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| WoS | SCOPUS | Document Type | Document Title | Abstract | Authors | Affiliation | ResearcherID (WoS) | AuthorsID (SCOPUS) | Author Email(s) | Journal Name | JCR Abbreviation | ISSN | eISSN | Volume | Issue | WoS Edition | WoS Category | JCR Year | IF | JCR (%) | FWCI | FWCI Update Date | WoS Citation | SCOPUS Citation | Keywords (WoS) | KeywordsPlus (WoS) | Keywords (SCOPUS) | KeywordsPlus (SCOPUS) | Language | Publication Stage | Publication Year | Publication Date | DOI | JCR Link | DOI Link | WOS Link | SCOPUS Link |
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| ○ | ○ | Article | Periodontitis promotes bacterial extracellular vesicle-induced neuroinflammation in the brain and trigeminal ganglion | Gram-negative bacteria derived extracellular vesicles (EVs), also known as outer membrane vesicles, have attracted significant attention due to their pathogenic roles in various inflammatory diseases. We recently demonstrated that EVs secreted by the periodontopathogen Aggregatibacter actinomycetemcomitans (Aa) can cross the blood-brain barrier (BBB) and that their extracellular RNA cargo can promote the secretion of proinflammatory cytokines, such as IL-6 and TNF-alpha, in the brain. To gain more insight into the relationship between periodontal disease (PD) and neuroinflammatory diseases, we investigated the effect of Aa EVs in a mouse model of ligature-induced PD. When EVs were administered through intragingival injection or EV-soaked gel, proinflammatory cytokines were strongly induced in the brains of PD mice. The use of TLR (Toll-like receptor)-reporter cell lines and MyD88 knockout mice confirmed that the increased release of cytokines was triggered by Aa EVs via TLR4 and TLR8 signaling pathways and their downstream MyD88 pathway. Furthermore, the injection of EVs through the epidermis and gingiva resulted in the direct retrograde transfer of Aa EVs from axon terminals to the cell bodies of trigeminal ganglion (TG) neurons and the subsequent activation of TG neurons. We also found that the Aa EVs changed the action potential of TG neurons. These findings suggest that EVs derived from periodontopathogens such as Aa might be involved in pathogenic pathways for neuroinflammatory diseases, neuropathic pain, and other systemic inflammatory symptoms as a comorbidity of periodontitis. Extracellular vesicles (EVs) secreted from bacterial cells play a key role in microbe-host cell communication. Bacterial EVs (bEVs) may be closely linked to the pathogenesis underlying neuroinflammatory diseases. In the current experiments, bEVs caused the brain to release proinflammatory cytokines by activating the host TLR signaling pathway. This induction of neuroinflammation was significantly more prominent in the periodontitis disease model, implying a substantial link between periodontal and neuroinflammatory diseases through bEVs. We also show that bEVs are translocated to the neuronal cell body via retrograde axonal transport, where they directly activate neuronal proinflammatory signals. Our findings reveal that bEVs are a pathogenic pathway for neurological conditions potentially linked to periodontitis, such as Alzheimer's disease and trigeminal neuropathic pain. | Ha, Jae Yeong; Seok, Jiwon; Kim, Suk-Jeong; Jung, Hye-Jin; Ryu, Ka-Young; Nakamura, Michiko; Jang, Il-Sung; Hong, Su-Hyung; Lee, Youngkyun; Lee, Heon-Jin | Kyungpook Natl Univ, Sch Dent, Dept Microbiol & Immunol, Daegu, South Korea; Kyungpook Natl Univ, Craniofacial Nerve Bone Network Res Ctr, Daegu, South Korea; Kyungpook Natl Univ, Sch Dent, Dept Biochem, Daegu, South Korea; Kyungpook Natl Univ, Sch Dent, Dept Pharmacol, Daegu, South Korea; Kyungpook Natl Univ, Brain Sci & Engn Inst, Daegu, South Korea | 57220581488; 58555739200; 58555644600; 57394721600; 57394631700; 36051866000; 7102177910; 8691449100; 36062942200; 36462383000 | ylee@knu.ac.kr;heonlee@knu.ac.kr; | PLOS PATHOGENS | PLOS PATHOG | 1553-7366 | 1553-7374 | 19 | 10 | SCIE | MICROBIOLOGY;PARASITOLOGY;VIROLOGY | 2023 | 5.5 | 5.6 | 2.68 | 2025-06-25 | 17 | 16 | OUTER-MEMBRANE VESICLES; NECROSIS-FACTOR-ALPHA; MECHANISMS; IMMUNE; MODEL; CROSS; TLR8; RNAS; TNF | Animals; Blood-Brain Barrier; Cytokines; Extracellular Vesicles; Mice; Mice, Knockout; Myeloid Differentiation Factor 88; Neuroinflammatory Diseases; Periodontal Diseases; Periodontitis; Trigeminal Ganglion; chitosan; hydrogel; immunoglobulin enhancer binding protein; interleukin 6; microRNA; myeloid differentiation factor 88; tissue adhesive; toll like receptor 4; toll like receptor 7; toll like receptor 8; tumor necrosis factor; cytokine; myeloid differentiation factor 88; Aggregatibacter actinomycetemcomitans; animal cell; animal experiment; animal model; animal tissue; Article; bioassay; bioluminescence; blood brain barrier; cell isolation; confocal laser scanning microscopy; controlled study; cytokine production; cytokine release; electrophysiology; enzyme linked immunosorbent assay; epidermis; exosome; fluorescence microscopy; image analysis; immunofluorescence assay; immunohistochemistry; male; mouse; nervous system inflammation; neuropathic pain; nonhuman; periodontal disease; periodontitis; polymerase chain reaction; RNA extraction; software; TLR reporter assay; trigeminus ganglion; ultracentrifugation; Western blotting; wound closure; animal; knockout mouse; metabolism; nervous system inflammation; periodontal disease; trigeminus ganglion | English | 2023 | 2023-10 | 10.1371/journal.ppat.1011743 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | ||||
| ○ | ○ | Article | Comparisons of parametric and non-parametric methods for analyzing RT-PCR experiment data | The real-time reverse-transcript polymerase chain reaction (RT-PCR) test is a widely used laboratory technique that is highly sensitive and reliable for measuring the quantification of gene expression levels and diagnosing various of diseases, including COVID-19. The RT-PCR experiments often have correlated technical replicates of a small number of samples. However, current statistical analysis of RT-PCR assumes a large sample size and does not account for correlated structure across the replicates. In this paper, we review popular statistical methods for analyzing RT-PCR data and propose a permutation method that accounts for the small sample size and the correlated structure of RT-PCR data. Our proposed method provides a more accurate and efficient analysis of RT-PCR data. We provide an R program to implement our method for practitioners. | Kim, Byungwon; Jung, Sungkyu; Lim, Johan; Jang, Woncheol | Kyungpook Natl Univ, Dept Stat, Daegu 41566, South Korea; Seoul Natl Univ, Dept Stat, Seoul 08826, South Korea | Jung, Sungkyu/AFA-8963-2022 | 57205674498; 35299524400; 16401812900; 8865884800 | wcjang@snu.ac.kr; | CHEMOMETRICS AND INTELLIGENT LABORATORY SYSTEMS | CHEMOMETR INTELL LAB | 0169-7439 | 1873-3239 | 242 | SCIE | AUTOMATION & CONTROL SYSTEMS;CHEMISTRY, ANALYTICAL;COMPUTER SCIENCE, ARTIFICIAL INTELLIGENCE;INSTRUMENTS & INSTRUMENTATION;MATHEMATICS, INTERDISCIPLINARY APPLICATIONS;STATISTICS & PROBABILITY | 2023 | 3.7 | 5.7 | 0 | 2025-06-25 | 0 | 0 | Correlation; Permutation; RT-PCR; Small sample size | PERMUTATION METHODS; GENE-EXPRESSION; TESTS; GEE | Correlation; Permutation; RT-PCR; Small sample size | Diagnosis; Gene expression; Statistical methods; arginine; hydroxymethylglutaryl coenzyme A reductase kinase; RNA; Correlation; Experiment data; Gene expression levels; Laboratory techniques; Nonparametric methods; Permutation; Reaction data; Real- time; Reverse-transcript polymerase chain reaction; Small Sample Size; animal experiment; Article; controlled study; data accuracy; data analysis; diet supplementation; intermethod comparison; male; mathematical model; nonhuman; nonparametric test; parametric test; rat; real time reverse transcription polymerase chain reaction; RNA analysis; sample size; statistical analysis; statistical model; Polymerase chain reaction | English | 2023 | 2023-11-15 | 10.1016/j.chemolab.2023.104982 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | ||
| ○ | ○ | Review | Dietary regulations for microbiota dysbiosis among post-menopausal women with type 2 diabetes | Type 2 diabetes (T2D) and T2D-associated comorbidities, such as obesity, are serious universally prevalent health issues among post-menopausal women. Menopause is an unavoidable condition characterized by the depletion of estrogen, a gonadotropic hormone responsible for secondary sexual characteristics in women. In addition to sexual dimorphism, estrogen also participates in glucose-lipid homeostasis, and estrogen depletion is associated with insulin resistance in the female body. Estrogen level in the gut also regulates the microbiota composition, and even conjugated estrogen is actively metabolized by the estrobolome to maintain insulin levels. Moreover, post-menopausal gut microbiota is different from the pre-menopausal gut microbiota, as it is less diverse and lacks the mucolytic Akkermansia and short-chain fatty acid (SCFA) producers such as Faecalibacterium and Roseburia. Through various metabolites (SCFAs, secondary bile acid, and serotonin), the gut microbiota plays a significant role in regulating glucose homeostasis, oxidative stress, and T2D-associated pro-inflammatory cytokines (IL-1, IL-6). While gut dysbiosis is common among post-menopausal women, dietary interventions such as probiotics, prebiotics, and synbiotics can ease post-menopausal gut dysbiosis. The objective of this review is to understand the relationship between post-menopausal gut dysbiosis and T2D-associated factors. Additionally, the study also provided dietary recommendations to avoid T2D progression among post-menopausal women. | Singh, Vineet; Park, Yeong-Jun; Lee, GyuDae; Unno, Tatsuya; Shin, Jae-Ho | Kyungpook Natl Univ, Dept Appl Biosci, Daegu, South Korea; Jeju Natl Univ, Dept Biotechnol, Jeju, South Korea | shin, Jaeho/K-6792-2013; Unno, Tatsuya/C-1522-2012; Singh, Vineet/ABC-7000-2021 | 57211642447; 56275800900; 57222101785; 22941915600; 57224125922 | tatsu@jejunu.ac.kr;jhshin@knu.ac.kr; | CRITICAL REVIEWS IN FOOD SCIENCE AND NUTRITION | CRIT REV FOOD SCI | 1040-8398 | 1549-7852 | 63 | 29 | SCIE | FOOD SCIENCE & TECHNOLOGY;NUTRITION & DIETETICS | 2023 | 7.3 | 5.7 | 0.69 | 2025-06-25 | 20 | 17 | Dietary regulation; dysbiosis; estrogen deficiency; gut microbiota; post-menopause; type 2 diabetes | TRIGONELLA-FOENUM-GRAECUM; HIGH-FAT-DIET; SYNBIOTIC FERMENTED MILK; YELLOW MUSTARD MUCILAGE; GUT MICROBIOTA; INSULIN-RESISTANCE; OXIDATIVE STRESS; SEED MUCILAGE; LACTOBACILLUS-ACIDOPHILUS; CARDIOVASCULAR-DISEASE | Dietary regulation; dysbiosis; estrogen deficiency; gut microbiota; post-menopause; type 2 diabetes | Diabetes Mellitus, Type 2; Dysbiosis; Estrogens; Female; Glucose; Humans; Microbiota; Postmenopause; Probiotics; Fatty acids; Glucose; Metabolites; Nutrition; Peptides; Probiotics; estrogen; glucose; probiotic agent; Comorbidities; Dietary regulation; Dysbiosis; Estrogen deficiency; Gut microbiota; Health issues; Microbiotas; Oestrogens; Post-menopause; Type-2 diabetes; dysbiosis; female; human; microbiology; microflora; non insulin dependent diabetes mellitus; postmenopause; Insulin | English | 2023 | 2023-11-17 | 10.1080/10408398.2022.2076651 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | |
| ○ | ○ | Article | Diverse infectivity, transmissibility, and pathobiology of clade 2.3.4.4 H5Nx highly pathogenic avian influenza viruses in chickens | Clade 2.3.4.4 Eurasian lineage H5Nx highly pathogenic avian influenza virus (HPAIV) has become the globally dominant clade and caused global outbreaks since 2014. The clade 2.3.4.4 viruses have evolved into eight hemagglutinin subgroups (2.3.4.4a-h). In this study, we evaluated the infectivity, pathobiology, and transmissibility of seven clade 2.3.4.4 viruses (two 2.3.4.4a, two 2.3.4.4b, one 2.3.4.4c and two 2.3.4.4e) in chickens. The two clade 2.3.4.4e viruses caused 100% mortality and transmissibility in chickens. However, clade 2.3.4.4a and c viruses showed 80-90% mortality and 67% transmissibility. Clade 2.3.4.4b viruses showed 100% mortality, but no transmission to co-housed chickens was observed based on lack of seroconversion. All the infected chickens died showing systemic infection, irrespective of subgroup. The results highlight that all the clade 2.3.4.4 HPAIVs used in this study caused high mortality in infected chickens, but the transmissibility of the viruses in chickens was variable in contrast to that of previous Eurasian-lineage H5N1 HPAIVs. Changes in the pathogenicity and transmissibility of clade 2.3.4.4 HPAIVs warrant careful monitoring of the viruses to establish effective control strategies. | Kwon, Jung-Hoon; Bertran, Kateri; Lee, Dong-Hun; Criado, Miria Ferreira; Killmaster, Lindsay; Pantin-Jackwood, Mary J.; Swayne, David E. | US Dept Agr Agr Res Serv, US Natl Poultry Res Ctr, Athens, GA USA; Kyungpook Natl Univ, Coll Vet Med, Daegu, South Korea; Ctr Recerca Sanitat Anim CReSA, Unitat mixta Invest IRTA UAB Sanitat Anim, Bellaterra, Spain; Ctr Recerca Sanitat Anim CReSA, IRTA Programa Sanitat Anim, Bellaterra, Spain; Konkuk Univ, Coll Vet Med, Seoul, South Korea; Auburn Univ, Coll Vet Med, Dept Pathobiol, Auburn, AL USA; Konkuk Univ, Coll Vet Med, Seoul 05029, South Korea; US Dept Agr Agr Res Serv, US Natl Poultry Res Ctr, Athens, GA 30605 USA | ; Swayne, David/AAP-7166-2020; Bertran, Kateri/H-3458-2019 | 55559800200; 48360991100; 57776535400; 27067498200; 35196419500; 55926804400; 35768368400 | donghunlee@konkuk.ac.kr;birdfluvet@gmail.com; | EMERGING MICROBES & INFECTIONS | EMERG MICROBES INFEC | 2222-1751 | 12 | 1 | SCIE | IMMUNOLOGY;INFECTIOUS DISEASES;MICROBIOLOGY | 2023 | 8.4 | 5.7 | 2.99 | 2025-06-25 | 18 | 17 | Avian influenza virus; highly pathogenic avian influenza virus; clade 2; 3; 4; infectivity; pathogenicity; transmissibility; chicken | WILD BIRDS; MANDARIN DUCK; SOUTH-KOREA; DOMESTIC DUCKS; A(H5N6) VIRUS; GLOBAL SPREAD; POULTRY; REASSORTANTS; MULTIPLE; EPIDEMIOLOGY | Avian influenza virus; chicken; clade 2.3.4.4; highly pathogenic avian influenza virus; infectivity; pathogenicity; transmissibility | Animals; Chickens; Disease Outbreaks; Influenza A virus; Influenza A Virus, H5N1 Subtype; Sepsis; virus antigen; animal tissue; Article; cladistics; controlled study; Gallus gallus; highly pathogenic avian influenza; highly pathogenic avian influenza virus; highly pathogenic avian influenza virus 2.3.4.4; infection control; Influenza A virus (H5N1); mortality; nonhuman; pathogenicity; seroconversion; systemic disease; virus load; virus replication; virus shedding; virus strain; virus transmission; animal; epidemic; Influenza A virus; Influenza A virus (H5N1); sepsis | English | 2023 | 2023-12-31 | 10.1080/22221751.2023.2218945 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | ||
| ○ | ○ | Editorial Material | Guest Editorial Distributed Big Data Intelligence in Instantaneous E-Healthcare Services | In An era where technology advances at an unprecedented pace, the healthcare sector stands at the cusp of a transformative revolution. The confluence of distributed Big Data intelligence with instantaneous e-healthcare services heralds a new paradigm, where the boundaries between medicine, artificial intelligence, and data science are blurred, giving rise to innovative solutions that redefine patient care. The emergence of personalized medicine, bolstered by the power of machine learning, graph-based techniques, and real-time analysis, is not merely a technological triumph but a testament to human ingenuity. It's a response to a world grappling with complex diseases, burgeoning healthcare costs, and an ever-increasing demand for precision and efficiency. | Paul, Anand; Chilamkurti, Naveen; Ahmad, Awais; Ahmed, Syed Hassan | Kyungpook Natl Univ, Sangju Si 37224, South Korea; La Trobe Univ, Melbourne, Vic 3086, Australia; Univ Milan, I-20122 Milan, Italy; Calif State Univ Fullerton, Fullerton, CA 90032 USA | Ahmad, Awais/AAA-4504-2019; Chilamkurti, Naveen/S-9636-2019; Paul, Anand/V-6724-2017; Shah, Syed Hassan/E-5058-2014 | 56650522400; 6602599658; 57224336715; 55389144500 | anandpaul@ieee.org;n.chilamkurti@latrobe.edu.au;awais.editor@gmail.com;sh.ahmed@ieee.org; | IEEE JOURNAL OF BIOMEDICAL AND HEALTH INFORMATICS | IEEE J BIOMED HEALTH | 2168-2194 | 2168-2208 | 27 | 10 | SCIE | COMPUTER SCIENCE, INFORMATION SYSTEMS;COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS;MATHEMATICAL & COMPUTATIONAL BIOLOGY;MEDICAL INFORMATICS | 2023 | 6.7 | 5.7 | 0.06 | 2025-06-25 | 0 | 1 | Special issues and sections; Big Data; Medical services; Distributed databases; Electronic healthcare | Artificial intelligence; Graphic methods; Health care; Learning systems; Artificial data; Data intelligence; E-healthcare services; Healthcare sectors; Innovative solutions; Machine-learning; Patient care; Personalized medicines; Power; Technology advances; artificial intelligence; artificial neural network; big data; computer assisted tomography; data science; decision making; electronic health record; electronic medical record; health care cost; health care practice; health service; heterogeneous graph attention network; human; image quality; image segmentation; jurisprudence; machine learning; network analysis; nuclear magnetic resonance imaging; open access publishing; patient care; publication; Review; scientific literature; telecare; Big data | English | 2023 | 2023-10 | 10.1109/jbhi.2023.3311649 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | |||
| ○ | ○ | Article | Interplays between cyanobacterial blooms and antibiotic resistance genes | Cyanobacterial harmful algal blooms (cyanoHABs), which are a form of microbial dysbiosis in freshwater environments, are an emerging environmental and public health concern. Additionally, the freshwater environment serves as a reservoir of antibiotic resistance genes (ARGs), which pose a risk of transmission during microbial dysbiosis, such as cyanoHABs. However, the interactions between potential synergistic pollutants, cyanoHABs, and ARGs remain poorly understood. During cyanoHABs, Microcystis and high microcystin levels were dominant in all the nine regions of the river sampled. The resistome, mobilome, and microbiome were interrelated and linked to the physicochemical properties of freshwater. Planktothrix and Pseudanabaena competed with Actinobacteriota and Proteobacteria during cyanoHABs. Forty two ARG carriers were identified, most of which belonged to Actinobacteriota and Proteobacteria. ARG carriers showed a strong correlation with ARGs density, which decreased with the severity of cyanoHAB. Although ARGs decreased due to a reduction of ARG carriers during cyanoHABs, mobile gene elements (MGEs) and virulence factors (VFs) genes increased. We explored the relationship between cyanoHABs and ARGs for potential synergistic interaction. Our findings demonstrated that cyanobacteria compete with freshwater commensal bacteria such as Actinobacteriota and Proteobacteria, which carry ARGs in freshwater, resulting in a reduction of ARGs levels. Moreover, cyanoHABs generate biotic and abiotic stress in the freshwater microbiome, which may lead to an increase in MGEs and VFs. Exploration of the intricate interplays between microbiome, resistome, mobilome, and pathobiome during cyanoHABs not only revealed that the mechanisms underlying the dynamics of microbial dysbiosis but also emphasizes the need to prioritize the prevention of microbial dysbiosis in the risk management of ARGs. | Kim, Min -Ji; Kang, Dayun; Lee, Gyudae; Kim, Kyeongnam; Kim, Jinnam; Shin, Jae-Ho; Lee, Seungjun | Kyungpook Natl Univ, Dept Appl Biosci, Daegu 41566, South Korea; Pukyong Natl Univ, Dept Food Sci & Nutr, Pusan 48513, South Korea; Kyungpook Natl Univ, Inst Qual & Safety Evaluat Agr Prod, Daegu 41566, South Korea; Kyungpook Natl Univ, NGS Core Facil, Daegu 41566, South Korea; Kyungpook Natl Univ, Daegu 41566, South Korea | ; Lee, Seungjun/S-9826-2019; Kim, Kyeongnam/KSM-2719-2024 | 57127351600; 58493492700; 57222101785; 57191364349; 56925829600; 57224125922; 56437333700 | tbd01188@knu.ac.kr;dayun15@pukyong.ac.kr;leegyuedae@gmail.com;kn1188@knu.ac.kr;kjn0032@gmail.com;jhshin@knu.ac.kr;paul5280@pknu.ac.kr; | ENVIRONMENT INTERNATIONAL | ENVIRON INT | 0160-4120 | 1873-6750 | 181 | SCIE | ENVIRONMENTAL SCIENCES | 2023 | 10.3 | 5.7 | 0.91 | 2025-06-25 | 7 | 8 | Antibiotic resistance; Antibiotic resistance gene; Cyanobacterial blooms; Resistome; Metagenome; One-Health | WATER TREATMENT; HUMAN