A5024111731- Microbial Metabolic Engineering and Bioproduction
- Biofuel production and bioconversion
- Fungal Biology and Applications
- Fungal and yeast genetics research
- Bioinformatics and Genomic Networks
- Gut microbiota and health
- Algal biology and biofuel production
- Probiotics and Fermented Foods
- Microbial Natural Products and Biosynthesis
- Biomedical Text Mining and Ontologies
- Genomics and Phylogenetic Studies
- Insect Utilization and Effects
- Metabolomics and Mass Spectrometry Studies
- Microbial Metabolites in Food Biotechnology
- Genetics, Bioinformatics, and Biomedical Research
- Plant biochemistry and biosynthesis
- Salmonella and Campylobacter epidemiology
- Dermatology and Skin Diseases
- Polysaccharides and Plant Cell Walls
- Microbial infections and disease research
- Enzyme Catalysis and Immobilization
- Cancer-related molecular mechanisms research
- Bacteriophages and microbial interactions
- Computational Drug Discovery Methods
- Insect and Arachnid Ecology and Behavior
Kasetsart University
2016-2025
National Center for Genetic Engineering and Biotechnology
2024
Bangkok University
2021
Soochow University
2011-2020
Yangzhou University
2020
Chalmers University of Technology
2008-2012
Technical University of Denmark
2008-2012
Shanghai Jiao Tong University
2012
Ecologie Microbienne Lyon
2006
Mahidol University
2003
We present the RAVEN (Reconstruction, Analysis and Visualization of Metabolic Networks) Toolbox: a software suite that allows for semi-automated reconstruction genome-scale models. It makes use published models and/or KEGG database, coupled with extensive gap-filling quality control features. The also contains methods visualizing simulation results omics data, as well range performing simulations analyzing results. is useful tool system-wide data analysis in metabolic context streamlined...
Saccharomyces cerevisiae CEN.PK 113-7D is widely used for metabolic engineering and systems biology research in industry academia. We sequenced, assembled, annotated analyzed its genome. Single-nucleotide variations (SNV), insertions/deletions (indels) differences genome organization compared to the reference strain S. S288C were analyzed. In addition a few large deletions duplications, nearly 3000 indels identified CEN.PK113-7D relative S288C. These overrepresented genes whose functions are...
Identification of the underlying molecular mechanisms for a derived phenotype by adaptive evolution is difficult. Here, we performed systems-level inquiry into metabolic changes occurring in yeast Saccharomyces cerevisiae as result its to increase specific growth rate on galactose and related these acquired phenotypic properties. Three evolved mutants (62A, 62B, 62C) with higher rates faster uptake were isolated. The compared reference strain two engineered strains, SO16 PGM2, which also...
With the development of next-generation sequencing (NGS) techniques, many software tools have emerged for discovery novel microRNAs (miRNAs) and analyzing miRNAs expression profiles. An overall evaluation these diverse is lacking. In this study, we evaluated eight based on their common feature key algorithms. Three deep-sequencing data sets were collected from different species used to assess computational time, sensitivity accuracy detecting known as well capacity predicting miRNAs. Our...
The full-genome sequencing of the filamentous fungi Aspergillus nidulans , niger and oryzae has opened possibilities for studying cellular physiology these on a systemic level. As tool to explore this, we are making available an Affymetrix GeneChip developed transcriptome analysis any three above-mentioned aspergilli. Transcriptome triplicate batch cultivations all aspergilli glucose xylose media was used validate performance microarray. Gene comparisons species cross-analysis with...
The rapid progress of molecular biology tools for directed genetic modifications, accurate quantitative experimental approaches, high-throughput measurements, together with development genome sequencing has made the foundation a new area metabolic engineering that is driven by models. Systematic analysis biological processes means modelling and simulations identification networks prediction capabilities under different conditions possible. For facilitating such systemic analysis, we have...
Abstract Background Since ancient times the filamentous fungus Aspergillus oryzae has been used in fermentation industry for production of fermented sauces and industrial enzymes. Recently, genome sequence A. with 12,074 annotated genes was released but number hypothetical proteins accounted more than 50% genes. Considering importance this fungus, it is therefore valuable to improve annotation further integrate genomic information biochemical physiological available microorganism other...
Abstract Background The need for rapid and efficient microbial cell factory design construction are possible through the enabling technology, metabolic engineering, which is now being facilitated by systems biology approaches. Metabolic engineering often complimented directed evolution, where selective pressure applied to a partially genetically engineered strain confer desirable phenotype. exact genetic modification or resulting genotype that leads improved phenotype not identified...
Next-generation sequencing (NGS) technology has rapidly advanced and generated the massive data volumes. To align map NGS data, biologists often randomly select a number of aligners without concerning their suitable feature, high performance, accuracy as well sequence variations polymorphisms existing on reference genome. This study aims to systematically evaluate compare capability multiple for analysis. explore this capability, we firstly performed alignment algorithms comparison...
