A5022112128- Microbial Natural Products and Biosynthesis
- Plant biochemistry and biosynthesis
- Glycosylation and Glycoproteins Research
- Genomics and Phylogenetic Studies
- Machine Learning in Bioinformatics
- Chromosomal and Genetic Variations
- Bacterial Genetics and Biotechnology
- Fungal Biology and Applications
- Advanced Proteomics Techniques and Applications
- Protein Tyrosine Phosphatases
- Invertebrate Immune Response Mechanisms
- Biofuel production and bioconversion
- Viral Infectious Diseases and Gene Expression in Insects
- Chronic Lymphocytic Leukemia Research
- Aquaculture disease management and microbiota
- Synthetic Organic Chemistry Methods
- Galectins and Cancer Biology
- Physiological and biochemical adaptations
- Alzheimer's disease research and treatments
- Insect Utilization and Effects
- Histone Deacetylase Inhibitors Research
- Protein Structure and Dynamics
- Advanced Synthetic Organic Chemistry
- Acute Myeloid Leukemia Research
- Microbial metabolism and enzyme function
Institute of Biological Chemistry, Academia Sinica
2013-2025
Guangdong University of Technology
2023
National Taiwan University
2008-2022
Academia Sinica
2012-2013
In this study, we used a systems biology approach to investigate changes in the proteome and metabolome of shrimp hemocytes infected by invertebrate virus WSSV (white spot syndrome virus) at viral genome replication stage (12 hpi) late (24 hpi). At 12 hpi, but not 24 there was significant up-regulation markers several metabolic pathways associated with vertebrate Warburg effect (or aerobic glycolysis), including glycolysis, pentose phosphate pathway, nucleotide biosynthesis, glutaminolysis...
The tumor microenvironment plays an important role in growth and metastasis. However, the mechanism by which cells regulate cell non-cell constituents of surrounding stroma remains incompletely understood. Promyelocytic leukemia (PML) is a pleiotropic suppressor, but its regulation poorly characterized. PML frequently downregulated many cancer types, including lung cancer. Here, we identify ubiquitination pathway that mediated WD repeat 4-containing cullin-RING ubiquitin ligase 4 (CRL4WDR4)....
Siglec-7 (sialic acid–binding immunoglobulin-like lectin 7) is an immune checkpoint-like glycan recognition protein on natural killer (NK) cells. Cancer cells often upregulate Siglec ligands to subvert immunosurveillance, but the molecular basis of has been elusive. In this study, we investigated chronic lymphocytic leukemia (CLL) B CLL express higher levels compared with healthy donor cells, and enzymatic removal sialic acids or sialomucins makes them more sensitive NK cell cytotoxicity....
Terpenoids represent the largest structural family of natural products (NPs) and have various applications in pharmaceutical, food fragrance industries. Their diverse scaffolds are generated via a multi-step cyclization cascade linear isoprene substrates catalysed by terpene synthases (TPSs). Bisabolene NPs, which sesquiterpenes (C15), wide medicines biofuels serve as bioactive substances ecology. Despite discovery some canonical class I TPSs that synthesize bisabolenes from plants, bacteria...
Abstract The 1,3‐enyne moiety is commonly found in cyclohexanoid natural products produced by endophytic and plant pathogenic fungi. Asperpentyn ( 1 ) a 1,3‐enyne‐containing terpenoid isolated from Aspergillus Pestalotiopsis . genetic basis biochemical mechanism of biosynthesis , other containing this motif, has remained enigmatic despite their potential ecological roles. Identified here the biosynthetic gene cluster characterization two crucial enzymes A P450 monooxygenase that dual...
CD22 (also known as Siglec-2) is a member of the Siglec family glycan-recognition proteins and functions negative regulator B-cell receptor-mediated calcium signaling. Although low level expression on B cells in patients with chronic lymphocytic leukemia (CLL) has been documented, CD22's role its down-regulation mechanism CLL are yet to be fully studied. In this study, we confirmed that surface protein mRNA down-regulated patients. We analyzed public transcriptomic dataset found negatively...
Nosocomial infectious outbreaks caused by multidrug-resistant Acinetobacter baumannii have emerged as a serious threat to human health. Phosphoproteomics of pathogenic bacteria has been used identify the mechanisms bacterial virulence and antimicrobial resistance. In this study, we shotgun strategy combined with high-accuracy mass spectrometry analyze phosphoproteomics imipenem-susceptible strain SK17-S -resistant SK17-R. We identified 410 phosphosites on 248 unique phosphoproteins in 285...
Siglecs-11 and -16 are members of the sialic acid recognizing Ig-like lectin family, expressed in same cells. Siglec-11 functions as an inhibitory receptor, whereas Siglec-16 exhibits activating properties. In humans, SIGLEC11 SIGLEC16 gene sequences extremely similar region encoding extracellular domain due to conversions. Human was converted by nonfunctional SIGLEC16P allele, allele became fixed possibly because it provides novel neuroprotective brain microglia. However, detailed...
