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Methacrylic acid/Tween 80 engineered amorphous calcium phosphate as an effective bioactive reinforcing nanofillers in dental adhesive

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Dental Materials Journal 2025年第2期44卷 190-200页

作者： Maimansomsuk, Siripatsorn Teangrom, Paremai Teanchai, Chayada Sinthuvanich, Chomdao Ruengket, Pakorn Attarataya, Jakrada Akkarachaneeyakorn, Khrongkhwan Department of Chemistry Faculty of Science Kasetsart University Bangkok10900 Thailand Center of Excellence for Innovation in Chemistry Faculty of Science Kasetsart University Bangkok10900 Thailand Research Center Faculty of Dentistry Mahidol University Bangkok10400 Thailand Department of Biochemistry Faculty of Science Kasetsart University Bangkok Thailand Faculty of Science Kasetsart University Bangkok Thailand Genetic Engineering and Bioinformatics Program Graduate School Kasetsart University Bangkok Thailand Nakhon Ratchasima30000 Thailand

Bioactive fillers in dental adhesives are designed to release beneficial ions, such as calcium and phosphate, to help in remineralization process, and preventing secondary caries. Their incorporation also aims to improve the longevity of dental restorations. Herein, CaP nanoparticles were synthesized through a water-in-oil emulsion method using Tween80 as a surfactant and methacrylic acid (MAA). MAA officiated as a co-surfactant and reduced the size of CaP nanoparticle, including improved compatibility with the components of dental adhesive. The incorporation of 2% T80/CaP/MAA nanofillers into dental adhesive demonstrated increased efficiency, as evidenced by a higher degree of conversion (%DC) and greater micro-tensile bond strength (μTBS). More importantly, T80/CaP/ MAA nanofillers were able to induce remineralization process in the dental structure, which was confirmed by EDX mapping and IR imaging. Finally, a cytotoxicity assessment of the dental adhesive containing T80/CaP/MAA showed no significant adverse effects on human fibroblast cells. © 2025, Japanese Society for Dental Materials and Devices. All rights reserved.

关键词： Stem cells

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Paralog-divergent Features May Help Reduce Off-target Effects of Drugs:Hints from Glucagon Subfamily Analysis

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Genomics, Proteomics & bioinformatics 2017年第4期15卷 246-254页

作者： Zhining Sa Jingqi Zhou Yangyun Zou Zhixi Su Xun Gu State Key Laboratory of Genetic Engineering and MOE Key Laboratory of Contemporary Anthropology School of LifeSciencesFudan UniversityShanghai 200433China Department of Genetics Development and Cell BiologyProgram of Bioinformatics and Computational BiologyIowa State UniversityAmesIA 50011USA

Side effects from targeted drugs remain a serious conccrn. One reason is the nonselective binding of a drug to unintended proteins such as its paralogs, which arc highly homologous in sequences and have similar structures and drug-binding pockets. To identify targctablc differences between paralogs, we analyzed two types （type-I and type-ll） of functional divergence between two paralogs in the known target protein receptor family G-protein coupled receptors （GPCRs） at the amino acid level. Paralogous protein receptors in glucagon-like subfamily, glucagon receptor （GCGR） and glucagon-like peptide-I receptor （GLP-I R）, exhibit divergence in ligands and are clinically validated drug targets for type 2 diabetes. Our data showed that type-ll alnino acids were significantly enriched in the binding sites of antagonist MK-0893 to GCGR. which had a radical shift in physicochemical properties between GCGR and GLP-1R. We also examined the role of type-I amino acids between GCGR and GLP-IR. The divergent features between GCGR and GLP-I R paralogs may be helpful in their discrimination, thus enabling the identification of binding sites to reduce undesirable side effects and increase the target specificity of drugs.

关键词： Paralog Functional divergence Functional site Drug specificity Evolutionary conservation

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Integrated synchrotron radiation-based fourier transform infrared (SR-FTIR) microscopy and tandem-mass spectrometry (LC-MS/MS) used to elucidate the apoptotic effect of chamuangone in A549 cells

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Biochemical and Biophysical Research Communications 2025年 764卷 151826页

