662 results on '"HYUN-WOO KIM"'
Search Results
2. Effective descriptor extraction strategies for correspondence matching in coronary angiography images
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Hyun-Woo Kim, Soon-Cheol Noh, Sun-Hwa Kim, Hyun-Wook Chu, Chung-Hwan Jung, and Si-Hyuck Kang
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Medicine ,Science - Abstract
Abstract The importance of 3D reconstruction of coronary arteries using multiple coronary angiography (CAG) images has been increasingly recognized in the field of cardiovascular disease management. This process relies on the camera matrix’s optimization, needing correspondence info for identical point positions across two images. Therefore, an automatic method for determining correspondence between two CAG images is highly desirable. Despite this need, there is a paucity of research focusing on image matching in the CAG images. Additionally, standard deep learning image matching techniques often degrade due to unique features and noise in CAG images. This study aims to fill this gap by applying a deep learning-based image matching method specifically tailored for the CAG images. We have improved the structure of our point detector and redesigned loss function to better handle sparse labeling and indistinct local features specific to CAG images. Our method include changes to training loss and introduction of a multi-head descriptor structure leading to an approximate 6% improvement. We anticipate that our work will provide valuable insights into adapting techniques from general domains to more specialized ones like medical imaging and serve as an improved benchmark for future endeavors in X-ray image-based correspondence matching.
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- 2024
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3. Clinical features and outcomes of posterior reversible encephalopathy syndrome after heart transplantation: a case series
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Ji Hoon Lim, Seok Hyun Kim, Cheolyong Mo, Hyun-Woo Kim, and Soo Yong Lee
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posterior reversible encephalopathy syndrome ,calcineurin inhibitors ,heart transplantation ,case report ,Specialties of internal medicine ,RC581-951 ,Surgery ,RD1-811 - Abstract
Posterior reversible encephalopathy syndrome (PRES) is a rare neurological disease that may be associated with hypertension, autoregulatory failure, and the use of calcineurin inhibitors following heart transplantation (HT). In this article, we present a case series of PRES, discussing its potential causes and management strategies. Among the 126 HT recipients at our hospital, four were diagnosed with PRES. Three of these patients developed PRES within 7 days after HT. Prior to the onset of PRES, all patients experienced sustained hypertension, and strict blood pressure (BP) control was maintained. Three of the four patients recovered without PRES recurrence, while one patient died of sepsis after an episode of altered consciousness. Hypertension was observed in all patients prior to the onset of PRES, and the majority experienced symptom improvement with BP control. While most cases of PRES were reversible with conservative treatment, including the administration of antiepileptics, one irreversible case resulted in in-hospital mortality. Thus, PRES can have serious outcomes and is not invariably benign.
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- 2024
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4. Seasonal and Weekly Patterns of Korean Adolescents’ Web Search Activity on Insomnia: Retrospective Study
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Kwangyeol Baek, Jake Jeong, Hyun-Woo Kim, Dong-Hyeon Shin, Jiyoung Kim, Gha-Hyun Lee, and Jae Wook Cho
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Medicine - Abstract
BackgroundSleep deprivation in adolescents is a common but serious public health issue. Adolescents often have a progressive circadian delay and suffer from insufficient sleep during weekdays due to the school schedule. Temporal patterns in internet search activity data can provide relevant information for understanding the characteristic sleep problems of the adolescent population. ObjectiveWe aimed to reveal whether adolescents exhibit distinct temporal seasonal and weekly patterns in internet search activity on insomnia compared to adults. MethodsWe hypothesized that adolescents exhibit larger variations in the internet search volume for insomnia, particularly in association with the school schedule (e.g., academic vacations and weekends). We extracted the daily search volume for insomnia in South Korean adolescents (13-18 years old), adults (19-59 years old), and young adults (19-24 years old) during the years 2016-2019 using NAVER DataLab, the most popular search engine in South Korea. The daily search volume data for each group were normalized with the annual median of each group. The time series of the search volume was decomposed into slow fluctuation (over a year) and fast fluctuation (within a week) using fast Fourier transform. Next, we compared the normalized search volume across months in a year (slow fluctuation) and days in a week (fast fluctuation). ResultsIn the annual trend, 2-way ANOVA revealed a significant (group) × (month) interaction (P
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- 2024
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5. Fragile futures: Evaluating habitat and climate change response of hog badgers (Mustelidae: Arctonyx) in the conservation landscape of mainland Asia
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Imon Abedin, Tanoy Mukherjee, Ah Ran Kim, Soo Rin Lee, Hyun‐Woo Kim, and Shantanu Kundu
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conservation priorities ,global warming ,habitat suitability ,mainland Asia ,Mammalia ,species distribution model ,Ecology ,QH540-549.5 - Abstract
Abstract The small mammalian fauna plays pivotal roles in ecosystem dynamics and as crucial biodiversity indicators. However, recent research has raised concerns about the decline of mammalian species due to climate change. Consequently, significant attention is directed toward studying various big flagship mammalian species for conservation. However, small mammals such as the hog badgers (Mustelidae: Arctonyx) remain understudied regarding the impacts of climate change in Asia. The present study offers a comprehensive analysis of climate change effects on two mainland hog badger species, utilizing ensemble species distribution modeling. Findings reveal concerning outcomes, as only 52% of the IUCN extent is deemed suitable for the Great Hog Badger (Arctonyx collaris) and a mere 17% is ideal for the Northern Hog Badger (Arctonyx albogularis). Notably, projections suggest a potential reduction of over 26% in suitable areas for both species under future climate scenarios, with the most severe decline anticipated in the high‐emission scenario of SSP585. These declines translate into evident habitat fragmentation, particularly impacting A. collaris, whose patches shrink substantially, contrasting with the relatively stable patches of A. albogularis. However, despite their differences, niche overlap analysis reveals an intriguing increase in overlap between the two species, indicating potential ecological shifts. The study underscores the importance of integrating climate change and habitat fragmentation considerations into conservation strategies, urging a reassessment of the IUCN status of A. albogularis. The insights gained from this research are crucial for improving protection measures by ensuring adequate legal safeguards and maintaining ecological corridors between viable habitat patches, which are essential for the conservation of hog badgers across mainland Asia. Furthermore, emphasizing the urgency of proactive efforts, particularly in countries with suitable habitats can help safeguard these small mammalian species and their ecosystems from the detrimental impacts of climate change.
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- 2024
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6. Exploring the Smoking-Epilepsy Nexus: a systematic review and meta-analysis of observational studies
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Yerin Kang, Sieun Kim, Yunah Jung, Dai Sik Ko, Hyun-Woo Kim, Jung-Pil Yoon, Sunghwan Cho, Tae-Jin Song, Kihun Kim, Eunjeong Son, and Yun Hak Kim
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Smoking ,Nicotine ,Epilepsy ,Seizure ,Systematic review ,Meta-analysis ,Medicine - Abstract
Abstract Background Epilepsy, characterized by recurrent unprovoked seizures, poses significant challenges to affected individuals globally. While several established risk factors for epilepsy exist, the association with cigarette smoking remains debated. This study aims to conduct systematic review and meta-analysis to elucidate the potential association between smoking and the likelihood of epilepsy. Methods The search was performed on March 31st, 2023, using the Medline, Embase, Web of Science, Scopus, and ScienceDirect. We included cohort, cross-sectional, and case–control studies in our meta-analysis, conducting subgroup analyses based on smoking history, sex, and epilepsy type to yield specific insights. Results We identified 2550 studies, of which 17 studies were finally included in this study. The pooled odds ratio of epilepsy was 1.14 (0.96–1.36) in smokers compared to non-smokers. In current smokers compared to non-smokers, the odds ratio was 1.46 (1.13–1.89), while, in former smokers compared to non-smokers, the odds ratio was 1.14 (0.83–1.56). Conclusions While the overall association between smoking and epilepsy did not reach statistical significance, a notable association was found among current smokers. The study emphasizes the importance of smoking cessation as a potential preventive measure against epilepsy, especially given the proconvulsive effects of nicotine. Future research should address limitations and explore specific clinical scenarios to enhance our understanding of the complex relationship between cigarette use and epilepsy. Systematic review registration CRD42022342510.
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- 2024
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7. Exploring fish communities in the mud volcano polluted river using environmental DNA metabarcoding
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Firli Rahmah Primula Dewi, Hyun-Woo Kim, Ah Ran Kim, Soo Rin Lee, Amy Yee-Hui Then, Mochammad Zamroni, Flandrianto Sih Palimirmo, Henny Trie Wahyuni, and Muhammad Hilman Fu'adil Amin
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environmental DNA metabarcoding ,Fish communities ,Mud-volcano ,Pollution ,Environmental sciences ,GE1-350 - Abstract
In ecosystems subjected to environmental disturbances such as mud volcanoes, understanding the dynamics of fish communities is essential for ecological assessment and conservation. This study employs environmental DNA (eDNA) metabarcoding for the first time to explore fish communities within a challenging and unique environment—a mud volcano-polluted river. High-throughput sequencing was utilized to assess alpha and beta diversity, revealing distinct patterns in fish community composition in response to mud discharge activity. The results indicate that affected sites exhibit remarkably different communities during active and inactive mud discharge, with the impact extending downstream to the river mouth. Notably, the application of eDNA metabarcoding identified a vulnerable species, Rasbora lateristriata, emphasizing its utility in detecting high-risk species. Despite challenges in species identification and reference databases, the use of longer 16S rRNA fragments offered enhanced taxonomic resolution and interspecific sequence variation. This approach showcases the potential of eDNA metabarcoding in assessing fish diversity and community dynamics in polluted aquatic ecosystems, emphasizing its significance in biodiversity surveys and ecological monitoring. The study underscores the value of eDNA metabarcoding as an efficient and comprehensive tool for studying freshwater ecosystems and highlights the need for expanding reference databases to address genetic coverage gaps, particularly in less-studied environments.
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- 2024
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8. Analyzing microbial communities and metabolic functions in estuaries affected by human activity to uncover bioelectrochemical system potential
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Muhammad Hilman Fu'adil Amin, Hyun-Woo Kim, Kyunghoi Kim, Febri Eko Wahyudianto, Wahid Dianbudiyanto, and Nur Indradewi Oktavitri
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16S rDNA ,Estuaries ,Microbial communities ,Pollution ,Predictive metagenomic ,Renewable energy ,Environmental sciences ,GE1-350 - Abstract
In the context of bioelectrochemical systems (BES), a profound understanding of the taxonomic composition within indigenous microbial communities is crucial. Their metabolic versatility assumes a foundational role in dictating the functionality of BES, yielding diverse applications for bioenergy production and bioremediation in anthropogenically impacted estuaries. Employing high-throughput sequencing of the V3-V4 region of 16S rRNA and predictive metagenomic analyses of three different estuaries samples (eutrophicated urban reservoir, mud volcano impacted river, and its river mouth), this study delves into the intricate interplay between these communities and their metabolic functions in response to human-induced perturbations, with a specific focus on their applicability to BES. Our findings illuminate remarkable distinctions among the three samples, manifesting in variations in microbial composition and functional metabolic pathways within the respective ecosystems. The mud volcano-affected river, characterized by the highest microbial diversity, exhibited the most diverse array of functional metabolic processes, prominently dominated by chemoheterotrophy (67.43%). In contrast, the river mouth displayed a distinct penchant for autotrophy (33.33%). The eutrophicated urban reservoir showcased a balanced coexistence of chemoheterotrophy (41.18%) and autotrophy (35.29%). Regarding metabolic potential for BES application, most of metabolism potential were associated with anodic activity, while cathodic activity was restricted to autotrophy and its relatives. The results suggested that the microbial communities anthropogenically impacted estuaries were potentially used for anodic and cathodic reactions in BES as electrogens to generate bioelectricity and reduce of pollutants.