(-)-Antrocin (1), produced by the medicinal mushroom Antrodia cinnamomea, is a potent antiproliferative compound. The biosynthetic gene cluster of 1 was identified, and pathway characterized heterologous expression. We haloacid dehalogenase-like terpene cyclase AncC that biosynthesizes drimane-type sesquiterpene (+)-albicanol (2) from farnesyl pyrophosphate (FPP). Biochemical characterization AncC, including kinetic studies mutagenesis, demonstrated functions two domains: (TC)...
The Min system of Escherichia coli mediates placement the division septum at midcell. It oscillates from pole to establish a concentration gradient inhibition that is high poles but low midcell; cell middle thereby becomes most favorable site for division. Although oscillation well studied molecular and biophysical perspectives, it still an enigma as whether such continuous, energy-consuming, organized movement proteins would affect cellular processes other than selection. To tackle this...
Thermus thermophilus HB27 is an extremely thermophilic eubacteria with a high frequency of natural competence. This organism therefore often used as model to investigate the molecular basis type IV pili-mediated functions, such uptake free DNA, adhesion, twitching motility, and biofilm formation, in hot environments. In this study, phosphoproteome T. was analyzed via shotgun approach high-accuracy mass spectrometry. Ninety-three unique phosphopeptides, including 67 vivo phosphorylated sites...
Piperazine-derived diazabicycles are privileged structures found in natural products and synthetic chemical entities, including therapeutic agents. Herein, we deciphered the biosynthesis of two unique classes diazabicyclic alkaloids, fischerazines A–C. Notably, characterized a multifunctional P450 monooxygenase NfiC that installs ortho-dihydroxyl groups on dibenzyl-piperazines, turn triggering range NfiC-catalyzed spontaneous cyclization events.
Abstract Motivation: Despite many attempts for algorithm development in recent years, automated identification of intact glycopeptides from LC-MS 2 spectral data is still a challenge both sensitivity and precision. Results: We implemented supervised machine learning algorithm, Random Forest, an workflow to identify N-glycopeptides using features derived ion trap-based data. The streamlined high-confident N-glycopeptide enabled adaptive model optimization with respect different sampling...
Recent biochemical and genetic approaches have clearly defined the functional role of critical components in tyrosine phosphorylation-dependent signal transduction. These signaling modulators often exhibit evolutionarily conserved functions across various species. It has been proposed that if protein kinases (PTKs), phosphatases (PTPs), thousands their substrates could be identified characterized, it would significantly advance our understanding underlying mechanisms control animal...
Although stable isotope labeling by amino acids in cell culture (SILAC)-based quantitative proteomics was first developed as a culture-based technique, isotope-labeled have since been successfully introduced vivo into select multicellular model organisms manipulating the feeding diets. An earlier study others has demonstrated that heavy lysine labeled Drosophila melanogaster can be derived with an exclusive yeast diet. In this work, we further evaluated use of and/or arginine for metabolic...
Abstract Methanogens have gained much attention for their metabolic product, methane, which could be an energy substitute but also contributes to the greenhouse effect. One factor that controls methane emission, reversible protein phosphorylation, is a crucial signaling switch and phosphoproteomics has become powerful tool large-scale surveying. Here, we conducted first phosphorylation-mediated regulation study in halophilic Methanohalophilus portucalensis FDF1 T , model strain studying...
To date our understanding of Drosophila receptor protein tyrosine phosphatases (R-PTPs) in the regulation signal transduction is limited. Of seven R-PTPs identified flies, six are involved axon guidance that occurs during embryogenesis. However, whether and how may control key steps development not clear. In this study we investigated potential role developmental processes outside neuronal system beyond embryogenesis stage. Through systematic data mining available microarray databases, found...
Protein phosphorylation can induce signal transduction to change sperm motility patterns during capacitation. However, changes in the of proteins mice are still incompletely understood. Here, capacitation-related mouse sperms were firstly investigated by label-free quantitative (LFQ) phosphoproteomics coupled with bioinformatics analysis using ingenuity pathway (IPA) methods such as canonical pathway, upstream regulator, and network analysis. Among 1632 phosphopeptides identified at serine,...
Abstract The 1,3‐enyne moiety is commonly found in cyclohexanoid natural products produced by endophytic and plant pathogenic fungi. Asperpentyn ( 1 ) a 1,3‐enyne‐containing terpenoid isolated from Aspergillus Pestalotiopsis . genetic basis biochemical mechanism of biosynthesis , other containing this motif, has remained enigmatic despite their potential ecological roles. Identified here the biosynthetic gene cluster characterization two crucial enzymes A P450 monooxygenase that dual...
This article presents data that were obtained through measuring the impact of Min oscillation on membrane proteins in Escherichia coli by quantitative protemoics analysis. We isolated inner membranes from wild-type and mutant strains to generate proteomics datasets based NanoLC-nanoESI-MS/MS mass spectrometry using isobaric tags for relative absolute quantitation (iTRAQ) method. The included raw spectral files four sample replicates processed Proteome Discoverer contained a total 40,072...