作者： Wanaragthai, Panatda Yingchutrakul, Yodying Panichayupakaranant, Pharkphoom Vongsvivut, Jitraporn Aonbangkhen, Chanat Yang, Meng Chieh Maiuthed, Arnatchai Chanvorachote, Pithi Wood, Bayden R. Choowongkomon, Kiattawee Krobthong, Sucheewin Interdisciplinary Program of Genetic Engineering and Bioinformatics Kasetsart University Bangkok Thailand National Center for Genetic Engineering and Biotechnology NSTDA Pathum Thani 12120 Thailand Phytomedicine and Pharmaceutical Biotechnology Excellence Center Faculty of Pharmaceutical Sciences Prince of Songkla University Hat-Yai Thailand ANSTO-Australian Synchrotron 800 Blackburn Road Clayton Victoria Australia Center of Excellence in Natural Products Chemistry (CENP) Department of Chemistry Faculty of Science Chulalongkorn University Bangkok 10330 Thailand Department of Anatomy Faculty of Medicine Srinakharinwirot University Bangkok 10110 Thailand Centre of Biopharmaceutical Science for Healthy Ageing Faculty of Pharmacy Mahidol University Bangkok 10400 Thailand Department of Pharmacology Faculty of Pharmacy Mahidol University Bangkok 10400 Thailand Center of Excellence in Cancer Cell and Molecular Biology Faculty of Pharmaceutical Sciences Chulalongkorn University Bangkok 10330 Thailand Department of Pharmacology and Physiology Faculty of Pharmaceutical Sciences Chulalongkorn University Bangkok 10330 Thailand Bio-spectroscopy Group School of Chemistry Monash University Clayton Victoria 3800 Australia Department of Biochemistry Faculty of Science Kasetsart University Bangkok Thailand

Chamuangone, a natural compound extracted from Garcinia cowa leaves, has demonstrated potential in cancer therapeutics, but its effects on lung cancer cells remain unclear. This study investigates the apoptotic effects of Chamuangone on human lung adenocarcinoma cells (A549). The A549 cells were treated with Chamuangone, and the cytotoxic effects were evaluated using an MTT assay, revealing a dose-dependent inhibition of cell proliferation with an IC₅₀ value of 19.43 μM. Annexin V assays further confirmed that Chamuangone induces apoptosis in A549 cells, showing increased levels of late apoptosis with higher concentrations. Synchrotron radiation-based Fourier transform infrared (SR-FTIR) microscopy provided insights into macromolecular changes, highlighting significant alterations in proteins, lipids, and nucleic acids. These structural changes in key cellular macromolecules were supported by proteomic analysis, which identified the upregulation of apoptosis-related proteins, including Peroxiredoxin-2 and Na⁺/H⁺ exchange regulatory cofactor NHE-RF1. Canonical pathway analysis indicated that Chamuangone affects oxidative phosphorylation and mitochondrial dysfunction, both crucial pathways for apoptosis. Additionally, upstream regulator analysis demonstrated significant inhibition of the epidermal growth factor receptor (EGFR), a key player in lung cancer progression. These findings suggest that Chamuangone triggers apoptosis through mitochondrial pathways and EGFR inhibition, positioning it as a promising therapeutic candidate for lung cancer treatment. © 2025 Elsevier Inc.

关键词： Epidermal growth factor receptor Garcinia cowa Mitochondrial dysfunction Oxidative phosphorylation Proteomics

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Classification and Phylogenetic Analysis of Acetobacter sp. HA by 5 S Ribosomal RNA Sequencing

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Molecules and Cells 1994年第4期4卷 399-403页

作者： Hong Sung Chun Jun Sik Yoon Sook Young Lee Jin Cheol Yoo Hong Sub Kim Yong Ha Park Sung Jun Kim Department of Pharmacy Chosun University Kwangju 501-759 Korea Department of Biology Chosun University Kwangju 501-759 Korea Bioinformatics and Systematics Program KCTC Genetic Engineering Research Institute Korea Institute of Science and Technology Taejon 305-606 Korea Department of Genetic Engineering Chosun University Kwangju 501-759 Korea

The strain Acetobacter sp. HA was isolated from Korean traditional fermented vinegar and defined as a new acidophilic Acetobacter species [Chun, H. S., and Kim, S. J. (1993) J. Microbiol. Biotech . 5, 108-114]. Ribosomal 5 S RNA was isolated from Acetobacter sp. HA and sequenced by the direct chemical methods. Acetobacter sp. HA contained RNAs belonging to the 121 nucleotide type. The sequence of the cytoplasmic 5 S rRNA from Acetobacter sp. HA was compared to the known 5 S rRNA sequences of 11 strains of the genus Acetobacter and two strains of the Gluconobacter. Based on K nuc values, the Acetobacter sp. HA was phylogenetically closer to Acetobacter aceti than to any other strains of Acetobacter or Gluconobacter .