Cordyceps militaris is an entomopathogenic fungus which often used in Asia as a traditional medicine developed from age-old wisdom. Presently, cordycepin C. great interest medicinal applications. However, cellular growth of and the association with production remain poorly understood. To explore metabolism potential cell factories medical biotechnology applications, this study high-quality genome-scale metabolic model militaris, iNR1329, based on its genomic content physiological data. The...
Plant growth-promoting endophytic (PGPE) actinomycetes have been known to enhance plant growth and mitigate from abiotic stresses via their PGP-traits. In this study, PGPE Streptomyces sp. GKU 895 promoted alleviated salt tolerance of salt-susceptible rice cultivar IR29 by augmentation weight declined ROS after irrigation with 150 mM NaCl in a pot experiment. Transcriptome analysis exposed the combination strain salinity demonstrated up downregulated differentially expressed genes (DEGs)...
Changing environmental conditions can generate abiotic stress, such as the scarcity of water and exposure to chemicals. This includes biotic stress like Phytophthora palmivora infection, which causes leaf fall disease inhibits growth rate para rubber seedlings, resulting in economic loss. To prevent stresses, biocontrol agents cyclic lipopeptides (CLPs) from Bacillus spp. have been introduced reduce use chemically synthesized fungicides fertilizers. study aimed CLP extracts a biological...
Studies have demonstrated significant alterations in ovarian oxidative stress levels, degeneration, and follicular atresia during the broody period geese. The results of this study showed that period, geese exhibited degraded tissues, disrupted development, a thinner granulosa cell layer, lower levels hormones E2, P4, AMH. Antioxidant activity (GSH, CAT, SOD, T-AOC, content H2O2) mRNA expression antioxidant genes (GPX, SOD-1, SOD-2, COX-2, Hsp70) were significantly higher pre-broody compared...
Research into the cellular metabolic adaptations of Mucor circinelloides has gained significant interest due to its capability for lipid production, which critical industrial applications. To address regulatory mechanisms at systems level, this study aimed explore global responses associated with production in high and low lipid-producing strains M. circinelloides, WJ11 CBS277.49, respectively, through comparative transcriptome analysis genome-scale model-driven analysis. The expressed genes...
Atopic dermatitis (AD) and food allergy (FA) often originate early in life. Gut microbiota interactions with the host immune system influence development, yet distinct gut microbiome functional profiles individuals AD, FA, or both AD+FA remain underexplored. We investigated microbial colonization proteomic infants compared to age- sex-matched controls from Allergy Development Early Life Associated Factors Thai Birth Cohort (ALICE). microbiomes stool samples were analyzed using 16S...
Background/Objectives: Limosilactobacillus fermentum KUB-D18, a heterofermentative lactic acid bacterium with promising probiotic properties, is known for promoting gut health and nutrient absorption. Originally isolated from chicken intestines, this strain demonstrates versatile metabolic capabilities in diverse gastrointestinal environments. However, the functions sugar transport-related genes remain largely unexplored. This study thus aimed to dissect transports of L. KUB-D18. Methods:...
Abstract Due to their health benefits there is much interest in developing microbial processes for efficient production of polyunsaturated fatty acids (PUFAs). In this study we co‐expressed Mucor rouxii Δ 12 ‐ and 6 ‐desaturase genes Saccharomyces cerevisiae , which resulted a yeast strain that accumulated linoleic acid γ‐linolenic the different lipid species. Additionally, contained higher levels phospholipids lower ergosterol than reference strain. Integrated analysis transcriptome...
Poultry is an important high-quality food and protein source for humans. However, chicken considered a primary of foodborne diseases, especially Salmonella Enteritidis infection. Reducing contamination in live poultry will thus lower the risk to consumers. Our previous studies reported that Lactobacillus reuteri KUB-AC5 can produce substance with antimicrobial activity against pathogenic bacteria, Salmonella. In vivo testing revealed this strain greatly influenced ileal microbiota by...
ABSTRACT The field of metabolic modelling at the genomescale continues to grow with more models being created and curated. This comes an increasing demand for adopting common principles regarding transparency versioning, in addition standardisation efforts file formats, annotation testing. Here, we present a standardised template git-based GitHub-hosted genome-scale (GEMs) supporting both new curated ones, following FAIR (findability, accessibility, interoperability, reusability),...
Programmed cell death (PCD) is the collective term for intrinsically regulated of cells. Various types are triggered by their own programmed regulation during growth and development organisms, as well in response to environmental disease stresses. PCD encompasses apoptosis, pyroptosis, necroptosis, autophagy, other forms. plays a crucial role not only organisms but also serving component host innate immune defense bacterial virulence strategy employed pathogens invasion. The zoonotic...