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- 2024
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9. Unraveling the unknown: Adaptive spatial planning to enhance climate resilience for the endangered Swamp Grass-babbler (Laticilla cinerascens) with habitat connectivity and complexity approach
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Imon Abedin, Tanoy Mukherjee, Hye-Eun Kang, Tae-Ho Yoon, Hyun-Woo Kim, and Shantanu Kundu
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Babblers ,Habitat loss ,Biological corridors ,Landscape fragmentation ,Northeast India ,Shape complexity ,Science (General) ,Q1-390 ,Social sciences (General) ,H1-99 - Abstract
The endangered and poorly known Swamp Grass-babbler, Laticilla cinerascens (Passeriformes: Pellorneidae), confronts critical threats and vulnerability due to its specific habitat requirements and restricted populations in the northeastern region of the Indian Subcontinent. This study investigates the distribution of the species, habitat quality, geometry and shape complexity of connectivity among the protected areas (PAs), and responses to climate change in Northeast India under different climate change pathways by utilizing ensemble distribution models, and ecological metrics. From the total distribution extent (1,42,000 km2), approximately 9366 km2 (6.59 %) is identified as the suitable habitat for this threatened species. Historically centered around Dibru Saikhowa National Park (DSNP), the species faced a drastic decline due to anthropogenic activities and alteration in land use and lover cover. The study also reveals a significant decline in suitable habitat for L. cinerascens in future climate scenarios, with alarming reductions under SSP126 (>10 % in the timeframe 2041–2060 and > 30 % from 2061 to 2080), SSP245 (>90 % in both time periods), and SSP585 (>90 % in both timeframes) from the present scenario. At present, DSNP has the most suitable habitat within the distribution range but is projected to decline (>90 %) under more severe climate change scenarios, as observed in other PAs. Landscape fragmentation analysis indicates a shift in habitat geometry, highlighting the intricate impact of climate change. It predicts a substantial 343 % increase (in the SSP126) in small habitat patches in the future. Connectivity analysis among PAs shows a significant shift, with a decline exceeding 20 %. The analysis of shape complexity and connectivity geometry reveals a significant increase of over 220 % in the fragmentation of connectivity among PAs between 2061 and 2080 under the SSP585 climate change scenario compared to the present conditions. The study underscores the urgent need for conservation actions, emphasizing the complex interplay of climate change, habitat suitability, and fragmentation. Prioritizing PAs with suitable habitats and assessing their connectivity is crucial. Adaptive management strategies are essential to address ongoing environmental changes and safeguard biodiversity. Future research in critical areas is needed to establish long-term monitoring programs to lead/extend effective conservation strategies.
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- 2024
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10. Mitochondrial DNA-based investigation of dead rorqual (Cetacea: Balaenopteridae) from the west coast of India
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Shantanu Kundu, Manokaran Kamalakannan, Dhriti Banerjee, Flandrianto Sih Palimirmo, Arif Wibowo, and Hyun-Woo Kim
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Indian Ocean ,Cetaceans ,Matrilineal phylogeny ,Important Marine Mammal Areas (IMMAs) ,Conservation ,Aquaculture. Fisheries. Angling ,SH1-691 - Abstract
The study assessed the utility of mitochondrial DNA for identifying a deceased rorqual discovered off the western coast of India. Both the COI and Cytb genes exhibited remarkable 99-100% similarity with the GenBank sequence of Balaenoptera musculus through a global BLAST search, confirming their affiliation with this species. Inter-species genetic distances for COI and Cytb genes ranged from 6.75% to 9.80% and 7.37% to 10.96% respectively, compared with other Balaenopteridae species. The Bayesian phylogenies constructed based on both COI and Cytb genes demonstrated clear and separate clustering for all Balaenopteridae species, further reaffirming their distinctiveness, while concurrently revealing a cohesive clustering pattern of the generated sequences within the B. musculus clade. Beyond species confirmation, this study provides valuable insights into the presence of live and deceased B. musculus individuals within Indian marine ecosystems. This information holds significant potential for guiding conservation efforts aimed at safeguarding Important Marine Mammal Areas (IMMAs) in India over the long term.
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- 2024
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11. Association of smoking with amyotrophic lateral sclerosis: A systematic review, and meta-analysis, including dose-response analysis
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Kihun Kim<sup>+, Dai Sik Ko<sup>+, Jin-Woo Kim, Dongjun Lee, Eunjeong Son, Hyun-Woo Kim, Tae-Jin Song<sup>+, and Yun Hak Kim
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smoking ,systematic review ,meta-analysis ,amyotrophic lateral sclerosis ,dose-response analysis ,Diseases of the respiratory system ,RC705-779 ,Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
Introduction Amyotrophic lateral sclerosis (ALS) is a progressive neurodegenerative disorder primarily affecting the voluntary motor nervous system. Several observational studies have provided conflicting results regarding the association between smoking and ALS. Therefore, Therefore, our objective was to investigate this association through systematic review, meta-analysis, and dose-response analysis. Methods On January 16th, 2023, we initially extracted records from medical databases, which included Medline, Embase, Web of Science, Scopus, and ScienceDirect. We included case-control and cohort studies as eligible studies. Subgroup analyses were performed based on sex, study design, and current smoking. Restricted cubic spline analysis was utilized to assess the dose-response relationship between smoking (pack-year) and ALS. Results Twenty-eight case-control and four cohort studies met the inclusion criteria. The unadjusted OR for the overall association between smoking and ALS was 1.14 (95% CI: 1.06-1.22, I2=44%, p
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- 2024
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12. Antinociceptive effect of intermittent fasting via the orexin pathway on formalin-induced acute pain in mice
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Hyunjin Shin, Jaehyuk Kim, Sheu-Ran Choi, Dong-Wook Kang, Ji-Young Moon, Dae-Hyun Roh, Miok Bae, Jungmo Hwang, and Hyun-Woo Kim
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Medicine ,Science - Abstract
Abstract It has been suggested that stress responses induced by fasting have analgesic effects on nociception by elevating the levels of stress-related hormones, while there is limited understanding of pain control mechanisms. Here, we investigated whether acute or intermittent fasting alleviates formalin-induced pain in mice and whether spinal orexin A (OXA) plays a role in this process. 6, 12, or 24 h acute fasting (AF) and 12 or 24 h intermittent fasting (IF) decreased the second phase of pain after intraplantar formalin administration. There was no difference in walking time in the rota-rod test and distance traveld in the open field test in all groups. Plasma corticosterone level and immobility time in the forced swim test were increased after 12 h AF, but not after 12 h IF. 12 h AF and IF increased not only the activation of OXA neurons in the lateral hypothalamus but also the expression of OXA in the lateral hypothalamus and spinal cord. Blockade of spinal orexin 1 receptor with SB334867 restored formalin-induced pain and spinal c-Fos immunoreactivity that were decreased after 12 h IF. These results suggest that 12 h IF produces antinociceptive effects on formalin-induced pain not by corticosterone elevation but by OXA-mediated pathway.
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- 2023
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13. Mitogenomic Architecture of Atlantic Emperor Lethrinus atlanticus (Actinopterygii: Spariformes): Insights into the Lineage Diversification in Atlantic Ocean
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Shantanu Kundu, Hye-Eun Kang, Yunji Go, Gyurim Bang, Yengju Jang, Hsu Htoo, Sarifah Aini, and Hyun-Woo Kim
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marine fish ,mitogenome ,phylogeny ,lineage diversification ,evolution ,oceanology ,Biology (General) ,QH301-705.5 ,Chemistry ,QD1-999 - Abstract
The evolutionary history of emperors, particularly in the Atlantic and Indo-West Pacific Oceans, remains largely unmapped. This study explores the maternal lineage evolution of Lethrinids by examining the complete mitogenome of Lethrinus atlanticus, which is endemic to the Eastern Atlantic Ocean. Utilizing advanced next-generation sequencing, we found that the mitogenome spans 16,789 base pairs and encompasses 37 genes, including 13 protein-coding genes (PCGs), two ribosomal RNAs, 22 transfer RNAs, and an AT-rich control region (CR). Our analysis indicates a preference for AT base pairs in the L. atlanticus mitogenome (53.10%). Most PCGs begin with the ATG codon, except for COI, which starts with GTG. Relative synonymous codon usage reveals high frequencies for alanine, leucine, proline, serine, and threonine. The ratio of nonsynonymous to synonymous substitutions suggests strong negative selection across all PCGs in Lethrinus species. Most transfer RNAs exhibit typical cloverleaf structures, with the exception of tRNA-serine (GCT), which lacks a dihydrouracil stem. Comparative analysis of conserved sequence blocks across the CRs of three Lethrinus species shows notable differences in length and nucleotide composition. Phylogenetic analysis using concatenated PCGs clearly distinguishes all Lethrinus species, including L. atlanticus, and sheds light on the evolutionary relationships among Spariformes species. The estimated divergence time of approximately 20.67 million years between L. atlanticus and its Indo-West Pacific relatives provides insights into their historical separation and colonization during the late Oligocene. The distribution of Lethrinids may be influenced by ocean currents and ecological factors, potentially leading to their speciation across the Eastern Atlantic and Indo-West Pacific. This study enhances our understanding of the genetic diversity and phylogenetic relationships within Lethrinus species. Further exploration of other emperor fish mitogenomes and comprehensive genomic data could provide vital insights into their genetic makeup, evolutionary history, and environmental adaptability in marine ecosystems globally.
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- 2024
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14. Habitat Loss in the IUCN Extent: Climate Change-Induced Threat on the Red Goral (Naemorhedus baileyi) in the Temperate Mountains of South Asia
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Imon Abedin, Tanoy Mukherjee, Joynal Abedin, Hyun-Woo Kim, and Shantanu Kundu
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artiodactyla ,ecological niche ,global warming ,international conservation ,threatened species ,transboundary PAs ,Biology (General) ,QH301-705.5 - Abstract
Climate change has severely impacted many species, causing rapid declines or extinctions within their essential ecological niches. This deterioration is expected to worsen, particularly in remote high-altitude regions like the Himalayas, which are home to diverse flora and fauna, including many mountainous ungulates. Unfortunately, many of these species lack adaptive strategies to cope with novel climatic conditions. The Red Goral (Naemorhedus baileyi) is a cliff-dwelling species classified as “Vulnerable” by the IUCN due to its small population and restricted range extent. This species has the most restricted range of all goral species, residing in the temperate mountains of northeastern India, northern Myanmar, and China. Given its restricted range and small population, this species is highly threatened by climate change and habitat disruptions, making habitat mapping and modeling crucial for effective conservation. This study employs an ensemble approach (BRT, GLM, MARS, and MaxEnt) in species distribution modeling to assess the distribution, habitat suitability, and connectivity of this species, addressing critical gaps in its understanding. The findings reveal deeply concerning trends, as the model identified only 21,363 km2 (13.01%) of the total IUCN extent as suitable habitat under current conditions. This limited extent is alarming, as it leaves the species with very little refuge to thrive. Furthermore, this situation is compounded by the fact that only around 22.29% of this identified suitable habitat falls within protected areas (PAs), further constraining the species’ ability to survive in a protected landscape. The future projections paint even degraded scenarios, with a predicted decline of over 34% and excessive fragmentation in suitable habitat extent. In addition, the present study identifies precipitation seasonality and elevation as the primary contributing predictors to the distribution of this species. Furthermore, the study identifies nine designated transboundary PAs within the IUCN extent of the Red Goral and the connectivity among them to highlight the crucial role in supporting the species’ survival over time. Moreover, the Dibang Wildlife Sanctuary (DWLS) and Hkakaborazi National Park are revealed as the PAs with the largest extent of suitable habitat in the present scenario. Furthermore, the highest mean connectivity was found between DWLS and Mehao Wildlife Sanctuary (0.0583), while the lowest connectivity was observed between Kamlang Wildlife Sanctuary and Namdapha National Park (0.0172). The study also suggests strategic management planning that is a vital foundation for future research and conservation initiatives, aiming to ensure the long-term survival of the species in its natural habitat.