HEALTH; DISSEMINATION; BACTERIA; RIVER; PCR; MICROCYSTIS; RESISTOME; IMPACTS | Antibiotic resistance; Antibiotic resistance gene; Cyanobacterial blooms; Metagenome; One-Health; Resistome | Anti-Bacterial Agents; Cyanobacteria; Drug Resistance, Microbial; Dysbiosis; Genes, Bacterial; Humans; Microcystis; Antibiotics; Physicochemical properties; Risk management; Water; amoxicillin; carbapenem; ciprofloxacin; erythromycin; macrolide; microcystin; quinoline derived antiinfective agent; rifamycin; tetracycline; virulence factor; antiinfective agent; Antibiotic resistance genes; Antibiotics resistance; Cyanobacterial blooms; Fresh Water; Harmful algal blooms; Metagenomes; Microbiome; One-health; Proteobacteria; Resistome; antibiotic resistance; cyanobacterium; genome; physicochemical property; pollutant; public health; abiotic stress; Actinobacteria; algal bloom; antibiotic resistance; antibiotic resistance gene; antibiotic resistome; Article; biotic stress; cyanobacterium; freshwater species; gene; microbial competition; Microcystis; mobile genetic element; nonhuman; physical chemistry; Planktothrix; Proteobacteria; Pseudanabaena; river; antibiotic resistance; bacterial gene; dysbiosis; genetics; human; Microcystis; Genes | English | 2023 | 2023-11 | 10.1016/j.envint.2023.108268 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | ||
| ○ | ○ | Article | PESA R-CNN: Perihematomal Edema Guided Scale Adaptive R-CNN for Hemorrhage Segmentation | Intracranial hemorrhage (ICH) is a type of stroke with a high mortality rate and failing to localize even minor ICH can put a patient's life at risk. However, its patterns are diverse in shapes and sizes and, sometimes, even hard to recognize its existence. Therefore, it is challenging to accurately detect and localize diverse ICH patterns. In this article, we propose a novel Perihematomal Edema Guided Scale Adaptive R-CNN (PESA R-CNN) for accurate segmentation of various size hemorrhages with the goal of minimizing missed hemorrhage regions. In our approach, we design a Center Surround Difference U-Net (CSD U-Net) to incorporate Perihematomal Edema (PHE) for more accurate Region of Interest (RoI) generation. We trained CSD U-Net to predict PHE and hemorrhage regions as targets in a weakly supervised manner and utilized its prediction results to generate RoI. By including more informative features of PHE around hemorrhage, this enhanced RoI generation allows a model to reduce the false-negative rate. Furthermore, these expanded RoIs are aligned with the Scale Adaptive RoI Align (SARA) module based on their size to prevent the loss of fine-scale information and small hemorrhage patterns. Each scale adaptively aligned RoI is processed with the corresponding separate segmentation network of Multi-Scale Segmentation Network (MSSN), which integrates the results from each scale's segmentation network. In experiments, our model shows significant improvement on dice coefficient (0.697) and Hausdorff distance (12.918), compared to all other segmentation models. It also minimizes the number of missing small hemorrhage regions and enhances overall segmentation performance on diverse ICH patterns. | Chang, Joonho; Choi, Inchul; Lee, Minho | Kyungpook Natl Univ, Sch Artificial Intelligence, Daegu 41566, South Korea; NEOALI, Daegu, South Korea | ; Lee, Min-Ho/ABE-5735-2021 | 57959597500; 57212005248; 57191730119 | joonnozx@gmail.com;sharpic77@gmail.com;mholee@gmail.com; | IEEE JOURNAL OF BIOMEDICAL AND HEALTH INFORMATICS | IEEE J BIOMED HEALTH | 2168-2194 | 2168-2208 | 27 | 1 | SCIE | COMPUTER SCIENCE, INFORMATION SYSTEMS;COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS;MATHEMATICAL & COMPUTATIONAL BIOLOGY;MEDICAL INFORMATICS | 2023 | 6.7 | 5.7 | 0.78 | 2025-06-25 | 3 | 6 | Hemorrhaging; Image segmentation; Feature extraction; Computed tomography; Lesions; Adaptation models; Semantics; Convolutional neural network; intracranial hemorrhage; instance segmentation; perihematomal edema; small object segmentation | INTRACEREBRAL HEMORRHAGE; NATURAL-HISTORY; INJURY; ATTENTION; NETWORK | Convolutional neural network; instance segmentation; intracranial hemorrhage; perihematomal edema; small object segmentation | Edema; Hemorrhage; Humans; Image Processing, Computer-Assisted; Motivation; Computerized tomography; Neural networks; Semantic Segmentation; Adaptation models; Computed tomography; Convolutional neural network; Features extraction; Hemorrhaging; Images segmentations; Instance segmentation; Intracranial hemorrhages; Lesion; Objects segmentation; Perihematomal edema; Small object segmentation; Small objects; algorithm; Article; artificial neural network; brain hemorrhage; cellular neural network; edema; entropy; feature extraction; feature learning (machine learning); human; image segmentation; mortality; mortality rate; multi scale segmentation network; perihematomal edema; perihematomal edema guided scale adaptive R convolutional neural network; risk factor; bleeding; image processing; motivation; procedures; Semantics | English | 2023 | 2023-01 | 10.1109/jbhi.2022.3220820 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | |
| ○ | ○ | Article | Phylodynamic analysis revealed that human mobility and vaccination were correlated to the local spread of SARS-CoV-2 in Republic of Korea | Following the global emergence of the SARS-CoV-2 Alpha variant of concern (VOC) in 2020, the Delta variant triggered another wave in 2021. The AY.69 lineage, a Delta VOC, was particularly prevalent in Republic of Korea (South Korea) from May 2021 to January 2022, despite the synchronized implementation of vaccination programmes and non-pharmaceutical interventions (NPIs) such as social distancing. In this study, we used phylogeographic analysis combined with a generalized linear model (GLM) to examine the impact of human movement and vaccination on viral transmission. Our findings indicated that transmission primarily originated in South Korea's metropolitan areas, and a positive correlation was observed between total human mobility (tracked by GPS on mobile phones and estimated through credit card consumption) and viral spread. The phylodynamic analysis further revealed that non-vaccinated individuals were the primary transmitters of the virus during the study period, even though vaccination programmes had commenced three months prior to the AY.69 outbreak. Our study emphasizes the need to focus on controlling SARS-CoV-2 transmission in metropolitan regions and among unvaccinated populations. Furthermore, the positive correlation between mobility data and viral dissemination could contribute to the development of more accurate predictive models for local spread of pandemics. | Lee, Sangyi; Lee, Dong-Wook; Kim, Jeong-Min; Kim, Da-Won; Kim, Ji-Yun; Kim, Jeong-Ah; Kim, Il-Hwan; Rhee, Jee Eun; Min, Kyung-duk; Cho, Sung-il; Kim, Eun-Jin; Kwon, Jung-Hoon | Seoul Natl Univ, Grad