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Distinct gut microbiomes in Thai patients with colorectal polyps

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World Journal of Gastroenterology 2024年第27期30卷 3336-3355页

作者： Thoranin Intarajak Ahmad Nuruddin Khoiri Kanthida Kusonmano Weerayuth Kittichotirat Sawannee Sutheeworapong Supapon Cheevadhanarak Wandee Udomchaiprasertkul Chinae Thammarongtham Bioinformatics Unit Chulabhorn Royal AcademyLak Si 10210BangkokThailand Bioinformatics and Systems Biology Program School of Bioresources and Technologyand School of Information TechnologyKing Mongkut’s University of Technology ThonburiBang Khun Thian 10150BangkokThailand Bioinformatics and Systems Biology ProgramSchool of Bioresources and Technologyand School of Information TechnologyKing Mongkut’s University of Technology ThonburiBang Khun Thian 10150BangkokThailand Systems Biology and Bioinformatics Unit Pilot Plant Development and Training InstituteKing Mongkut’s University of Technology ThonburiBang Khun Thian 10150BangkokThailand Molecular Genomic Research Laboratory Chulabhorn Royal AcademyLak Si 10210BangkokThailand National Center for Genetic Engineering and Biotechnology King Mongkut's University of Technology ThonburiBang Khun Thian 10150BangkokThailand School of Bioresources and Technology King Mongkut’s University of Technology ThonburiBank Khun Thian 10150BangkokThailand Fungal Biotechnology Unit Pilot Plant Development and Training InstituteKing Mongkut’s University of Technology ThonburiBang Khun Thian 10150BangkokThailand

BACKGROUND Colorectal polyps that develop via the conventional adenoma-carcinoma sequence[e.g.,tubular adenoma(TA)]often progress to malignancy and are closely associated with changes in the composition of the gut *** is limited research concerning the microbial functions and gut microbiomes associated with colorectal polyps that arise through the serrated polyp pathway,such as hyperplastic polyps(HP).Exploration of microbiome alterations asso-ciated with HP and TA would improve the understanding of mechanisms by which specific microbes and their metabolic pathways contribute to colorectal *** To investigate gut microbiome signatures,microbial associations,and microbial functions in HP and TA *** Full-length 16S rRNA sequencing was used to characterize the gut microbiome in stool samples from control participants without polyps[control group(CT),n=40],patients with HP(n=52),and patients with TA(n=60).Significant differences in gut microbiome composition and functional mechanisms were identified between the CT group and patients with HP or *** techniques in this study included differential abundance analysis,co-occurrence network analysis,and differential pathway *** Colorectal cancer(CRC)-associated bacteria,including Streptococcus gallolyticus(***),Bacteroides fragilis,and Clostridium symbiosum,were identified as characteristic microbial species in TA *** gnavus,associated with dysbiosis and gastrointestinal diseases,was significantly differentially abundant in the HP and TA *** pathway analysis revealed that HP patients exhibited enrichment in the sulfur oxidation pathway exclusively,whereas TA patients showed dominance in pathways related to secondary metabolite biosynthesis(e.g.,mevalonate);*** was a major ***-occurrence network and dynamic network analyses revealed co-occurrence of dysbiosis-associated bacteria in HP patients,wh

关键词： Gut microbiome Colorectal adenoma Hyperplastic polyp Full-length 16s rRNA Microbial correlation networks Predicted functional mechanisms

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Nitrogen assimilation in cassava: Implications for carbon metabolism and biomass synthesis 1

Nitrogen assimilation in cassava: Implications for carbon me...

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1st International Conference on Education, Science and Technology, ICON-EST 2018

作者： Siriwat, W. Muhardina, V. Thammarongtham, C. Kalapanulak, S. Saithong, T. Systems Biology and Bioinformatics Research Laboratory Pilot Plant Development and Training Institute King Mongkut's University of Technology Thonburi Bang Khun Thian Bangkok10150 Thailand Department of Agricultural Industrial Technology Faculty of Agricultural Technology University of SerambiMekkah Jl. TeungkuImumLueng Bata Batoh Banda Aceh Aceh23245 Indonesia Biochemical Engineering and Pilot Plant Research and Development Unit National Center for Genetic Engineering and Biotechnology King Mongkut's University of Technology Thonburi Bang KhunThian Bangkok10150 Thailand Bioinformatics and Systems Biology Program School of Bioresources and Technology King Mongkut's University of Technology Thonburi Bang KhunThian Bangkok10150 Thailand