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- 2024
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15. Detecting Sleep-Related Breathing Disorders Using FMCW Radar
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Chaewon Jung, Youngkeun Yoo, Hyun-Woo Kim, and Hyun-Chool Shin
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apnea ,fmcw radar ,hypopnea ,respiration ,sleep disorder ,sleep monitoring ,Electrical engineering. Electronics. Nuclear engineering ,TK1-9971 ,Electricity and magnetism ,QC501-766 - Abstract
Polysomnography (PSG) is currently the sole method for detecting breathing disorders that occur during sleep, such as apnea and hypopnea. However, PSG monitoring is quite inconvenient for test subjects. This study proposes a non-contact method for detecting sleep-related breathing disorders that uses frequency-modulated continuous wave (FMCW) radar. The proposed method effectively extracts respiratory signals from radar signals and uses the degree of reduction in the amplitude of the respiratory signals and the duration of the reduction interval as data to detect breathing disorder intervals. The experimental results show that the respiratory signals extracted using the proposed method are similar to the actual respiratory signals. Furthermore, the breathing disorder intervals detected during sleep using FMCW radar are consistent with the actual apnea and hypopnea intervals as confirmed by the PSG results. These results demonstrate that the proposed method is suitable for non-contact detection of breathing disorders during sleep using FMCW radar.
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- 2023
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16. Biodiesel production and simultaneous treatment of domestic and livestock wastewater using indigenous microalgae, Chlorella sorokiniana JD1-1
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Jae-Cheol Lee, Kira Moon, Nakyeong Lee, Sangdon Ryu, Seung Hui Song, Yun Ji Kim, Sung Moon Lee, Hyun-Woo Kim, and Jae-Hyoung Joo
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Medicine ,Science - Abstract
Abstract In this study, the potential of Chlorella sorokiniana JD1-1 for biodiesel production was evaluated using domestic wastewater (DWW) as a diluent for locally-generated livestock wastewater (LWW). This strategy aimed to provide sustainable wastewater treatment, reduce environmental impacts, enhance cost-effectiveness, and promote biodiesel production. LWW was diluted with tap water and DWW at ratios of 75%, 50%, and 25% (v/v), and the effects on microalgal growth, nutrient removal efficiency, and lipid yield were evaluated. Although the maximum biomass concentration was observed in the artificial growth medium (BG-11) (1170 mg L−1), 75% dilution using tap water (610 mg L−1) and DWW (780 mg L−1) yielded results comparable to the exclusive use of DWW (820 mg L−1), suggesting a potential for substitution. Total nitrogen (TN) removal rates were consistently high under all conditions, particularly in samples with higher concentrations of LWW. Conversely, total phosphorus (TP) concentrations decreased under most conditions, although some displayed large increases. Further studies are necessary to optimize the nutrient balance while maintaining economic feasibility and maximizing biodiesel production.
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- 2023
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17. The relationships between microbiome diversity and epidemiology in domestic species of malaria-mediated mosquitoes of Korea
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Jeong Hyeon Lee, Hyun-Woo Kim, Bilal Mustafa, Hee Il Lee, and Hyung Wook Kwon
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Medicine ,Science - Abstract
Abstract Microbiota in the mosquito plays an important role in their behavior and vector competence. The composition of their microbiome is strongly influenced by the environment, especially their habitat. The microbiome profiles of adult female Anopheles sinensis mosquitoes from malaria hyperendemic and hypoendemic areas in Republic of Korea were compared using 16S rRNA Illumina sequencing. In different epidemiology groups, the alpha and beta diversity analyses were significant. The major bacterial phylum was Proteobacteria. The most abundant species in the microbiome of hyperendemic mosquitoes were the genera Staphylococcus, Erwinia, Serratia, and Pantoea. Notably, a distinct microbiome profile characterized by the dominance of Pseudomonas synxantha was identified in the hypoendemic area, suggesting a potential correlation between the microbiome profiles and the incidence of malaria cases.
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- 2023
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18. A literature review of bioactive substances for the treatment of periodontitis: In vitro, in vivo and clinical studies
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Tae-Hee Kim, Seong-Yeong Heo, Pathum Chandika, Young-Mog Kim, Hyun-Woo Kim, Hyun Wook Kang, Jae-Young Je, Zhong-Ji Qian, Namwon Kim, and Won-Kyo Jung
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Human gingival fibroblasts ,Periodontitis ,Bioactive substances ,Science (General) ,Q1-390 ,Social sciences (General) ,H1-99 - Abstract
Periodontitis is a common chronic inflammatory disease of the supporting tissues of the tooth that involves a complex interaction of microorganisms and various cell lines around the infected site. To prevent and treat this disease, several options are available, such as scaling, root planning, antibiotic treatment, and dental surgeries, depending on the stage of the disease. However, these treatments can have various side effects, including additional inflammatory responses, chronic wounds, and the need for secondary surgery. Consequently, numerous studies have focused on developing new therapeutic agents for more effective periodontitis treatment. This review explores the latest trends in bioactive substances with therapeutic effects for periodontitis using various search engines. Therefore, this study aimed to suggest effective directions for therapeutic approaches. Additionally, we provide a summary of the current applications and underlying mechanisms of bioactive substances, which can serve as a reference for the development of periodontitis treatments.
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- 2024
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19. Machine Learning–Enabled Detection of Unruptured Cerebral Aneurysms Improves Detection Rates and Clinical Care
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Hyun‐Woo Kim, Anjan Ballekere, Iman Ali, Sergio Salazar Marioni, Rania Abdelkhaleq, Arash Niktabe, Hussain Azeem, Ananya Iyyangar, Omri Segev, Orin Bibas, Dan Paz, Christopher J. Love, Luca Giancardo, and Sunil A. Sheth
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cerebral aneurysm ,CT scans ,machine learning ,neuroIntervention ,radiology ,Neurology. Diseases of the nervous system ,RC346-429 ,Diseases of the circulatory (Cardiovascular) system ,RC666-701 - Abstract
Background Unruptured cerebral aneurysms (UCAs) have a relatively low prevalence of ≈3%, but detection can prevent devastating consequences of subarachnoid hemorrhage. Here, we assess the performance of a machine learning algorithm to identify UCAs and determine whether routine use of the algorithm improves detection and patient care. Methods From a prospectively maintained multicenter registry across 8 certified stroke centers (1 comprehensive and 7 primary), we identified patients who underwent computed tomography angiography for evaluation of possible stroke from March 14, 2021, to November 31, 2021. A convolutional deep neural network (Viz ANEURYSM) trained to identify UCAs at least 4 mm in size analyzed the images, and ground truth was provided by a blinded expert neuroradiologist. The primary outcome was rate of clinical follow‐up for UCAs detected by the machine learning algorithm. Results Among 1191 computed tomography angiograms performed during the study period, 50 (4.2%) were flagged by the machine learning algorithm as possibly demonstrating a UCA, of which 31 cases were confirmed as true positive (positive predictive value, 62%). There were a total of 36 true aneurysms with 4 cases of multiple aneurysms. Overall, the most common locations included internal carotid artery (42%). Of these cases, 10 (27.8%) were not noted in the clinical radiology report or clinical notes, with a median size of 4.4 mm (interquartile range, 1.6 mm), and 24 (67%) were not referred for follow‐up, with median size of 4.4 mm (interquartile range, 4.2 mm). Of the 24 aneurysms not referred for follow‐up, 15 (62.5%) had been noted in the radiology report. A total of 33.3% (5/15) of the detected but not referred cases had a diameter >7 mm, with median PHASES score of 7. Conclusions UCAs of sizes and intradural locations that require attention and may warrant treatment are frequently missed in routine clinical care. A machine learning algorithm that flags studies and notifies clinicians may minimize missed care opportunities.
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- 2023
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20. Development of a screening platform to discover natural products active against SARS-CoV-2 infection using lung organoid models
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Joo-Eun Lee, Se Yun Jeong, Zijun Li, Hyun-Yi Kim, Hyun-Woo Kim, Min Jeong Yoo, Hee Joo Jang, Do-Kyun Kim, Namki Cho, Hee Min Yoo, and Ki Hyun Kim
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Natural products ,Screening platform ,SARS-CoV-2 ,Antiviral activity ,Lung organoid models ,Medical technology ,R855-855.5 - Abstract
Abstract Background Natural products can serve as one of the alternatives, exhibiting high potential for the treatment and prevention of COVID-19, caused by SARS-CoV-2. Herein, we report a screening platform to test the antiviral efficacy of a natural product library against SARS-CoV-2 and verify their activity using lung organoids. Methods Since SARS-CoV-2 is classified as a risk group 3 pathogen, the drug screening assay must be performed in a biosafety level 3 (BSL-3) laboratory. To circumvent this limitation, pseudotyped viruses (PVs) have been developed as replacements for the live SARS-CoV-2. We developed PVs containing spikes from Delta and Omicron variants of SARS-CoV-2 and improved the infection in an angiotensin-converting enzyme 2 (ACE2)-dependent manner. Human induced pluripotent stem cells (hiPSCs) derived lung organoids were generated to test the SARS-CoV-2 therapeutic efficacy of natural products. Results Flavonoids from our natural product library had strong antiviral activity against the Delta- or Omicron-spike-containing PVs without affecting cell viability. We aimed to develop strategies to discover the dual function of either inhibiting infection at the beginning of the infection cycle or reducing spike stability following SARS-CoV-2 infection. When lung cells are already infected with the virus, the active flavonoids induced the degradation of the spike protein and exerted anti-inflammatory effects. Further experiments confirmed that the active flavonoids had strong antiviral activity in lung organoid models. Conclusion This screening platform will open new paths by providing a promising standard system for discovering novel drug leads against SARS-CoV-2 and help develop promising candidates for clinical investigation as potential therapeutics for COVID-19. Graphical Abstract
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- 2023
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21. Noise reduction method using a variance map of the phase differences in digital holographic microscopy
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Hyun-Woo Kim, Myungjin Cho, and Min-Chul Lee
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digital holographic microscopy ,noise reduction ,three-dimensional imaging ,Telecommunication ,TK5101-6720 ,Electronics ,TK7800-8360 - Abstract
The phase reconstruction process in digital holographic microscopy involves a trade-off between the phase error and the high-spatial-frequency components. In this reconstruction process, if the narrow region of the sideband is windowed in the Fourier domain, the phase error from the DC component will be reduced, but the high-spatial-frequency components will be lost. However, if the wide region is windowed, the 3D profile will include the high-spatial-frequency components, but the phase error will increase. To solve this trade-off, we propose the high-variance pixel averaging method, which uses the variance map of the reconstructed depth profiles of the windowed sidebands of different sizes in the Fourier domain to classify the phase error and the high-spatial-frequency components. Our proposed method calculates the average of the high-variance pixels because they include the noise from the DC component. In addition, for the nonaveraged pixels, the reconstructed phase data created by the spatial frequency components of the widest window are used to include the high-spatialfrequency components. We explain the mathematical algorithm of our proposed method and compare it with conventional methods to verify its advantages.