Sch Publ Hlth, Dept Publ Hlth Sci, Seoul, South Korea; Kyungpook Natl Univ, Coll Vet Med, Daegu, South Korea; Korea Dis Control & Prevent Agcy, Bur Infect Dis Diag Control, Div Emerging Infect Dis, Cheongju, South Korea; Chungbuk Natl Univ, Coll Vet Med, Cheongju, South Korea; Korea Dis Control & Prevent Agcy, Bur Infect Dis Diag Control, Div Emerging Infect Dis, Cheongju 28159, South Korea; Kyungpook Natl Univ, Coll Vet Med, Daegu 41566, South Korea | 26643496800; 57711484300; 57203325163; 57299949900; 57299583700; 57365772200; 57207979541; 7202839819; 57218662067; 56812499700; 57225870516; 55559800200 | ekim@korea.kr;Junghoon.kwon@knu.ac.kr; | EMERGING MICROBES & INFECTIONS | EMERG MICROBES INFEC | 2222-1751 | 12 | 2 | SCIE | IMMUNOLOGY;INFECTIOUS DISEASES;MICROBIOLOGY | 2023 | 8.4 | 5.7 | 0.19 | 2025-06-25 | 1 | 1 | SARS-CoV-2; viral transmission; phylodynamics; vaccination; human mobility | human mobility; phylodynamics; SARS-CoV-2; vaccination; viral transmission | COVID-19; Humans; Republic of Korea; SARS-CoV-2; SARS-CoV-2 variants; Vaccination; SARS-CoV-2 vaccine; Article; coronavirus disease 2019; correlation analysis; generalized linear model; human; major clinical study; nonhuman; pandemic; phylodynamics; phylogeography; predictive model; SARS-CoV-2 AY.69; Severe acute respiratory syndrome coronavirus 2; South Korea; statistical model; vaccination; virus transmission; coronavirus disease 2019; genetics; Severe acute respiratory syndrome coronavirus 2; South Korea; vaccination | English | 2023 | 2023-12-08 | 10.1080/22221751.2023.2228934 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | ||||
| ○ | Article | Poracle: Testing Patches under Preservation Conditions to Combat the Overfitting Problem of Program Repair | To date, the users of test-driven program repair tools suffer from the overfitting problem; a generated patch may pass all available tests without being correct. In the existing work, users are treated as merely passive consumers of the tests. However, what if they are willing to modify the test to better assess the patches obtained from a repair tool? In this work, we propose a novel semi-automatic patch-classification methodology named Poracle. Our key contributions are three-fold. First, we design a novel lightweight specification method that reuses the existing test. Specifically, the users extend the existing failing test with a preservation condition-the condition under which the patched and pre-patched versions should produce the same output. Second, we develop a fuzzer that performs differential fuzzing with a test containing a preservation condition. Once we find an input that satisfies a specified preservation condition but produces different outputs between the patched and pre-patched versions, we classify the patch as incorrect with high confidence. We show that our approach is more effective than the four state-of-the-art patch classification approaches. Last, we show through a user study that the users find our semi-automatic patch assessment method more effective and preferable than the manual assessment. © 2023 Copyright held by the owner/author(s). | Ismayilzada, Elkhan; Ur Rahman, Md Mazba; Kim, Dongsun; Yi, Jooyong | Department of Computer Science and Engineering, Ulsan National Institute of Science and Technology, 50 UNIST-gil, Ulsan, 44919, South Korea; Department of Computer Science and Engineering, Ulsan National Institute of Science and Technology, 50 UNIST-gil, Ulsan, 44919, South Korea; Kyungpook National University, Daegu, South Korea; Department of Computer Science and Engineering, Ulsan National Institute of Science and Technology, 50 UNIST-gil, Ulsan, 44919, South Korea | 57223725060; 58847694000; 55742964600; 58298005800 | ACM Transactions on Software Engineering and Methodology | ACM T SOFTW ENG METH | 1049-331X | 1557-7392 | 33 | 2 | SCIE | COMPUTER SCIENCE, SOFTWARE ENGINEERING | 2023 | 6.6 | 5.7 | 0.41 | 2025-06-25 | 4 | Automated program repair; overfitting problem; patch classification; patch validation; preservation condition | Automation; Software testing; Automated program repair; Classification methodologies; Over fitting problem; Patch classification; Patch validation; Preservation condition; Repair tools; Reuse; Semi-automatics; Three folds; Repair | English | Final | 2023 | 10.1145/3625293 | 바로가기 | 바로가기 | 바로가기 | ||||||||
| ○ | ○ | Article | Reliable Fix Patterns Inferred from Static Checkers for Automated Program Repair | Fix pattern-based patch generation is a promising direction in automated program repair (APR). Notably, it has been demonstrated to produce more acceptable and correct patches than the patches obtained with mutation operators through genetic programming. The performance of pattern-based APR systems, however, depends on the fix ingredients mined from fix changes in development histories. Unfortunately, collecting a reliable set of bug fixes in repositories can be challenging. In this article, we propose investigating the possibility in an APR scenario of leveraging fix patterns inferred from code changes that address violations detected by static analysis tools. To that end, we build a fix pattern-based APR tool, AVATAR, which exploits fix patterns of static analysis violations as ingredients for the patch generation of repairing semantic bugs. Evaluated on four benchmarks (i.e., Defects4J, Bugs.jar, BEARS, and QuixBugs), AVATAR presents the potential feasibility of fixing semantic bugs with the fix patterns inferred from the patches for fixing static analysis violations and can correctly fix 26 semantic bugs when Avatar is implemented with the normal program repair pipeline. We also find that Avatar achieves performance metrics that are comparable to that of the closely related approaches in the literature. Compared with CoCoNut, AVATAR can fix 18 new bugs in Defects4J and 3 new bugs in QuixBugs. When compared with HDRepair, JAID, and SketchFix, Avatar can newly fix 14 Defects4J bugs. In terms of the number of correctly fixed bugs, Avatar is also comparable to the program repair tools with the normal fault localization setting and presents better performance than most program repair tools. These results imply that Avatar is complementary to current program repair approaches. We further uncover that AVATAR can present different bug-fixing performances when it is configured with different fault localization tools, and the stack trace information from the failed executions of test cases can be exploited to improve the bug-fixing performance of AVATAR by fixing more bugs with fewer generated patch candidates. Overall, our study highlights the relevance of static bug-finding tools as indirect contributors of fix ingredients for addressing code defects identified with functional test cases (i.e., dynamic information). | Liu, Kui; Zhang, Jingtang; Li, Li; Koyuncu, Anil; Kim, Dongsun; Ge, Chunpeng; Liu, Zhe; Klein, Jacques; Bissyande, Tegawende