The nitrogen assimilation pathway in cassava was reconstructed by comparative genomics approach to understand the underlying metabolism as well as the interaction between carbon and nitrogen assimilation towards the synthesis of metabolic phenotype. First, theproteins of cassava were annotated via sequence similarity search against genes of 11 template plants obtained from KEGG and PMN databases, employing reciprocal BLASTp(E-value ≤ 1x10-10, identity percentage ≥ 60, and coverage percentage ≥ 80). The template plants comprised well-known plant, starchy crops, nitrogen-fixing crops and crops that are evolutionarily related to cassava and includedArabidopsis thaliana, Oryzasativa, Zea mays, Ricinuscommunis, Solanumtuberosum, Brassica rapa, Cicerarietinum, Jatrophacurcas, Medicagotruncatula, Phaseolus vulgaris and Glycine *** pathway was then curatedwith reactions obtained from the CassavaCyc database to ensure full pathway *** was subsequently validated with cloned sequence of cassava from the GenBank and cassava transcriptome data from literature. The resulting N-assimilation pathway, covering the conversion of nitrate to amino acids (glutamine and glutamate),consists of 14 biochemical reactions corresponding to 59 genes, 73 proteins and 2 transport reactions. At least 92 percent of the identified proteins in the pathway were supported by the transcriptome data. In addition, the proposed N-assimilation pathway contains four additional enzymes, including glutamate synthase, nitrilase, formamidase and carbamoyl phosphate synthasecompared to the existing N-assimilation pathway in CassavaCyc database. Taken together, the N-assimilation pathway herein proposed identified reactions involved in N-assimilation and represents a forward step towards understanding metabolic basis for cassava yield as well as its phenotypic plasticity and adaptation to stress. © Published under licence by IOP Publishing Ltd.

关键词： Genes

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Rice molecular markers and genetic mapping:Current status and prospects

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Journal of Integrative Agriculture 2017年第9期16卷 1879-1891页

作者： Ghulam Shabir Kashif Aslam Abdul Rehman Khan Muhammad Shahid Hamid Manzoor Sibgha Noreen Mueen Alam Khan Muhammad Baber Muhammad Sabar Shahid Masood Shah Muhammad Arif National Institute for Biotechnology and Genetic Engineering(NIBGE) Faisalabad 38000Pakistan Biotechnology Program Environmental SciencesCOMSA TS Institute of Information TechnologyAbbottabad 22010Pakistan Institute of Molecular Biology and Biotechnology Bahauddin Zakariya UniversityMultan 60000Pakistan Rice Research Institute Kala Shah Kaku 39020Pakistan Department of Bioinformatics and Biotechnology Government College UniversityFaisalabad 38000Pakistan Institute of Pure and Applied Biology Bahauddin Zakariya UniversityMultan 60000Pakistan Department of Plant Breeding and Genetics The Islamia University of BahawalpurBahawalpur 63100Pakistan National Center for Soybean Improvement Nanjing Agricultural UniversityNanjing 210095P.R.China

Dramatic changes in climatic conditions that supplement the biotic and abiotic stresses pose severe threat to the sustainable rice production and have made it a difficult task for rice molecular breeders to enhance production and productivity under these stress factors. The main focus of rice molecular breeders is to understand the fundamentals of molecular pathways involved in complex agronomic traits to increase the yield. The availability of complete rice genome sequence and recent improvements in rice genomics research has made it possible to detect and map accurately a large number of genes by using linkage to DNA markers. Linkage mapping is an effective approach to identify the genetic markers which are co-segregating with target traits within the family. The ideas of genetic diversity, quantitative trait locus（QTL） mapping, and marker-assisted selection（MAS） are evolving into more efficient concepts of linkage disequilibrium（LD） also called association mapping and genomic selection（GS）, respectively. The use of cost-effective DNA markers derived from the fine mapped position of the genes for important agronomic traits will provide opportunities for breeders to develop high-yielding, stress-resistant, and better quality rice cultivars. Here we focus on the progress of molecular marker technologies, their application in genetic mapping and evolution of association mapping techniques in rice.

关键词： genetic mapping molecular markers maker assisted selection Oryza sativa L quantitative trait loci

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Application of Random Forest in Limited Size Human Long Non-coding RNAs Identification with Secondary Structure Features

Application of Random Forest in Limited Size Human Long Non-...