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- 2023
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22. Distribution Model Reveals Rapid Decline in Habitat Extent for Endangered Hispid Hare: Implications for Wildlife Management and Conservation Planning in Future Climate Change Scenarios
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Imon Abedin, Tanoy Mukherjee, Ah Ran Kim, Hyun-Woo Kim, Hye-Eun Kang, and Shantanu Kundu
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lagomorphs ,species distribution modelling ,protected area planning ,transboundary ,climate change ,Biology (General) ,QH301-705.5 - Abstract
The hispid hare, Caprolagus hispidus, belonging to the family Leporidae is a small grassland mammal found in the southern foothills of the Himalayas, in India, Nepal, and Bhutan. Despite having an endangered status according to the IUCN Red List, it lacks studies on its distribution and is threatened by habitat loss and land cover changes. Thus, the present study attempted to assess the habitat suitability using the species distribution model approach for the first time and projected its future in response to climate change, habitat, and urbanization factors. The results revealed that out of the total geographical extent of 188,316 km2, only 11,374 km2 (6.03%) were identified as suitable habitat for this species. The results also revealed that habitat significantly declined across its range (>60%) under certain climate change scenarios. Moreover, in the present climate scenario protected areas such as Shuklaphanta National Park (0.837) in Nepal exhibited the highest mean extent of habitat whereas, in India, Dibru-Saikhowa National Park (0.631) is found to be the most suitable habitat. Notably, two protected areas in Uttarakhand, India, specifically Corbett National Park (0.530) and Sonanandi Wildlife Sanctuary (0.423), have also demonstrated suitable habitats for C. hispidus. Given that protected areas showing a future rise in habitat suitability might also be regarded as potential sites for species translocation, this study underscores the importance of implementing proactive conservation strategies to mitigate the adverse impacts of climate change on this species. It is essential to prioritize habitat restoration, focused protection measures, and further species-level ecological exploration to address these challenges effectively. Furthermore, fostering transboundary collaboration and coordinated conservation actions between nations is crucial to safeguarding the long-term survival of the species throughout its distribution range.
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- 2024
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23. Three-Dimensional Image Visualization under Photon-Starved Conditions Using N Observations and Statistical Estimation
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Hyun-Woo Kim, Min-Chul Lee, and Myungjin Cho
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maximum likelihood estimation ,N observations ,photon-counting integral imaging ,three-dimensional imaging ,volumetric computational reconstruction ,Chemical technology ,TP1-1185 - Abstract
In this paper, we propose a method for the three-dimensional (3D) image visualization of objects under photon-starved conditions using multiple observations and statistical estimation. To visualize 3D objects under these conditions, photon counting integral imaging was used, which can extract photons from 3D objects using the Poisson random process. However, this process may not reconstruct 3D images under severely photon-starved conditions due to a lack of photons. Therefore, to solve this problem, in this paper, we propose N-observation photon-counting integral imaging with statistical estimation. Since photons are extracted randomly using the Poisson distribution, increasing the samples of photons can improve the accuracy of photon extraction. In addition, by using a statistical estimation method, such as maximum likelihood estimation, 3D images can be reconstructed. To prove our proposed method, we implemented the optical experiment and calculated its performance metrics, which included the peak signal-to-noise ratio (PSNR), structural similarity (SSIM), peak-to-correlation energy (PCE), and the peak sidelobe ratio (PSR).
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- 2024
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24. Image Processing Techniques for Improving Quality of 3D Profile in Digital Holographic Microscopy Using Deep Learning Algorithm
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Hyun-Woo Kim, Myungjin Cho, and Min-Chul Lee
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Digital Holographic Microscopy (DHM) ,Improved Denoising Diffusion Probabilistic Models (IDDPM) ,noise filtering ,Chemical technology ,TP1-1185 - Abstract
Digital Holographic Microscopy (DHM) is a 3D imaging technology widely applied in biology, microelectronics, and medical research. However, the noise generated during the 3D imaging process can affect the accuracy of medical diagnoses. To solve this problem, we proposed several frequency domain filtering algorithms. However, the filtering algorithms we proposed have a limitation in that they can only be applied when the distance between the direct current (DC) spectrum and sidebands are sufficiently far. To address these limitations, among the proposed filtering algorithms, the HiVA algorithm and deep learning algorithm, which effectively filter by distinguishing between noise and detailed information of the object, are used to enable filtering regardless of the distance between the DC spectrum and sidebands. In this paper, a combination of deep learning technology and traditional image processing methods is proposed, aiming to reduce noise in 3D profile imaging using the Improved Denoising Diffusion Probabilistic Models (IDDPM) algorithm.
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- 2024
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25. Integrative Taxonomy Clarifies the Historical Flaws in the Systematics and Distributions of Two Osteobrama Fishes (Cypriniformes: Cyprinidae) in India
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Boni Amin Laskar, Dhriti Banerjee, Sangdeok Chung, Hyun-Woo Kim, Ah Ran Kim, and Shantanu Kundu
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cyprinids ,distribution ,genetic divergence ,key characters ,phylogeny ,systematics ,Biology (General) ,QH301-705.5 ,Genetics ,QH426-470 - Abstract
The taxonomy and geographical distributions of Osteobrama species have historically posed challenges to ichthyologists, leading to uncertainties regarding their native ranges. While traditional taxonomy has proven valuable in classification, the utility of an integrated approach is restricted for this particular group due to limitations in combining information from biogeography, morphology, and genetic data. This study addresses the taxonomic puzzle arising from the recent identification of Osteobrama tikarpadaensis in the Mahanadi and Godavari Rivers, casting doubt on the actual distribution and systematics of both O. tikarpadaensis and Osteobrama vigorsii. The research reveals distinctions among specimens resembling O. vigorsii from the Krishna and Godavari riverine systems. Notably, specimens identified as O. vigorsii from the Indian Museum exhibit two pairs of barbels, while those from the Godavari River in this study are identified as O. tikarpadaensis. Inter-species genetic divergence and maximum likelihood phylogeny provide clear delineation between O. vigorsii and O. tikarpadaensis. The study suggests that O. vigorsii may be limited to the Krishna River system in southern India, while O. tikarpadaensis could potentially extend from the Mahanadi River in central India to the Godavari River in southern India. Proposed revision to morphological features for both species, accompanied by revised taxonomic keys, aim to facilitate accurate differentiation among Osteobrama congeners. The data generated by this research provide a resource for future systematic investigations into cyprinids in India and surrounding regions. Further, the genetic diversity information obtained from various riverine systems for Osteobrama species will be instrumental in guiding aquaculture practices and formulating effective conservation action plans.
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- 2024
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26. Mitogenomic Characterization and Phylogenetic Placement of African Hind, Cephalopholis taeniops: Shedding Light on the Evolution of Groupers (Serranidae: Epinephelinae)
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Shantanu Kundu, Hye-Eun Kang, Ah Ran Kim, Soo Rin Lee, Eun-Bi Kim, Muhammad Hilman Fu’adil Amin, Sapto Andriyono, Hyun-Woo Kim, and Kyoungmi Kang
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serranids ,Africa ,next-generation sequencing ,mitogenome ,phylogeny ,evolution ,Biology (General) ,QH301-705.5 ,Chemistry ,QD1-999 - Abstract
The global exploration of evolutionary trends in groupers, based on mitogenomes, is currently underway. This research extensively investigates the structure of and variations in Cephalopholis species mitogenomes, along with their phylogenetic relationships, focusing specifically on Cephalopholis taeniops from the Eastern Atlantic Ocean. The generated mitogenome spans 16,572 base pairs and exhibits a gene order analogous to that of the ancestral teleost’s, featuring 13 protein-coding genes (PCGs), two ribosomal RNA genes (rRNAs), 22 transfer RNA genes (tRNAs), and an AT-rich control region. The mitogenome of C. taeniops displays an AT bias (54.99%), aligning with related species. The majority of PCGs in the mitogenome initiate with the start codon ATG, with the exceptions being COI (GTG) and atp6 (TTG). The relative synonymous codon usage analysis revealed the maximum abundance of leucine, proline, serine, and threonine. The nonsynonymous/synonymous ratios were Cephalopholis species. In C. taeniops, the prevalent transfer RNAs display conventional cloverleaf secondary structures, except for tRNA-serine (GCT), which lacks a dihydrouracil (DHU) stem. A comparative examination of conserved domains and sequence blocks across various Cephalopholis species indicates noteworthy variations in length and nucleotide diversity. Maximum likelihood, neighbor-joining, and Bayesian phylogenetic analyses, employing the concatenated PCGs and a combination of PCGs + rRNAs, distinctly separate all Cephalopholis species, including C. taeniops. Overall, these findings deepen our understanding of evolutionary relationships among serranid groupers, emphasizing the significance of structural considerations in mitogenomic analyses.
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- 2024
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27. Matrilineal phylogeny and habitat suitability of the endangered spotted pond turtle (Geoclemys hamiltonii; Testudines: Geoemydidae): a two-dimensional approach to forecasting future conservation consequences
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Shantanu Kundu, Tanoy Mukherjee, Manokaran Kamalakannan, Gaurav Barhadiya, Chirashree Ghosh, and Hyun-Woo Kim
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Freshwater turtles ,Threatened species ,Mitochondrial genome ,Habitat modelling ,Conservation ,Medicine ,Biology (General) ,QH301-705.5 - Abstract
The spotted pond turtle (Geoclemys hamiltonii) is a threatened and less explored species endemic to Bangladesh, India, Nepal, and Pakistan. To infer structural variation and matrilineal phylogenetic interpretation, the present research decoded the mitogenome of G. hamiltonii (16,509 bp) using next-generation sequencing technology. The mitogenome comprises 13 protein-coding genes (PCGs), 22 transfer RNAs (tRNAs), two ribosomal RNAs (rRNAs), and one AT-rich control region (CR) with similar strand symmetry in vertebrates. The ATG was identified as a start codon in most of the PCGs except Cytochrome oxidase subunit 1 (cox1), which started with the GTG codon. The non-coding CR of G. hamiltonii was determined to have a unique structure and variation in different domains and stem-loop secondary structure as compared with other Batagurinae species. The PCGs-based Bayesian phylogeny inferred strong monophyletic support for all Batagurinae species and confirmed the sister relationship of G. hamiltonii with Pangshura and Batagur taxa. We recommend generating more mitogenomic data for other Batagurinae species to confirm their population structure and evolutionary relationships. In addition, the present study aims to infer the habitat suitability and habitat quality of G. hamiltonii in its global distribution, both in the present and future climatic scenarios. We identify that only 58,542 km2 (7.16%) of the total range extent (817,341 km2) is suitable for this species, along with the fragmented habitats in both the eastern and western ranges. Comparative habitat quality assessment suggests the level of patch shape in the western range is higher (71.3%) compared to the eastern range. Our results suggest a massive decline of approximately 65.73% to 70.31% and 70.53% to 75.30% under ssp245 and ssp585 future scenarios, respectively, for the years between 2021–2040 and 2061–2080 compared with the current distribution. The present study indicates that proper conservation management requires greater attention to the causes and solutions to the fragmented distribution and safeguarding of this endangered species in the Indus, Ganges, and Brahmaputra (IGB) river basins.