F. | Nanjing Univ Aeronaut & Astronaut, Nanjing, Peoples R China; Beihang Univ, Sch Software, Beijing, Peoples R China; Sabanci Univ, Istanbul, Turkiye; Kyungpook Natl Univ, Daegu, South Korea; Shandong Univ, Sch Software, Jinan, Peoples R China; Univ Luxembourg, Esch Sur Alzette, Luxembourg | ; LIU, zhe/HGD-6875-2022; Li, Li/AAR-3316-2020; Koyuncu, Anil/AAA-5382-2021; Kim, Dongsun/B-4856-2015 | 57203748234; 57423726800; 58855527300; 57195259860; 55742964600; 36571549800; 56844033500; 56282553000; 36080354200 | kui.liu@nuaa.edu.cn;jingtangzhang@nuaa.edu.cn;lilicoding@ieee.org;anil.koyuncu@sabanciuniv.edu;darkrsw@knu.ac.kr;gecp@nuaa.edu.cn;zhe.liu@nuaa.edu.cn;jacques.klein@uni.lu;tegawende.bissyande@uni.lu; | ACM TRANSACTIONS ON SOFTWARE ENGINEERING AND METHODOLOGY | ACM T SOFTW ENG METH | 1049-331X | 1557-7392 | 32 | 4 | SCIE | COMPUTER SCIENCE, SOFTWARE ENGINEERING | 2023 | 6.6 | 5.7 | 0.72 | 2025-06-25 | 5 | 7 | Automated program repair; static analysis; fix pattern | CODE | Automated program repair; fix pattern; static analysis | Automation; Defects; Genetic algorithms; Genetic programming; Program debugging; Repair; Semantics; Automated program repair; Bug-fixing; Development history; Fault localization; Fix pattern; Mutation operators; Performance; Repair system; Repair tools; Test case; Static analysis | English | 2023 | 2023-07 | 10.1145/3579637 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | |
| ○ | ○ | Review | A comprehensive review on polylactic acid (PLA)-Synthesis, processing and application in food packaging | Plastics play an essential role in food packaging; their primary function is to preserve the nature of the food, ensure adequate shelf life and ensure food safety. Plastics are being produced on a global scale in excess of 320 million tonnes annually, with demand rising to reflect the material in wide range of applications. Nowadays, the packaging industry is a significant consumer of synthetic plastic made from fossil fuels. Petrochemical-based plastics are regarded as the preferred material for packaging. Nonetheless, using these plastics in large quantities results in a long-standing environment. Environmental pollution and the depletion of fossil fuels have prompted researchers and manufacturers to develop eco-friendly biodegradable polymers to replace petrochemical-based polymers. As a result, the production of eco-friendly food packaging material has sparked increased interest as a viable alternative to petrochemical-based polymers. Polylactic acid (PLA) is one of the compostable thermoplastic biopolymers that is biodegradable and renewable in nature. High-molecular-weight PLA can be used to produce fibres, flexible, non-wovens, hard and durable materials (100,000 Da or even higher).The chapter focuses on food packaging techniques, food industry waste, biopolymers, their classification, PLA synthesis, the importance of PLA properties for food packaging, and technologies used to process PLA in food packaging. | Swetha, T. Angelin; Bora, Abhispa; Mohanrasu, K.; Balaji, P.; Raja, Rathinam; Ponnuchamy, Kumar; Muthusamy, Govarthanan; Arun, A. | Alagappa Univ, Dept Microbiol, Bioenergy & Bioremediat Lab, Karaikkudi 630003, Tamil Nadu, India; MGR Coll, PG & Res Ctr Biotechnol, Hosur, Tamil Nadu, India; Sree Balaji Med Coll & Hosp SBMCH, Bharath Inst Higher Educ & Res BIHER, Res & Dev Wing, Chennai 600044, India; Alagappa Univ, Dept Anim Hlth & Management, Karaikkudi 630003, Tamil Nadu, India; Kyungpook Natl Univ, Dept Environm Engn, Daegu 41566, South Korea; Saveetha Inst Med & Tech Sci, Saveetha Dent Coll & Hosp, Dept Biomat, Chennai 600077, India | Govarthanan, Muthusamy/C-1491-2014; Arun, A./F-8986-2019; Paulraj, Balaji/G-3392-2012; Muthusamy, Govarthanan/C-1491-2014; Bora, Abhispa/LWI-6840-2024; Ponnuchamy, Kumar/D-3470-2013 | 57831801800; 57210557182; 57202300780; 56644888000; 16029399900; 55173720800; 54881927600; 57078221100 | arunalacha@gmail.com; | INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES | INT J BIOL MACROMOL | 0141-8130 | 1879-0003 | 234 | SCIE | BIOCHEMISTRY & MOLECULAR BIOLOGY;CHEMISTRY, APPLIED;POLYMER SCIENCE | 2023 | 7.7 | 5.8 | 16.62 | 2025-06-25 | 288 | 310 | Food packaging; Biopolymers; Polylactic acid (PLA); Processing PLA | LACTIC-ACID; POLY(LACTIC ACID); MECHANICAL-PROPERTIES; POLY(L-LACTIC ACID); POLYCONDENSATION; PLASTICS; CRYSTALLIZATION; NANOCOMPOSITES; FERMENTATION; DEGRADATION | Biopolymers; Food packaging; Polylactic acid (PLA); Processing PLA | Biopolymers; Food Packaging; Plastics; Polyesters; Polymers; Biodegradable polymers; Biomolecules; Elastomers; Environmental protection; Fossil fuels; Packaging; Packaging machines; Packaging materials; Plastic products; Polyesters; biodegradable plastic; biopolymer; polylactic acid; biopolymer; plastic; polyester; polylactide; polymer; Eco-friendly; Food packaging; Food-safety; Global scale; Packaging industry; Petrochemical based polymers; Polylactic acid; Primary functions; Processing polylactic acid; Shelf life; bioaccumulation; biodegradability; blown film extrusion; cast film extrusion; chemical reaction; drying; extrusion blow molding; fermentation; food industry; food packaging; food preservation; food quality; injection blow molding; injection molding; injection stretch blow molding; microbial fermentation; oxygen barrier capacity; permeability; physical parameters; polycondensation; polymer production; polymerization; processing; Review; ring opening polymerization; synthesis; thermal processability; thermoforming; transparency; ultraviolet radiation resistance; waste management; water-resistance capacity; procedures; Biopolymers | English | 2023 | 2023-04-15 | 10.1016/j.ijbiomac.2023.123715 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | ||
| ○ | ○ | Article | A newly isolated Bacillus pumilus strain SH-9 modulates response to drought stress in soybean via endogenous phytohormones and gene expression (Daegu, South Korea) | Drought stress hampers plant growth and productivity. Some microorganisms mitigate stress in plants; however, the molecular mechanism by which they interact with plants in mitigating stress remains unknown. This study aimed to determine the mechanism by which plant growth-promoting rhizobacteria modulate drought stress in soybean. Results indicated that B. pumilus SH-9 (SH-9) produced indole acetic acid and siderophore, and had capacity for phosphate solubilization. The test for polyethylene glycol 6000 (PEG) tolerance, showed that SH-9 could withstand high PEG concentration (up to 30 %). The isolate was identified a B. pumilus strain using a 16 s ribosomal DNA gene sequence. Inoculation of soybeans with SH-9 enhanced soybean plant growth and biomass by 20 %, even under high drought stress. This was due to a reduction of the endogenous phytohormone (abscisic acid) and upregulation of the antioxidant defense system (SOD, POD, APX, and GSH) by SH-9. Furthermore, the transcription factors GmDREB2, GmbZIP1, and GmNCED3 were involved. Inoculation with SH-9 also improved physio-morphological characteristics such as biomass, chlorophyll, seedling length, and relative water contents in the stressed plant. Overall, the findings of this study indicated that SH-9 enhances plant growth by promoting phosphate solubilization, siderophore, and exopolysaccharides. We, therefore, conclude that SH-9 is a drought-tolerant variant that can improve plant growth even under drought stress via modulation of expression of the phytohormone gene, and antioxidant profile. | Shaffique, Shifa; Imran, Muhammad; Adhikari, Arjun; Khan, Muhammad Aaqil; Rahim, Waqas; Alomrani, Sarah Owdah; Yun, Byung- Wook; Kang, Sang-Mo; Lee, In -Jung | Kyungpook Natl Univ, Dept Appl Biosci, Daegu, South Korea; Natl Inst Agr Sci, Rural Dev Adm, Biosafety Div, Jeonju 54874, South Korea; Qurtuba Univ Sci & Informat Technol, Dept Chem & Life Sci, Peshawar, Pakistan; Kyungpook Natl Univ, Coll Agr & Life Sci, Sch Appl Biosci, Dept Plant Biosci, Daegu 41566, South Korea; Najran Univ, Coll Sci & Arts, Dept Biol, Najran 66252, Saudi Arabia | Khan, Muhammad/ABB-9797-2021; Lee, In-Jung/GLS-0432-2022; Imran, Muhammad/AEK-4305-2022; Alomrani, Sarah/JRX-7974-2023; Adhikari, Arjun/JCO-3306-2023; shaffique, shifa/KUC-7102-2024; Kang, Sang-Mo/MBG-7823-2025 | 57203898867; 58282433800; 57195601415; 57188585606; 57431774700; 57195378269; 8245123600; 56189696900; 16425830900 | kmoya@hanmail.net;ijlee@knu.ac.kr; | PLANT STRESS | PLANT STRESS | 2667-064X | 10 | ESCI | PLANT SCIENCES | 2023 | 6.8 | 5.8 | 3.86 | 2025-06-25 | 18 | 19 | Bacteria; Drought stress; Gene expression profile; Plant productivity; Bacillus spp.; Soybean | ANTIOXIDANT ACTIVITIES; CROP PLANTS; ACCUMULATION | Bacillus spp.; Bacteria; Drought stress; Gene expression profile; Plant productivity; Soybean | English | 2023 | 2023-12 | 10.1016/j.stress.2023.100279 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | ||||
| ○ | ○ | Review | A review on biodegradable polylactic acid (PLA) production from fermentative food waste- Its applications and degradation | Due to its low carbon footprint and environmental friendliness, polylactic acid (PLA) is one of the most widely produced bioplastics in the world. Manufacturing attempts to partially replace petrochemical plastics with PLA are growing year over year. Although this polymer is typically used in high-end applications, its use will increase only if it can be produced at the lowest cost. As a result, food wastes rich in carbohydrates can be used as the primary raw material for the production of PLA. Lactic acid (LA) is typically produced through biological fermentation, but a suitable downstream separation process with low production costs and high product purity is also essential. The global PLA market has been steadily expanding with the increased demand, and PLA has now become the most widely used biopolymer across a range of industries, including packaging, agriculture, and transportation. Therefore, the necessity for an efficient manufacturing method with reduced production costs and a vital separation method is paramount. The primary goal of this study is to examine the various methods of lactic acid synthesis, together with their characteristics and the metabolic processes involved in producing lactic acid from food waste. In addition, the synthesis of PLA, possible difficulties in its biodegradation, and its application in diverse industries have also been discussed. | Swetha, T. Angelin; Ananthi, V.; Bora, Abhispa; Sengottuvelan, Nallathambi; Ponnuchamy, Kumar; Muthusamy, Govarthanan; Arun, A. | Alagappa Univ, Dept Microbiol, Bioenergy & Bioremediat Lab, Karaikkudi 630003, Tamil Nadu, India; Madurai Kamaraj Univ, Dept Mol Biol, Madurai, Tamil Nadu, India; Alagappa Univ, Dept Ind Chem, Karaikkudi 630003, Tamil Nadu, India; Alagappa Univ, Dept Anim Hlth & Management, Karaikkudi 630003, Tamil Nadu, India; Kyungpook Natl Univ, Dept Environm Engn, Daegu 41566, South Korea; Saveetha Dent Coll & Hosp, Saveetha Inst Med & Tech Sci, Dept Biomat, Chennai 600077, India | ; Arun, A./F-8986-2019; Bora, Abhispa/LWI-6840-2024; Sengottuvelan, N/AAF-2572-2019; Govarthanan, Muthusamy/C-1491-2014; Muthusamy, Govarthanan/C-1491-2014; Ponnuchamy, Kumar/D-3470-2013; Veleeswaran, Ananthi/AAA-2152-2021 | 57831801800; 57078968600; 57210557182; 7801573781; 55173720800; 54881927600; 57078221100 | arunalacha@gmail.com; | INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES | INT J BIOL MACROMOL | 0141-8130 | 1879-0003 | 234 | SCIE | BIOCHEMISTRY & MOLECULAR BIOLOGY;CHEMISTRY, APPLIED;POLYMER SCIENCE | 2023 | 7.7 | 5.8 | 19.1 | 2025-06-25 | 144 | 157 | Bioplastic; Degradation; Food waste; Lactic acid; Polylactic acid | L-LACTIC ACID; RING-OPENING POLYMERIZATION; POLY(LACTIC ACID); POLY(L-LACTIDE); POLYMERS; PURIFICATION; POLYESTERS; TEMPERATURE; EXTRACTION; SEPARATION | Bioplastic; Degradation; Food waste; Lactic acid; Polylactic acid | Biopolymers; Fermentation; Food; Lactic Acid; Polyesters; Refuse Disposal; Biodegradation; Biopolymers; Carbon footprint; Costs; Polyesters; Reinforced plastics; carbohydrate; lactic acid; petrochemical agent; polylactic acid; biopolymer; polyester; polylactide; Acid production; Bio-plastics; Downstream separation; Environmental friendliness; Food waste; ITS applications; Low carbon; Low-costs; Polylactic acid; Production cost; agricultural procedures; Article; biodegradability; biodegradation; carbon footprint; cost control; environmental impact; fermentation; food packaging; food waste; manufacturing; material state; metabolic parameters; separation technique; synthesis; traffic and transport; fermentation; food; metabolism; waste disposal; Lactic acid | English | 2023 | 2023-04-15 | 10.1016/j.ijbiomac.2023.123703 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | ||