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International Computer Science and engineering Conference (ICSEC)

作者： Songtham Anuntakarun Warin Wattanapornprom Supatcha Lertampaiporn Bioinformatics and Systems Biology Program King Mongkut’s University of Technology Thonburi Bangkok Thailand Department of Mathematics University of Technology Thonburi Bangkok Thailand Biochemical Engineering and Systems Biology Research Group National Center for Genetic Engineering and Biotechnology (BIOTEC) King Mongkut’s University of Technology Thonburi Bangkok Thailand

In this work, preliminary experiments of using diverse machine learning algorithms and testing of multiple relevant features to discriminate between human lncRNAs and coding/partial coding sequences was performed. This research limited the size of human lncRNAs such that they are shorter than 1000 nucleotides. Various significant features in describing RNA sequence including sequenced based features, secondary structure features, base-pair features and structural robustness features were used in this study. Then, the top 20 significant features were selected using Wilcoxon rank-sum test and discovered that the secondary structure features are the unique characteristics for identifying the human lncRNAs which are quite difference with those in the groups of shorter and longer types of ncRNAs. Such features are suitable with the rule-based classifiers like Random Forest. According to 10-folding cross validation, the random forest model has shown the highest accuracy, sensitivity and specificity as well as the lowest false positive rate among all competitors. Furthermore, the model was compared with other state-of -the-art approaches such as CPC, CPAT, RNAcon and achieved the highest accuracy of 84.5% among all the participants.

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Transcriptomic Data Integration Inferring the Dominance of Starch Biosynthesis in Carbon Utilization of Developing Cassava Roots

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Procedia Computer Science 2012年 11卷 96-106页

作者： Wanatsanan Siriwat Saowalak Kalapanulak Malinee Suksangpanomrung Supatcharee Netrphan Asawin Meechai Treenut Saithong Bioinformatics and Systems Biology Program School of Bioresources and Technology and School of Information Technology King Mongkut's University of Technology Thonburi (Bang Khun Thian campus) Bangkok 10150 Thailand School of Bioresources and Technology King Mongkut's University of Technology Thonburi (Bang Khun Thian campus) Bangkok 10150 Thailand Systems Biology and Bioinformatics Research Group Pilot Plant Development and Training Institute King Mongkut's University of Technology Thonburi Bangkok 10150 Thailand National Center for Genetic Engineering and Biotechnology (BIOTEC) Pathumthani 12120 Thailand Department of Chemical Engineering King Mongkut's University of Technology Thonburi Bangkok 10140 Thailand

Carbon metabolism, which is an important process underlying the plant development, has been extensively studied in model plant Arabidopsis, however the understanding in this process for cassava root crop is very little. To enhance our understanding into the process, we studied carbon partitioning during cassava root development at the transcriptional level via transciptomic data integration into the metabolic pathways. The transcriptome data of three different developmental stages of cassava roots—fibrous root (FR), developing storage root (DR), and mature storage root (MR) from Yang et al. [1] —was integrated into the key carbon metabolism pathways reconstructed following the protocol of Rongsirikul et al. [2] . According to the 43 differentially expressed genes (56 proteins IDs) mapped into the pathways, we found that the genes involved in starch biosynthesis are more up-regulated, in contrast to the expression of genes in the cell wall biosynthesis and respiration. The results may imply the significance of starch biosynthesis among the carbon utilization processes in the developing cassava roots. In other words, the carbon source from α-D-glucose-1-phosphate (G1P) might be mostly used for starch biosynthesis rather than cell wall biosynthesis and respiration pathways during cassava root development.

关键词： carbon partitioning carbon metabolism pathway starch biosynthesis cassava root development data integration

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Whole Genome Gene Discovery in the Pathogenic Oomycete Pythium insidiosum by 454 Sequencing Technology

Whole Genome Gene Discovery in the Pathogenic Oomycete Pythi...

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The Annual Oomycete Molecular genetics Network Meeting(国际卵菌分子遗传学年会)

作者： Theerapong Krajaejun Shoba Ranganathan Rommanee Khositnithikul Tassanee Lerksuthirat Tassanee Lowhnoo Thidarat Rujirawat Wanta Yingyong Prapat Suriyaphol Sittichoke Tangphatsornruang Gagan Garg Department of Pathology Mahidol University Bangkok Department of Chemistry and Biomolecular Sciences Macquarie University Australia Molecular Medicine Program Multidisciplinary Unit Faculty of Science Mahidol University Bangkok Research Center Faculty of Medicine Ramathibodi HospitalMahidol University Bangkok Bioinformatics and Data Management for Research Office for Research and Development Faculty of Medicine Siriraj Hospital Mahidol University Bangkok Genome Sequencing Laboratory National Center for Genetic Engineering and Biotechnology National Science and Technology Development Agency PathumthaniThailand

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