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- 2023
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28. Bending Strength Prediction and Finite Element Analysis of Larch Structural Beams
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Seung-Youp Baek, Yo-Jin Song, Hyun-Woo Kim, and Soon-Il Hong
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fem ,larch ,structure beams ,mor ,knot ,mor reduction ratio ,Biotechnology ,TP248.13-248.65 - Abstract
The material constants of wood required for finite element analysis (FEA) are usually calculated using small clear specimens. However, defects, such as knots and slope of grain affect the strength reduction in the full-size specimens. Consequently, an error occurs if only the material constant calculated from the small clear specimens is used to predict modulus of rupture (MOR). Therefore, in this study, the MOR reduction coefficient according to defect was obtained through the bending test of the full-size specimens and applied to the FEA, in addition to the material constant from the small clear specimens. The maximum bending moment section was measured for a 3-section four-point load, and defects in the outermost tension layer were measured for laminated timber and glulam. The result of the bending test confirmed that MOR also decreased as the size of the defect increased. Therefore, when predicting MOR, a strength reduction ratio according to visual grade was applied. The MOR predicted FEA was twice as large as the actual MOR before defect correction, but the prediction error after defect correction was greatly reduced to 8%, thus increasing the prediction accuracy.
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- 2023
29. Endovascular Stroke Therapy for Posterior Circulation Acute Ischemic Stroke Has Diminishing Benefit with Additional Passes
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Jerome A. Jeevarajan, Hyun‐Woo Kim, Muhammad Bilal Tariq, Sergio Salazar Marioni, Arash Niktabe, Rania Abdelkhaleq, Louise McCullough, and Sunil A. Sheth
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Neurology. Diseases of the nervous system ,RC346-429 ,Diseases of the circulatory (Cardiovascular) system ,RC666-701 - Abstract
Background The relationship between pass number during endovascular stroke therapy (EST) and outcomes in anterior circulation large vessel occlusion (LVO) acute ischemic stroke (AIS) has been well studied. However, the association between EST attempts and outcomes for patients with posterior circulation LVO remains unclear. Methods From our prospectively maintained multicenter registry, we identified consecutive patients with LVO AIS who underwent EST. The number of thrombectomy passes and per‐pass reperfusion grades (thrombolysis in cerebral infarction) were recorded prospectively at the time of procedure. The primary outcome was the association of number of EST passes and functional independence (modified Rankin scale 0–2) at 90 days. Secondary outcomes included likelihood of attaining substantial reperfusion (thrombolysis in cerebral infarction 2b‐3). Results Among 894 patients with LVO AIS who underwent EST, median age was 68 [interquartile range 58–78], 49% were female, and median National Institutes of Health Stroke Scale was 16 [interquartile range 11–21]. Of this cohort, 86 (9.6%) had posterior circulation LVO, including 65 (7%) with basilar artery occlusion and 9 (1%) with vertebral artery occlusion. The diminishing benefit on successful reperfusion of additional passes was similar for anterior and posterior circulation AIS. Among patients with posterior circulation stroke, successful reperfusion with fewer passes was associated with greater likelihood of good functional outcome at 90 days (40.0% versus 4.8% modified Rankin scale 0–2 with 1–2 versus 3+ passes; P = 0.003). The likelihood of good outcome in patients with posterior circulation LVO treated with EST and successful reperfusion in 1–2 passes was comparable to patients with anterior circulation LVO (40.0% versus 40.2%, posterior versus anterior; P = 0.553). Conclusions The number of EST passes has a significant association with functional independence at 90 days for patients with posterior circulation LVO AIS. After 2 passes, there is significantly reduced benefit conferred by additional passes. Overall clinical outcomes in patients with successful reperfusion with 1–2 passes were similar in patients with posterior circulation compared with anterior circulation LVO.
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- 2023
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30. PCL/gelatin nanofibers incorporated with starfish polydeoxyribonucleotides for potential wound healing applications
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Tae-Hee Kim, Se-Chang Kim, Won Sun Park, Il-Whan Choi, Hyun-Woo Kim, Hyun-Wook Kang, Young-Mog Kim, and Won-Kyo Jung
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Polydeoxyribonucleotides ,Patiria pectinifera ,Nanofiber ,Wound healing ,Materials of engineering and construction. Mechanics of materials ,TA401-492 - Abstract
Conventional wound dressings have several shortcomings because they are unspecific and partially effective for wound healing. To enhance the therapeutic efficiency of wound dressings, we extracted polydeoxyribonucleotides (PDRN) from Patiria pectinifera, and characterized using absorbance-based analysis, chemical composition analysis, and electrophoresis. We evaluated their cytotoxicity and wound healing activity on human dermal fibroblast (HDF) and human keratinocytes (HaCaT). Next, we used electrospinning to fabricate polycaprolactone (PCL)/gelatin (Gel)/PDRN nanofibers for wound dressing application. The average fiber diameters of PCL (P), PCL/Gel (PG), and PCL/Gel/PDRN (PGP) nanofibers were 582.88 ± 202.65, 435.65 ± 149.87, and 334.63 ± 98.09 nm, respectively. The biocompatibility of the nanofibers was assessed using MTT assay and FDA/PI staining on HDF and HaCaT, no cytotoxicity was observed. In vivo experiments with full-thickness skin defect mouse models confirmed that the PGP nanofiber accelerated the initial wound healing process, as shown by wound closure analysis and histological analysis. Our results suggest that the PGP nanofiber has potential as a biomaterial for wound dressing applications and skin tissue engineering.
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- 2023
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31. A Novel Image Processing Method for Obtaining an Accurate Three-Dimensional Profile of Red Blood Cells in Digital Holographic Microscopy
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Hyun-Woo Kim, Myungjin Cho, and Min-Chul Lee
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digital holographic microscopy ,disease diagnosis ,image processing ,noise filtering ,computational visualization ,Technology - Abstract
Recently, research on disease diagnosis using red blood cells (RBCs) has been active due to the advantage that it is possible to diagnose many diseases with a drop of blood in a short time. Representatively, there are disease diagnosis technologies that utilize deep learning techniques and digital holographic microscope (DHM) techniques. However, three-dimensional (3D) profile obtained by DHM has a problem of random noise caused by the overlapping DC spectrum and sideband in the Fourier domain, which has the probability of misjudging diseases in deep learning technology. To reduce random noise and obtain a more accurate 3D profile, in this paper, we propose a novel image processing method which randomly selects the center of the high-frequency sideband (RaCoHS) in the Fourier domain. This proposed algorithm has the advantage of filtering while using only recorded hologram information to maintain high-frequency information. We compared and analyzed the conventional filtering method and the general image processing method to verify the effectiveness of the proposed method. In addition, the proposed image processing algorithm can be applied to all digital holography technologies including DHM, and in particular, it is expected to have a great effect on the accuracy of disease diagnosis technologies using DHM.
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- 2023
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32. Mitogenomic Architecture and Phylogenetic Relationship of European Barracuda, Sphyraena sphyraena (Teleostei: Sphyraenidae) from the Atlantic Ocean
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Shantanu Kundu, Hyun-Woo Kim, Jaebong Lee, Sangdeok Chung, Soo Rin Lee, Fantong Zealous Gietbong, Arif Wibowo, and Kyoungmi Kang
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barracudas ,Africa ,next-generation sequencing ,mitochondrial genome ,evolution ,Biology (General) ,QH301-705.5 ,Genetics ,QH426-470 - Abstract
The collective understanding of global-scale evolutionary trends in barracuda mitogenomes is presently limited. This ongoing research delves into the maternal evolutionary path of Sphyraena species, with a specific focus on the complete mitogenome of Sphyraena sphyraena, sourced from the Atlantic Ocean through advanced next-generation sequencing. This mitogenome spans 16,841 base pairs and encompasses 37 genes, including 13 protein-coding genes (PCGs), 2 ribosomal RNA genes (rRNAs), 22 transfer RNA genes (tRNAs), and an AT-rich control region. Notably, the mitogenome of S. sphyraena exhibits a preference for AT-base pairs, constituting 55.06% of the composition, a trait consistent with a similar bias found in related species. Most protein-coding genes initiate with an ATG codon, with the exception of Cytochrome c oxidase I (COI), which begins with a GTG codon. Additionally, six PCGs terminate with a TAA codon, COI with AGA, while six others exhibit incomplete termination codons. In the S. sphyraena mitogenome, the majority of transfer RNAs exhibit typical cloverleaf secondary structures, except for tRNA-serine, which lacks a DHU stem. Comparative analysis of conserved blocks within the D-loop regions of six Sphyraenidae species reveals that the CSB-I block extends to 22 base pairs, surpassing other blocks and containing highly variable sites. Both maximum-likelihood and Bayesian phylogenetic analyses, using concatenated 13 mitochondrial PCGs, distinctly separate all Sphyraenidae species. The European Barracuda, S. sphyraena, demonstrates a sister relationship with the ‘Sphyraena barracuda’ group, including S. barracuda and S. jello. In conclusion, this study advances our understanding of the evolutionary relationship and genetic diversity within barracudas. Furthermore, it recommends comprehensive exploration of mitogenomes and broader genomic data for all existing Sphyraenidae fishes, providing invaluable insights into their systematics, genetic characterization, and maternal evolutionary history within marine environments.
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- 2023
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33. Optimized pretreatment conditions for the environmental DNA (eDNA) analysis of Apostichopus japonicus
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Yu-An Kang, Soo Rin Lee, Eun-Bi Kim, Sang Un Park, Sang Min Lim, Sapto Andriyono, and Hyun-Woo Kim
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environmental dna ,apostichopus japonicas ,pcr ,genetic resources ,Aquaculture. Fisheries. Angling ,SH1-691 - Abstract
A non-destructive environmental DNA protocol for the genetic analysis of sea cucumber (Apostichopus japonicus) resources DNA was established. Among the several commercial DNA extraction kits, the DNeasy® Plant Mini Kit was selected as the best choice to obtain the high-quality genomic DNAs from the mucous sea cucumber. As the temperature and incubation time increased, the amount of extracted environmental DNA was also large, but it was judged that the increased amount did not affect as much as 2–3 times. Therefore, these conditions were not considered to be the main factors to consider in actual environmental DNA extraction. However, the amount of seawater relative to the size of the sample was judged as a major consideration, and a sufficient amount of environmental DNA for analysis was secured when stored within 1 min while stirring the volume of seawater corresponding to the total sea cucumber weight (g). In securing the environmental DNA of sea cucumbers, the mortality rate of sea cucumbers in all experiments was 0, and it was judged that the effects of sea cucumbers were not significant through this treatment. Through the results of this study, sea cucumber DNA research, which has been conducted in a destructive method, can be conducted non-destructively through environmental DNA analysis. Through this study, we have secured a standard protocol that can successfully extract the sea cucumber DNA through environmental DNA. It is not only excellent in terms of time and cost of traditional DNA analysis method currently used, but it is completely non-destructive in the ecosystem of the survey area. It is believed that the system can be transformed in a way that does not affect it. However, it is thought that various standard protocols should be established considering the characteristics of each type.