| ○ | ○ | Article | Cnidium officinale polysaccharide enhanced RAW 264.7 cells activation and NK-92 cells cytotoxicity against colon cancer via NF-κB and MAPKs signaling pathways | In this study, Cnidium officinale-derived polysaccharides were isolated and investigated for their immune enhancing and anticancer activities. The isolated crude and its fractions, such as F1 and F2, contain carbohydrates (51.3-63.1%), sulfates (5.4-5.8%), proteins (1.5-7.1%), and uronic acids (2.1-26.9%). The molecular weight (Mw) of the polysaccharides ranged from 59.9 to 429.0 x 103 g/mol. The immunostimulatory activity of the polysaccharides was tested on RAW 264.7 cells, and the results showed that the F2 treatment notably enhanced pro-inflammatory activity in RAW 264.7 cells by increasing NO production and the expression of various cytokines. Furthermore, the influence of polysaccharide treatment on natural killer cells (NK-92) anticancer activities was investigated using a colon cancer cell line (HCT-116). Crude polysaccharide and its fractions showed no direct cytotoxicity to NK-92 and HCT-116 cells. However, the treatment of F2 showed an enhancement of NK-92 cells cytotoxicity against HCT-116 cells by upregulating the mRNA expression of IFN-gamma, TNF-alpha, NKGp44, and granzyme-B. The western blot results showed that the induced RAW 264.7 cells activation and NK92 cells cytotoxicity occur via NF-kappa B and MAPK signaling pathways. Overall, C. officinale-derived polysaccharides show potential as immunotherapeutic agents capable of enhancing pro-inflammatory macrophage signaling and activating NK-92 cells; thus, they could be useful for biomedical applications. | Yang, Kwan Mo; Ge, Yunfei; Palanisamy, Subramanian; Zhang, Yutong; Kou, Fang; Yelithao, Khamphone; Jeong, Duyun; You, Sangguan; Lim, Seok-Byung | Univ Ulsan, Coll Med, Gangneung Asan Hosp, Dept Surg, Kangnung, South Korea; Gangneung Wonju Natl Univ, Dept Marine Food Sci & Technol, 120 Gangneung, Gangwon 210702, South Korea; Gangneung Wonju Natl Univ, East Coast Life Sci Inst, 120 Gangneung, Kangnung 210702, South Korea; Kyungpook Natl Univ, Dept Food & Food Serv Ind, Sangju 37224, South Korea; Asan Med Ctr, Colon & Rectal Surg, Seoul 05505, South Korea; Univ Ulsan, Coll Med, Seoul 05505, South Korea | Subramanian, Palanisamy/AAQ-8984-2020 | 56819547700; 57196353755; 55293276900; 57203831232; 57195137239; 57191665586; 57203059723; 7201516866; 7404081178 | umyousg@gwnu.ac.kr;sblim@amc.seoul.kr; | INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES | INT J BIOL MACROMOL | 0141-8130 | 1879-0003 | 253 | SCIE | BIOCHEMISTRY & MOLECULAR BIOLOGY;CHEMISTRY, APPLIED;POLYMER SCIENCE | 2023 | 7.7 | 5.8 | 1.34 | 2025-06-25 | 11 | 13 | Cnidium officinale; Polysaccharides; Immunostimulatory activity; Anticancer activity | STRUCTURAL-CHARACTERIZATION; INFLAMMATORY CYTOKINES; OXIDATIVE DAMAGE; NITRIC-OXIDE; ANTIOXIDANT; RAW264.7; MACROPHAGES; INHIBITION; IMMUNITY; RELEASE | Anticancer activity; Cnidium officinale; Immunostimulatory activity; Polysaccharides | Animals; Cnidium; Colonic Neoplasms; Humans; Mice; NF-kappa B; Polysaccharides; RAW 264.7 Cells; Signal Transduction; Cell culture; Cell signaling; Cells; Chemical activation; Cytotoxicity; Diseases; Medical applications; Signaling; Sulfur compounds; Cnidium officinale polysaccharide; gamma interferon; granzyme B; immunoglobulin enhancer binding protein; interleukin 10; interleukin 1beta; interleukin 6; messenger RNA; mitogen activated protein kinase; natural cytotoxicity triggering receptor 2; nitric oxide; polysaccharide; tumor necrosis factor; unclassified drug; immunoglobulin enhancer binding protein; polysaccharide; Anticancer activities; Cell activation; Cnidium officinale; Colon cancer; Cytokines; Immunostimulatory activities; Inflammatory activity; MAPK signalling; Signalling pathways; Uronic acids; antineoplastic activity; Article; cell proliferation; chemical composition; Cnidium; Cnidium officinale; colon cancer; controlled study; drug cytotoxicity; drug isolation; gene expression; HCT 116 cell line; immunostimulation; macrophage activation; MAPK signaling; molecular weight; natural killer cell; NF kB signaling; NK-92 cell line; protein expression; RAW 264.7 cell line; upregulation; animal; colon tumor; human; metabolism; mouse; signal transduction; Polysaccharides | English | 2023 | 2023-12-31 | 10.1016/j.ijbiomac.2023.127605 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | ||
| ○ | ○ | Article | Cryo-EM structure of bifunctional malonyl-CoA reductase from Chloroflexus aurantiacus reveals a dynamic domain movement for high enzymatic activity | The platform chemical 3-hydroxypropionic acid is used to synthesize various valuable materials, including bioplastics. Bifunctional malonyl-CoA reductase is a key enzyme in 3-hydroxypropionic acid biosynthesis as it catalyzes the two-step reduction of malonyl-CoA to malonate semialdehyde to 3-hydroxypropionic acid. Here, we report the cryo-EM structure of a full-length malonyl-CoA reductase protein from Chloroflexus aurantiacus (CaMCRFull). The EM model of CaMCRFull reveals a tandem helix architecture comprising an N-terminal (CaMCRND) and a C-terminal (CaMCRCD) domain. The CaMCRFull model also revealed that the enzyme undergoes a dynamic domain movement between CaMCRND and CaMCRCD due to the presence of a flexible linker between these two domains. Increasing the flexibility and extension of the linker resulted in a twofold increase in enzyme activity, indicating that for CaMCR, domain movement is crucial for high enzyme activity. We also describe the structural features of CaMCRND and CaMCRCD. This study reveals the protein structures underlying the molecular mechanism of CaMCRFull and thereby provides valuable information for future enzyme engineering to improve the productivity of 3-hydroxypropionic acid. | Ahn, Jae-Woo; Kim, Sangwoo; Hong, Jiyeon; Kim, Kyung-Jin | Pohang Univ Sci & Technol, Postech Biotech Ctr, 77 Cheongam Ro, Pohang 37673, Gyeongbuk, South Korea; Pohang Univ Sci & Technol, Ctr Biomol Capture Technol, Bio Open Innovat Ctr, 47 Cheongam Ro, Pohang 37673, Gyeongbuk, South Korea; Kyungpook Natl Univ, Sch Life Sci, BK21 FOUR KNU Creat Biores Grp, Daegu 41566, South Korea; Kyungpook Natl Univ, KNU Inst Microorganisms, Daehak Ro 80, Daegu 41566, South Korea; Kyungpook Natl Univ, Sch Life Sci Struct & Mol Biol Lab, Room 619,Integrated Nat Sci Bldg,Daehak Ro 80, Daegu, South Korea | Kim, Kyung-Jin/MVY-3405-2025 | 57191577996; 59237076700; 57205354591; 55510867400 | kkim@knu.ac.kr; | INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES | INT J BIOL MACROMOL | 0141-8130 | 1879-0003 | 242 | SCIE | BIOCHEMISTRY & MOLECULAR BIOLOGY;CHEMISTRY, APPLIED;POLYMER SCIENCE | 2023 | 7.7 | 5.8 | 0.24 | 2025-06-25 | 3 | 2 | 3-hydroxypropionic acid; Bifunctional malonyl-CoA reductase; Chloroflexus aurantiacus; Cryo-EM model; Crystal structure; Domain movement | 3-HYDROXYPROPIONIC ACID; PATHWAY; OPTIMIZATION | 3-hydroxypropionic acid; Bifunctional malonyl-CoA reductase; Chloroflexus aurantiacus; Cryo-EM model; Crystal structure; Domain movement | Chloroflexus aurantiacus; Cryoelectron Microscopy; Oxidoreductases; bacterial enzyme; malonyl coenzyme A reductase; unclassified drug; hydracrylic acid; malonyl-Coa reductase; oxidoreductase; amino terminal sequence; Article; binding site; carboxy terminal sequence; catalysis; Chloroflexus aurantiacus; cryoelectron microscopy; crystal structure; enzyme activity; enzyme conformation; enzyme structure; nonhuman; protein expression; Chloroflexus aurantiacus; cryoelectron microscopy; metabolism | English | 2023 | 2023-07-01 | 10.1016/j.ijbiomac.2023.124676 | 바로가기 | 바로가기 | 바로가기 | 바로가기 |
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