in bacteria isolated from habitats. Since the first classification 1990, there has been a need to devise new scheme for these enzymes because many RHOs have discovered, which do not belong any group previous classification. Here, we present of reflecting sequence information and interactions between RHO components.
ABSTRACT This study investigated a metabolic network (MN) from Mycobacterium vanbaalenii PYR-1 for polycyclic aromatic hydrocarbons (PAHs) the perspective of structure, behavior, and evolution, in which multilayer omics data are integrated. Initially, we utilized high-throughput proteomic analysis to assess protein expression response M. seven different compounds. A total 3,431 proteins (57.38% genome-predicted proteins) were identified, included 160 that seemed be involved degradation...
Plant microbiota is a key determinant of plant health and productivity. The composition structure varies according to tissue compartment, which are specific habitats for microbial colonization. To investigate the structural microbiome associated with tomato roots under natural systems, we characterized bacterial, archaeal, fungal communities three belowground compartments (rhizosphere, endosphere, bulk soil) plants collected from 23 greenhouses in 7 geographic locations South Korea....
ABSTRACT Mycobacterium vanbaalenii PYR-1 is able to metabolize a wide range of low- and high-molecular-weight (HMW) polycyclic aromatic hydrocarbons (PAHs). A 20-kDa protein was upregulated in PAH-metabolizing M. cells compared control cultures. The differentially expressed identified as β subunit the terminal dioxygenase using mass spectrometry. PCR with degenerate primers designed based on de novo sequenced peptides series plaque hybridizations were done screen genomic library. genes,...
Plant-associated microbiota plays an important role in plant disease resistance. Bacterial wilt resistance of tomato is a function the quantitative trait plants; however, mechanism underlying unexplored. In this study, we hypothesized that rhizosphere affects plants against soil-borne bacterial caused by Ralstonia solanacearum. This hypothesis was tested using cultivar grown defined soil with various transplants. The wilt-resistant Hawaii 7996 exhibited marked suppression and induction...
Abstract Biogeographic patterns in soil bacterial communities and their responses to environmental variables are well established, yet little is known about how different types of agricultural land use affect at large spatial scales. We report the variation community structures greenhouse, orchard, paddy, upland soils collected from 853 sites across Republic Korea using 16S rRNA gene pyrosequencing analysis. Bacterial diversities were significantly differentiated by land-use types. Paddy...
Mycobacterium vanbaalenii PYR-1 is capable of degrading a wide range high-molecular-weight polycyclic aromatic hydrocarbons (PAHs), including fluoranthene. We used combination metabolomic, genomic, and proteomic technologies to investigate fluoranthene degradation in this strain. Thirty-seven metabolites potential isomers were isolated from the culture medium analyzed by high-performance liquid chromatography, gas chromatography-mass spectrometry, UV-visible absorption. Total proteins...
Abstract Protein profiles of Mycobacterium vanbaalenii PYR‐1 grown in the presence high‐molecular‐weight polycyclic aromatic hydrocarbons (HMW PAHs) were examined by two‐dimensional gel electrophoresis (2‐DE). Cultures M. incubated with pyrene, pyrene‐4,5‐quinone (PQ), phenanthrene, anthracene, and fluoranthene. Soluble cellular protein fractions analyzed compared, using immobilized pH gradient (IPG) strips. More than 1000 gel‐separated proteins detected a 2‐DE analysis program within window...
Two novel strains, GR20-10 T and GR20-13 , were isolated from soil using R2A medium. The sample was collected a field in the Yeongju region of Korea that cultivated with Korean ginseng. Phylogenetic analysis based on 16S rRNA gene sequences indicated these strains formed cluster several uncultured bacterial clones Flexibacter filiformis sancti japonensis Cytophaga arvensicola Flavobacterium ferrugineum (recently reclassified as Terrimonas ferruginea ) phylum Bacteroidetes . level sequence...
Two bacterial strains isolated from air samples, 5317S-33T and 5413S-11T, were characterized by determining their phenotypic characteristics, cellular fatty acid profiles phylogenetic positions based on 16S rRNA gene sequence analysis. analysis showed that these isolates belonged to the genus Methylobacterium. Strain was most closely related Methylobacterium adhaesivum AR27T (97.9 % similarity). 5413S-11T fujisawaense DSM 5686T (97.3 similarity), oryzae CBMB20T (97.1 similarity)...
ABSTRACT The Rieske nonheme iron aromatic ring-hydroxylating oxygenases (RHOs) NidAB and NidA3B3 from Mycobacterium vanbaalenii PYR-1 have been implicated in the initial oxidation of high-molecular-weight (HMW) polycyclic hydrocarbons (PAHs), forming cis - dihydrodiols. To clarify how these two RHOs are functionally different with respect to degradation HMW PAHs, we investigated their substrate specificities 13 representative substrates (toluene, m -xylene, phthalate, biphenyl, naphthalene,...
Two strains, designated 5413J-26(T) and KIS18-15(T), were isolated from the air forest soil, respectively, in South Korea. Cells of two strains Gram-stain-negative, aerobic, polar-flagellated rod-shaped. According to phylogenetic tree, KIS18-15(T) fell into cluster Sphingomonas sensu stricto. Strain showed highest sequence similarities with trueperi LMG 2142(T) (96.6%), molluscorum KMM 3882(T) (96.5%), azotifigens NBRC 15497(T) (96.3 %) pituitosa EDIV(T) (96.1 %), while strain had similarity...