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- 2022
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34. Antiallodynic effects of KDS2010, a novel MAO-B inhibitor, via ROS-GABA inhibitory transmission in a paclitaxel-induced tactile hypersensitivity model
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Su Eun Park, Chiranjivi Neupane, Chan Noh, Ramesh Sharma, Hyun Jin Shin, Thuy Linh Pham, Gyu-Seung Lee, Ki Duk Park, C. Justin Lee, Dong-Wook Kang, So Yeong Lee, Hyun-Woo Kim, and Jin Bong Park
- Subjects
KDS2010 ,MAO-B ,Tactile Hypersensitivity ,Paclitaxel ,Neurology. Diseases of the nervous system ,RC346-429 - Abstract
Abstract Monoamine oxidase (MAO) inhibitors have been investigated for the treatment of neuropathic pain. Here, we assessed the antiallodynic effects of a novel MAO-B inhibitor, KDS2010, on paclitaxel (PTX)-induced mechanical hypersensitivity. Oral administration of KDS2010 effectively relieved PTX-induced mechanical hypersensitivity in a dose-dependent manner. KDS2010 (25 mg/Kg) significantly prevented and suppressed PTX-induced pain responses with minimal effects on the body weight, motor activity, and working memory. KDS2010 significantly reduced reactive astrocytosis and reactive oxygen species (ROS) level in the L4–L6 spinal cord of PTX-treated mice. Furthermore, KDS2010 reversed the attenuation of GABAergic spontaneous inhibitory postsynaptic current (sIPSC) frequency in spinal dorsal horn neurons, although it failed to restore the reduced tonic GABAA inhibition nor the increased GABA transporter 1 (GAT1) expression in PTX-treated mice. In addition, bath application of a reactive oxygen species (ROS) scavenger (PBN) restored the sIPSC frequency in PTX-treated mice but not in control and PTX + KDS2010-treated mice. These results indicated that the antiallodynic effect of KDS2010 is not due to a MAO-B-dependent GABA production. Finally, PBN alone also exerted a similar analgesic effect as KDS2010, but a co-treatment of PBN with KDS2010 showed no additive effect, suggesting that inhibition of MAO-B-dependent ROS production is responsible for the analgesic effect by KDS2010 on PTX-induced allodynia. Overall, KDS2010 attenuated PTX-induced pain behaviors by restoring the altered ROS level and GABAergic inhibitory signaling in the spinal cord, suggesting that KDS2010 is a promising therapeutic strategy for chemotherapy-induced peripheral neuropathy.
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- 2022
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35. Insights into the Mitochondrial Genetic Makeup and Miocene Colonization of Primitive Flatfishes (Pleuronectiformes: Psettodidae) in the East Atlantic and Indo-West Pacific Ocean
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Shantanu Kundu, Flandrianto Sih Palimirmo, Hye-Eun Kang, Ah Ran Kim, Soo Rin Lee, Fantong Zealous Gietbong, Se Hyun Song, and Hyun-Woo Kim
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marine fish ,ancient lineages ,mitogenome ,phylogeny ,evolution ,oceanography ,Biology (General) ,QH301-705.5 - Abstract
The mitogenomic evolution of the Psettodes flatfishes is still poorly known from their range distribution in eastern Atlantic and Indo-West Pacific Oceans. The study delves into the matrilineal evolutionary pathway of these primitive flatfishes, with a specific focus on the complete mitogenome of the Psettodes belcheri species, as determined through next-generation sequencing. The mitogenome in question spans a length of 16,747 base pairs and comprises a total of 37 genes, including 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes, and a control region. Notably, the mitogenome of P. belcheri exhibits a bias towards AT base pairs, with a composition of 54.15%, mirroring a similar bias observed in its close relative, Psettodes erumei, which showcases percentages of 53.07% and 53.61%. Most of the protein-coding genes commence with an ATG initiation codon, except for Cytochrome c oxidase I (COI), which initiates with a GTG codon. Additionally, four protein-coding genes commence with a TAA termination codon, while seven others exhibit incomplete termination codons. Furthermore, two protein-coding genes, namely NAD1 and NAD6, terminate with AGG and TAG stop codons, respectively. In the mitogenome of P. belcheri, the majority of transfer RNAs demonstrate the classical cloverleaf secondary structures, except for tRNA-serine, which lacks a DHU stem. Comparative analysis of conserved blocks within the control regions of two Psettodidae species unveiled that the CSB-II block extended to a length of 51 base pairs, surpassing the other blocks and encompassing highly variable sites. A comprehensive phylogenetic analysis using mitochondrial genomes (13 concatenated PCGs) categorized various Pleuronectiformes species, highlighting the basal position of the Psettodidae family and showed monophyletic clustering of Psettodes species. The approximate divergence time (35−10 MYA) between P. belcheri and P. erumei was estimated, providing insights into their separation and colonization during the early Miocene. The TimeTree analysis also estimated the divergence of two suborders, Psettodoidei and Pleuronectoidei, during the late Paleocene to early Eocene (56.87 MYA). The distribution patterns of Psettodes flatfishes were influenced by ocean currents and environmental conditions, contributing to their ecological speciation. In the face of climate change and anthropogenic activities, the conservation implications of Psettodes flatfishes are emphasized, underscoring the need for regulated harvesting and adaptive management strategies to ensure their survival in changing marine ecosystems. Overall, this study contributes to understanding the evolutionary history, genetic diversity, and conservation needs of Psettodes flatfishes globally. However, the multifaceted exploration of mitogenome and larger-scale genomic data of Psettodes flatfish will provide invaluable insights into their genetic characterization, evolutionary history, environmental adaptation, and conservation in the eastern Atlantic and Indo-West Pacific Oceans.
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- 2023
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36. Three-Dimensional (3D) Visualization under Extremely Low Light Conditions Using Kalman Filter
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Hyun-Woo Kim, Myungjin Cho, and Min-Chul Lee
- Subjects
digital image processing ,integral imaging ,Kalman filter ,photon-counting integral imaging ,volumetric computational reconstruction ,Chemical technology ,TP1-1185 - Abstract
In recent years, research on three-dimensional (3D) reconstruction under low illumination environment has been reported. Photon-counting integral imaging is one of the techniques for visualizing 3D images under low light conditions. However, conventional photon-counting integral imaging has the problem that results are random because Poisson random numbers are temporally and spatially independent. Therefore, in this paper, we apply a technique called Kalman filter to photon-counting integral imaging, which corrects data groups with errors, to improve the visual quality of results. The purpose of this paper is to reduce randomness and improve the accuracy of visualization for results by incorporating the Kalman filter into 3D reconstruction images under extremely low light conditions. Since the proposed method has better structure similarity (SSIM), peak signal-to-noise ratio (PSNR) and cross-correlation values than the conventional method, it can be said that the visualization of low illuminated images can be accurate. In addition, the proposed method is expected to accelerate the development of autonomous driving technology and security camera technology.
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- 2023
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37. YH29407 with anti-PD-1 ameliorates anti-tumor effects via increased T cell functionality and antigen presenting machinery in the tumor microenvironment
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Dong Kwon Kim, Chun-Bong Synn, Seung Min Yang, Seongsan Kang, Sujeong Baek, Se-Woong Oh, Gyu-Jin Lee, Ho-Woong Kang, Young-Sung Lee, Jong Suk Park, Jae Hwan Kim, Youngseon Byeon, Young Seob Kim, Doo Jae Lee, Hyun-Woo Kim, June Dong Park, Sung Sook Lee, Ji Yun Lee, Jii Bum Lee, Chang Gon Kim, Min Hee Hong, Sun Min Lim, Hey Ryun Kim, Kyoung-Ho Pyo, and Byoung Chul Cho
- Subjects
IDO1 ,tryptophan ,kynurenine ,molecule inhibitor ,colon cancer ,immunotherapy ,Chemistry ,QD1-999 - Abstract
Among cancer cells, indoleamine 2, 3-dioxygenase1 (IDO1) activity has been implicated in improving the proliferation and growth of cancer cells and suppressing immune cell activity. IDO1 is also responsible for the catabolism of tryptophan to kynurenine. Depletion of tryptophan and an increase in kynurenine exert important immunosuppressive functions by activating regulatory T cells and suppressing CD8+ T and natural killer (NK) cells. In this study, we compared the anti-tumor effects of YH29407, the best-in-class IDO1 inhibitor with improved pharmacodynamics and pharmacokinetics, with first and second-generation IDO1 inhibitors (epacadostat and BMS-986205, respectively). YH29407 treatment alone and anti-PD-1 (aPD-1) combination treatment induced significant tumor suppression compared with competing drugs. In particular, combination treatment showed the best anti-tumor effects, with most tumors reduced and complete responses. Our observations suggest that improved anti-tumor effects were caused by an increase in T cell infiltration and activity after YH29407 treatment. Notably, an immune depletion assay confirmed that YH29407 is closely related to CD8+ T cells. RNA-seq results showed that treatment with YH29407 increased the expression of genes involved in T cell function and antigen presentation in tumors expressing ZAP70, LCK, NFATC2, B2M, and MYD88 genes. Our results suggest that an IDO1 inhibitor, YH29407, has enhanced PK/PD compared to previous IDO1 inhibitors by causing a change in the population of CD8+ T cells including infiltrating T cells into the tumor. Ultimately, YH29407 overcame the limitations of the competing drugs and displayed potential as an immunotherapy strategy in combination with aPD-1.
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- 2022
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38. Molecular Identification and Phylogenetic Tree Reconstruction of Marine Fish Species from the Fishing Port of Kutaradja, Banda Aceh
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Sapto Andriyono, Adrian Damora, and Hyun-Woo Kim
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aceh ,dna barcoding ,haplotype analysis ,marine fish ,molecular ,Agriculture (General) ,S1-972 ,Plant culture ,SB1-1110 - Abstract
The enormous potential of marine resources possessed by Banda Aceh Province is expected to be utilised optimally. Accuracy in marine fish resource identification is a critical requirement to support their utilisation and preservation in Banda Aceh Province. In this study, a molecular identification approach was carried out in addition to conducting a morphological identification, commonly used by several scientists. The results were 47 COI sequences generated representing 33 genera, 19 families, and five orders. From the resulting COI partial sequences, there is one potential haplotype from the Scombridae family (Auxis thazard), two potential haplotypes from the Carangidae family (Elagatis bipinnulata and Decapterus macarellus), and two potential haplotypes from the Serranidae family (Variola albimarginata and Cephalopholis sonnerati). This study is essential for fisheries biological studies and other fisheries studies to support the sustainable utilisation of marine fisheries potential in Banda Aceh.
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- 2022
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39. Geographical differences in the diet of Dissostichus mawsoni revealed by metabarcoding
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Soo Rin Lee, Seok-Gwan Choi, Sangdeok Chung, Doo Nam Kim, Chang-Keun Kang, and Hyun-Woo Kim
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feeding ecology ,Antarctic toothfish ,metabarcoding ,CCAMLR ,Antarctica ,Science ,General. Including nature conservation, geographical distribution ,QH1-199.5 - Abstract
The diet of the Antarctic toothfish (Dissostichus mawsoni) was analyzed using metabarcoding to determine whether spatiotemporal factors are related to its feeding ecology. A diet metabarcoding analysis was conducted for five years from 2016 to 2020 using 1,777 samples collected from two distantly located subareas, 88.3 and 58.4.1. Metabarcoding results revealed 105 prey haplotypes (29 families, 45 genera) in the stomach contents of D. mawsoni, which can serve as valuable genetic information for the accurate identification of piscine species inhabiting the Southern Ocean. Most of the stomach contents of D. mawsoni consisted of fish taxa, comprising 99.61% of read count, which is consistent with other studies indicating that D. mawsoni is piscivorous. The prey compositions were highly different between the two subareas (88.3 and 58.4.1) regardless of the year, indicating that the diet of D. mawsoni strongly reflects the fish assemblages in geographically different habitats. These results strongly suggest that the stomach contents are good ecological indicators for monitoring any changes in the marine ecosystem caused by either the fishery of D. mawsoni, the most voracious piscine predator in its habitat, or environmental changes. In addition, quantitative polymerase chain reaction results of the two most abundant Macrourus prey species of Antarctic toothfish, M. caml and M. whitsoni, showed that the distribution of these two species may be related to the dynamics of gyres, which flow along the Antarctic continent.
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- 2022
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40. Comparisons of clinical characteristics, brain MRI findings, and responses to epidural blood patch between spontaneous intracranial hypotension and post-dural puncture headache: retrospective study
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Gha-Hyun Lee, Jiyoung Kim, Hyun-Woo Kim, and Jae Wook Cho
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Spontaneous intracranial hypotension ,Post-dural puncture headache ,Epidural blood patch ,Magnetic resonance imaging ,Neurology. Diseases of the nervous system ,RC346-429 - Abstract
Abstract Background Spontaneous intracranial hypotension and post-dural puncture headache are both caused by a loss of cerebrospinal fluid but present with different pathogeneses. We compared these two conditions concerning their clinical characteristics, brain imaging findings, and responses to epidural blood patch treatment. Methods We retrospectively reviewed the records of patients with intracranial hypotension admitted to the Neurology ward of the Pusan National University Hospital between January 1, 2011, and December 31, 2019, and collected information regarding age, sex, disease duration, hospital course, headache intensity, time to the appearance of a headache after sitting, associated phenomena (nausea, vomiting, auditory symptoms, dizziness), number of epidural blood patch treatments, and prognosis. The brain MRI signs of intracranial hypotension were recorded, including three qualitative signs (diffuse pachymeningeal enhancement, venous distention of the lateral sinus, subdural fluid collection), and six quantitative signs (pituitary height, suprasellar cistern, prepontine cistern, mamillopontine distance, the midbrain-pons angle, and the angle between the vein of Galen and the straight sinus). Results A total of 105 patients (61 spontaneous intracranial hypotension patients and 44 post-dural puncture headache patients) who met the inclusion criteria were reviewed. More patients with spontaneous intracranial hypotension required epidural blood patch treatment than those with post-dural puncture headache (70.5% (43/61) vs. 45.5% (20/44); p = 0.01) and the spontaneous intracranial hypotension group included a higher proportion of patients who underwent epidural blood patch treatment more than once (37.7% (23/61) vs. 13.6% (6/44); p = 0.007). Brain MRI showed signs of intracranial hypotension in both groups, although the angle between the vein of Galen and the straight sinus was greater in the post-dural puncture headache group (median [95% Confidence Interval]: 85° [68°-79°] vs. 74° [76°-96°], p = 0.02). Conclusions Patients with spontaneous intracranial hypotension received more epidural blood patch treatments and more often needed multiple epidural blood patch treatments. Although both groups showed similar brain MRI findings, the angle between the vein of Galen and the straight sinus differed significantly between the groups.
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- 2021
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41. Mitochondrial DNA Corroborates the Genetic Variability of Clarias Catfishes (Siluriformes, Clariidae) from Cameroon
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Shantanu Kundu, Piyumi S. De Alwis, Jerome D. Binarao, Soo-Rin Lee, Ah Ran Kim, Fantong Zealous Gietbong, Myunggi Yi, and Hyun-Woo Kim
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walking catfish ,DNA barcoding ,haplotypes ,phylogeny ,genetic diversity ,Science - Abstract
The airbreathing walking catfish (Clariidae: Clarias) comprises 32 species that are endemic to African freshwater systems. The species-level identification of this group is challenging due to their complex taxonomy and polymorphism. Prior to this study, the biological and ecological studies were restricted to a single species, Clarias gariepinus, resulting in a biased view of their genetic diversity in African waters. Here, we generated the 63-mitochondrial Cytochrome c oxidase subunit 1 (COI) gene sequences of Clarias camerunensis and Clarias gariepinus from the Nyong River in Cameroon. Both C. camerunensis and C. gariepinus species maintained adequate intra-species (2.7% and 2.31%) and inter-species (6.9% to 16.8% and 11.4% to 15.1%) genetic distances with other Clarias congeners distributed in African and Asian/Southeast Asian drainages. The mtCOI sequences revealed 13 and 20 unique haplotypes of C. camerunensis and C. gariepinus, respectively. The TCS networks revealed distinct haplotypes of C. camerunensis and shared haplotypes of C. gariepinus in African waters. The multiple species delimitation approaches (ABGD and PTP) revealed a total of 20 and 22 molecular operational taxonomic units (MOTUs), respectively. Among the two Clarias species examined, we found more than one MOTU in C. camerunensis, which is consistent with population structure and tree topology results. The phylogeny generated through Bayesian Inference analysis clearly separated C. camerunensis and C. gariepinus from other Clarias species with high posterior probability supports. The present study elucidates the occurrence of possible cryptic diversity and allopatric speciation of C. camerunensis in African drainages. Further, the present study confirms the reduced genetic diversity of C. gariepinus across its native and introduced range, which might have been induced by unscientific aquaculture practices. The study recommends a similar approach to the same and related species from different river basins to illuminate the true diversity of Clarias species in Africa and other countries.
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- 2023
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42. Plum-Derived Exosome-like Nanovesicles Induce Differentiation of Osteoblasts and Reduction of Osteoclast Activation
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Yu-Seong Park, Hyun-Woo Kim, Jin-Hyeon Hwang, Jung-Young Eom, Dong-Ha Kim, Jinho Park, Hyun-Jin Tae, Seunghoon Lee, Jae-Gyu Yoo, Jee-In Kim, Jae-Hwan Lim, In-Sook Kwun, Moon-Chang Baek, Young-Eun Cho, and Do-Kyun Kim
- Subjects
plum-derived exosome-like nanovesicles (PENVs) ,exosome-like nanovesicles ,osteoblasts ,osteoclasts ,bone remodeling ,BMP-2 signaling ,Nutrition. Foods and food supply ,TX341-641 - Abstract
Osteoblasts and osteoclasts play crucial roles in bone formation and bone resorption. We found that plum-derived exosome-like nanovesicles (PENVs) suppressed osteoclast activation and modulated osteoblast differentiation. PENVs increased the proliferation, differentiation, and mineralization of osteoblastic MC3T3-E1 cells and osteoblasts from mouse bone marrow cultures. Notably, PENVs elevated the expression of osteoblastic transcription factors and osteoblast differentiation marker proteins in MC3T3-E1 cells. Higher levels of phosphorylated BMP-2, p38, JNK, and smad1 proteins were detected in PENV-treated MC3T3-E1 cells. Additionally, the number of TRAP-positive cells was significantly decreased in PENV-treated osteoclasts isolated from osteoblasts from mouse bone marrow cultures. Importantly, osteoclastogenesis of marker proteins such as PPAR-gamma, NFATc1, and c-Fos were suppressed by treatment with PENVs (50 μg/mL). Taken together, these results demonstrate that PENVs can be used as therapeutic targets for treating bone-related diseases by improving osteoblast differentiation and inhibiting osteoclast activation for the first time.
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- 2023
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43. Mitochondriomics of Clarias Fishes (Siluriformes: Clariidae) with a New Assembly of Clarias camerunensis: Insights into the Genetic Characterization and Diversification
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Piyumi S. De Alwis, Shantanu Kundu, Fantong Zealous Gietbong, Muhammad Hilman Fu’adil Amin, Soo-Rin Lee, Hyun-Woo Kim, and Ah Ran Kim
- Subjects
catfish ,primer walking ,mitogenome ,phylogenetics ,evolution ,diversification ,Science - Abstract
The mitogenome of an endemic catfish Clarias camerunensis was determined from the Cameroon water. This circular mitogenome was 16,511 bp in length and comprised 13 protein-coding genes, 2 ribosomal RNAs, 22 transfer RNAs, and a single AT-rich control region. The heavy strand accommodates 28 genes, whereas the light strand is constituted by ND6 and eight transfer RNA (tRNA) genes. The C. camerunensis mitochondrial genome is AT biased (56.89%), as showcased in other Clarias species. The comparative analyses revealed that most of the Clarias species have 6 overlapping and 11 intergenic spacer regions. Most of the PCGs were initiated and terminated with the ATG start codon and TAA stop codon, respectively. The tRNAs of C. camerunensis folded into the distinctive cloverleaf secondary structure, except trnS1. The placement of the conserved domains in the control region was similar in all the Clarias species with highly variable nucleotides in CSB-I. Both maximum likelihood and Bayesian-based matrilineal phylogenies distinctly separated all Clarias species into five clades on the basis of their known distributions (South China, Sundaland, Indochina, India, and Africa). The TimeTree analysis revealed that the two major clades (Indo-Africa and Asia) of Clarias species might have diverged during the Paleogene (≈28.66 MYA). Our findings revealed the separation of Indian species (C. dussumieri) and African species (C. camerunensis and Clarias gariepinus) took place during the Paleogene, as well as the South Chinese species (Clarias fuscus) and Sundaland species (Clarias batrachus) splits from the Indochinese species (Clarias macrocephalus) during the Neogene through independent colonization. This pattern of biotic relationships highlights the influence of topography and geological events in determining the evolutionary history of Clarias species. The enrichment of mitogenomic data and multiple nuclear loci from their native range or type locality will confirm the true diversification of Clarias species in African and Asian countries.
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- 2023
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44. Anti-Yo-associated autoimmune encephalitis after colon cancer treatment
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Na-Yeon Jung, Kyoung-Nam Woo, Jae Wook Cho, and Hyun-Woo Kim
- Subjects
anti-yo antibody ,autoimmune encephalitis ,colon cancer ,seizure ,Neurology. Diseases of the nervous system ,RC346-429 - Abstract
Background Anti-Yo antibodies are classically associated with paraneoplastic cerebellar degeneration in ovarian and breast cancers and are rarely seen in colon cancer. Anti-Yo-associated paraneoplastic autoimmune encephalitis in colon cancer is rare. Case Report A 66-year-old man presented with new-onset seizures after completion of a scheduled treatment for colon cancer. Magnetic resonance imaging showed hyperintense signals with enhancement in the left temporal lobe and insular cortex. Cerebrospinal fluid findings included pleocytosis and elevated protein levels, while Yo antibodies were detected in the serum. There was no relapse of colon cancer, nor were any new cancers found. The patient’s symptoms and laboratory test results improved after the administration of high-dose steroids, intravenous immunoglobulin, and plasmapheresis with antiepileptic drugs. Conclusion This is a rare case of autoimmune encephalitis with anti-Yo antibodies. The appearance of new-onset seizures during the treatment of malignancy should raise suspicions for paraneoplastic autoimmune encephalitis, even after surgery and chemotherapy are completed.
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- 2020
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45. Environmental DNA Metabarcoding Analysis of Fish Assemblages and Phytoplankton Communities in a Furrowed Seabed Area Caused by Aggregate Mining
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Eun-Bi Kim, Hyun Sagong, Ji-Hyun Lee, Gyungryul Kim, Dae-Hyeon Kwon, Yeonghye Kim, and Hyun-Woo Kim
- Subjects
aggregate mining ,eDNA ,fish assemblage ,Korea ,metabarcoding ,Science ,General. Including nature conservation, geographical distribution ,QH1-199.5 - Abstract
To estimate the impact of aggregate mining on a marine ecosystem, fish assemblages and phytoplankton communities were analyzed using environmental DNA metabarcoding. Metabarcoding analysis revealed 152 fish amplicon sequence variants (ASVs) (88 in September and 118 in February), which were assigned to 29 orders, 62 families, 104 genera, and 114 species (73 in September and 89 in February). Heatmap analysis showed that the fish assemblages in the mining area clearly differed from those in the surrounding area and that Pagrus major, Lateolabrax japonicus, Zeus faber, and Eopsetta grigorjewi were significantly more abundant there than in the surrounding area. In the phytoplankton community in September, the phyla Cyanobacteria and Haptophyta differed significantly between the mining area and its surroundings. By contrast, no such significant differences were identified in February, presumably due to the low temperature impeding phytoplankton growth. Taking these findings together, mining activities clearly affect fish and phytoplankton communities, but further long-term study is required to assess their impacts on marine ecosystems.
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- 2022
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46. Sinus floor augmentation using mixture of mineralized cortical bone and cancellous bone allografts: Radiographic and histomorphometric evaluation
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Hyun-Woo Kim, Kyeong-Ok Lim, Won-Pyo Lee, Yo-Seob Seo, Hong-In Shin, Seong-Ho Choi, Byung-Ock Kim, and Sang-Joun Yu
- Subjects
Allografts ,Bone regeneration ,Bone substitutes ,Sinus floor augmentation ,Xenografts ,Dentistry ,RK1-715 - Abstract
Background/purpose: Due to the pneumatization of the maxillary sinus, the sinus floor augmentation is often performed to implant placement in the maxillary posterior region. The aim was to perform radiographic and histomorphometric evaluation after placement of mixed allografts (cortical freeze-dried bone allograft [FDBA] 50%:cancellous FDBA 50%) during sinus floor augmentation. Materials and methods: In 37 patients, anorganic bovine bone (ABB, sites = 16), mineralized cancellous bone allograft (MCBA, sites = 15), and mixed allografts (Mixed AG, sites = 20) were placed during sinus floor elevation via the lateral approach (LSFE), at total 51 sites with residual alveolar bone height (RBH) 0.05). The mean ABH of ABB, MCBA, and mixed AG groups after 6 months was similar (13.72 ± 4.55 mm, 11.83 ± 3.31 mm, and 12.53 ± 2.97 mm, respectively; P > 0.05). In the ABB, MCBA, and mixed AG groups, the proportion of newly formed bone (NB) was similar (36.13 ± 10.01%, 39.26 ± 10.72%, and 31.27 ± 18.31%, respectively; P > 0.05). Conclusion: This result demonstrated that mixed AG led to sufficient bone augmentation and histologically comparable NB formation as compared to ABB and MCBA for sinus floor augmentation.
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- 2020
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47. Trophic response to ecological conditions of habitats: Evidence from trophic variability of freshwater fish
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Bohyung Choi, Changhwa Lee, Yuko Takizawa, Yoshito Chikaraishi, Hye‐Ji Oh, Kwang‐Hyeon Chang, Min‐Ho Jang, Hyun‐Woo Kim, Kyung‐Lak Lee, and Kyung‐Hoon Shin
- Subjects
CSIA of amino acids ,generalists ,nitrogen stable isotope ,specialists ,trophic niche ,trophic position ,Ecology ,QH540-549.5 - Abstract
Abstract To adapt to ecological and environmental conditions, species can change their ecological niche (e.g., interactions among species) and function (e.g., prey‐predation, diet competition, and habitat segregation) at the species and guild levels. Stable isotope analysis of bulk carbon and nitrogen of organisms has conventionally been used to evaluate such adaptabilities in the scenopoetic and bionomic views as the isotopic niche width. Compound‐specific stable isotope analysis (CSIA) of nitrogen within amino acids provides trophic information without any disruption of scenopoetic views in the isotope ratios, unlike conventional bulk isotope analysis provides both information and therefore frequently hinders its usefulness for trophic information. We performed CSIA of amino acids to understand the trophic variability of the pike gudgeon Pseudogobio esocinus and largemouth bass Micropterus salmoides as representative specialist and generalist fish species, respectively, from 16 ecologically variable habitats in the four major rivers of Korea. There was little variation (1σ) in the trophic position (TP) among habitats for P. esocinus (± 0.2); however, there was considerably large variation for M. salmoides (± 0.6). The TP of M. salmoides was negatively correlated with the benthic invertebrate indices of the habitats, whereas the TP of P. esocinus showed no significant correlation with any indices. Thus, these two representative fish species have different trophic responses to ecological conditions, which is related to known differences in the trophic niche between specialists (i.e., small niche width) and generalists (i.e., large niche width). Over the past four decades, the conventional bulk isotope analysis has not been capable of deconvoluting “scenopoetic” and “bionomic” information. However, in the present study, we demonstrated that the CSIA of amino acids could isolate trophic niches from the traditional ecological niche composed of trophic and habitat information and evaluated how biological and ecological indices influence the trophic response of specialists and generalists.
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- 2020
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48. Sharing Scientific Evidence of the Response of Aquatic Animals to Environmental Change
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Chang-Keun Kang, Hyun-Woo Kim, Hyun Je Park, and Chung Il Lee
- Subjects
n/a ,Biology (General) ,QH301-705.5 ,Genetics ,QH426-470 - Abstract
Aquatic animals, which are ecologically important consumers in aquatic ecosystems and widely distributed in rivers, lakes, and seas, which occupy 70% of the earth’s surface, respond in unique ways to environmental changes at various temporal and spatial scales, and have optimized strategies for survival [...]
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- 2023
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49. First Mitogenome of Endangered Enteromius thysi (Actinopterygii: Cypriniformes: Cyprinidae) from Africa: Characterization and Phylogeny
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Shantanu Kundu, Jerome D. Binarao, Piyumi S. De Alwis, Ah Ran Kim, Soo-Rin Lee, Sapto Andriyono, Fantong Zealous Gietbong, and Hyun-Woo Kim
- Subjects
freshwater fish ,threatened species ,primer walking ,mitogenome ,evolution ,Biology (General) ,QH301-705.5 ,Genetics ,QH426-470 - Abstract
The complete mitochondrial genome of endangered Enteromius thysi was determined from Cameroon in Western Africa. The genome was 16,688 bp in length, comprising 37 genes (13 PCGs, 2 rRNAs, 22 tRNAs, and an AT-rich control region). The heavy strand accommodates 28 genes (12 PCGs, 2 rRNAs, and 14 tRNAs), whereas the light strand holds 9 genes (NAD6 and 8 tRNAs). The E. thysi mitogenome is AT-biased (60.5%), as exhibited in other Enteromius species. Most of the PCGs start with the ATG initiation codon, except COI, with GTG, and seven PCGs end with the TAA termination codon, except some with an incomplete termination codon. Most of the tRNAs showed classical cloverleaf secondary structures, except tRNA-serine (trnS1). Bayesian phylogeny distinctly separated E. thysi from other congeners. The control regions of Enteromius species exhibited highly variable nucleotides, and parsimony-informative sites were found in the conserved sequence block-III (CSB-III) compared with other domains and a unique 9 bp tandem repeat (ATGCATGGT) in the variable-number tandem repeats (VNTRs) region of E. thysi. The present phylogeny with limited mitogenomes showed an uneven diversity and evolutionary patterns of Enteromius species distributed in the northwestern and southeastern riverine systems in Africa, which warrants further investigation. Based on the results of the present study, we recommend additional surveys, in-depth taxonomy, and the generation of more mitogenomes that could resolve the diversification pattern of Enteromius species in Africa.
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- 2022
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50. Mitochondrial DNA and Distribution Modelling Evidenced the Lost Genetic Diversity and Wild-Residence of Star Tortoise, Geochelone elegans (Testudines: Testudinidae) in India
- Author
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Shantanu Kundu, Tanoy Mukherjee, Ah Ran Kim, Soo-Rin Lee, Abhishek Mukherjee, Won-Kyo Jung, and Hyun-Woo Kim
- Subjects
testudines ,wildlife trafficking ,conservation genetics ,suitable habitat ,translocation ,conservation ,Veterinary medicine ,SF600-1100 ,Zoology ,QL1-991 - Abstract
The Indian star tortoise (Geochelone elegans) is a massively traded animal in South Asia. To mitigate this risk, the conservation agencies recommended guidelines to safeguard this charismatic species in nature. We adopted mitochondrial DNA-based investigation and performed species distribution modeling of G. elegans throughout its distribution range in the Indian subcontinent. The genetic analyses revealed weak genetic landscape shape interpolations, low intraspecific distances (0% to 1.5%) with mixed haplotype diversity, and a single molecular operational taxonomic unit (MOTU) in the cytochrome b gene dataset. The star tortoise, G. elegans, and its sister species Geochelone platynota showed a monophyletic clustering in the Bayesian (BA) phylogeny. We also attempt to understand the habitat suitability and quality of G. elegans in its distribution range. Our results suggest that, out of the extant area, only 56,495 km2 (9.90%) is suitable for this species, with regions of highest suitability in Sri Lanka. Comparative habitat quality estimation suggests the patch shape complexity and habitat fragmentation are greater in the western and southern ranges of India, which have been greatly influenced by an increased level of urbanization and agriculture practices. We have also provided a retrospect on the potential threat to G. elegans related to the wildlife trade on the regional and international spectrum. Our results detected multiple trading hubs and junctions overlying within the suitable ranges which need special attention in the vicinity. The present study calls for a proper conservation strategy to combat the fragmented distribution and explicitly recommends intensive genetic screening of founder individuals or isolated adult colonies, implementing scientific breeding, and subsequent wild release to restore the lost genetic diversity of star tortoises.
- Published
- 2022
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