• Biomedical Science Letters
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• v.24 no.4
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• pp.430-434
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• 2018

Candida glabrata is the second most prevalent causative agent for candidiasis following C. albicans. The opportunistic yeast, C. glabrata, is able to cause the critical bloodstream infections in hospitalized patients. Conventional identification methods for yeasts are often time consuming and labor intensive. Therefore, recent studies on sequence-based identification have been conducted. Recently, sequencing the D1/D2 domain of the large subunit ribosomal RNA gene and the internal transcribed spacers (ITS) 1 and ITS2 regions of the ribosomal DNA has proven useful for DNA-based identification of most species of fungi. In the present study, therefore, fungal ITS and D1/D2 domain regions were targeted and analyzed by DNA sequencing for the accurate identification of C. glabrata clinical isolates. A total of 102 C. glabrata clinical isolates from various clinical samples including bloodstream, catheterized urine, bile and other body fluids were used in the study. The results of the DNA sequence analysis showed that the mean standard deviation of species identity percent score between ITS and D1/D2 domain regions was $97.8%{\pm}2.9$ and $99.7%{\pm}0.46$, respectively. These results revealed that the D1/D2 domain region might be a better target for identifying C. glabrata clinical isolates based on DNA sequences than the ITS1 and ITS2 regions. However, in order to evaluate the usefulness of D1/D2 domain region for species identification of all Candida species, other Candida species such as C. albicans, C. tropicalis, C. dubliniensis, and C. krusei should be verified in further studies additionally.

• Mycobiology
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• v.38 no.4
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• pp.229-237
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• 2010

Members of the genus Aspergillus are the most common fungi and all reproduce asexually by forming long chains of conidiospores (or conidia). The impact of various Aspergillus species on humans ranges from beneficial to harmful. For example, several species including Aspergillus oryzae and Aspergillus niger are used in industry for enzyme production and food processing. In contrast, Aspergillus flavus produce the most potent naturally present carcinogen aflatoxins, which contaminate various plant- and animal-based foods. Importantly, the opportunistic human pathogen Aspergillus fumigatus has become the most prevalent airborne fungal pathogen in developed countries, causing invasive aspergillosis in immunocompromised patients with a high mortality rate. A. fumigatus produces a massive number of small hydrophobic conidia as the primarymeans of dispersal, survival, genome-protection, and infecting hosts. Large-scale genome-wide expression studies can now be conducted due to completion of A. fumigatus genome sequencing. However, genomics becomes more powerful and informative when combined with genetics. We have been investigating the mechanisms underlying the regulation of asexual development (conidiation) and gliotoxin biosynthesis in A. fumigatus, primarily focusing on a characterization of key developmental regulators identified in the model fungus Aspergillus nidulans. In this review, I will summarize our current understanding of how conidiation in two aspergilli is regulated.

• Tuberculosis and Respiratory Diseases
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• v.74 no.5
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• pp.215-221
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• 2013

Background: Nontuberculous mycobacteria (NTM) are considered opportunistic pathogens, and several species of NTM are associated with human diseases that typically involve the pulmonary, skin/soft tissue, or lymphatic systems; such infection may also cause disseminated diseases. Recent studies have reported increasing rates of NTM-induced disease worldwide. Methods: Respiratory samples are being analyzed for acid-fast bacilli (AFB) culture and NTM identification at Dankook University Hospital in Cheonan, Korea, from September 2005 to September 2011. Identification is performed by using polymerase chain reaction-restriction fragment length polymorphism analysis targeting a novel region of the rpoB gene. Results: A total of 25,133 specimens were received for AFB culture, of which 1,014 (4.0%) were NTM-positive. A total of 267 samples from 186 patients were tested for NTM identifications, and 232 samples from 157 patients were positive for NTM species. Among the patients who tested positive for NTM, 65.6% were men and the average age was 63.3 years. Mycobacterium avium complex, the most commonly detected NTM pathogen, was found in 65.9% of the 232 samples. The annual average percentage of NTM isolates from AFB culture-positive specimens was 31.3%: the highest rate was seen in 2011 (44.3%), followed by 2009 (37.4%) and 2010 (37.2%). An upward trend in NTM incidence was found during the study period. Conclusion: The prevalence of pulmonary NTM isolates continues to increase in Cheonan, suggesting that pulmonary NTM disease is becoming increasingly common.

• ALGAE
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• v.22 no.3
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• pp.209-219
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• 2007

Marine algal flora and community structure of medicinal seaweeds were examined at Kkotji of Taean Peninsula, Korea from May 2005 to January 2006. Seventy-nine seaweeds including 42 medicinal algae and one marine plant were identified. Sargassum thunbergii was the representative alga occurred at all seasons and shore levels. The dominant medicinal seaweeds were perennial S. thunbergii, Neorhodomela aculeata, and Corallina pilulifera, and ephemeral Monostroma grevillei, Porphyra yezoensis, and Ulva pertusa. Their vertical distribution were N. aculeata – P. yezoensis, M. grevillei, and U. pertusa – C. pilulifera from high to low intertidal zone. The average biomass of medicinal seaweeds varied from 34.17 g m–2 in spring to 56.41 g m–2 in summer. At Kkotji shore, the opportunistic species (Enteromorpha, Ulva, and Cladophora) and turf-forming algae (Caulacanthus okamurae and Gelidium divaricatum) were easily observed. Such fast growing ESG II (ecological state group) was 87.50% and slow growing perennial algae, ESG I was only 12.15%. Also, diversity index (H’) and dominance index (DI) indicate that the seaweed community of Kkotji is unstable. Therefore, Kkotji rocky shore should be more protected from human activities such as turbulence and eutrophication in order to maintain species diversity and abundance of medicinal seaweeds.

• Ocean and Polar Research
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• v.42 no.3
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• pp.233-247
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• 2020

This study was carried out at 5 sites 11 times over two years to identify the variation of benthic environments and benthic polychaetous community and analyze the benthic healthiness in Dangdong Bay, a small semi-enclosed inner bay of Jinhae Bay. The temperature of bottom water showed the typical temporal fluctuation of a temperate zone and was in the range of 5.94 ~ 23.94℃. The salinity did not change significantly during the study period and was in the range of 32.93 ~ 35.72 psu. The concentration of dissolved oxygen of bottom water fluctuated a great deal and was in the range of 0.31 ~ 10.20 mg/L. The lowest DO value was recorded in July 2015, as 0.31±0.04 mg/L corresponding to the hypoxic water mass. The hypoxic water mass was formed continuously at some sites also in July and August 2016. The mean grain size was in the range of 7.57 ~ 9.81Ø and the average was 8.89±0.20Ø. The surface sediments were mainly composed of fine sediment (mud) above 85%. The mean of TOC was 3.09±0.22% and LOI was 13.30±0.47%, showing very high levels in Korean coastal waters. The concentration of AVS was in the range of 0.33 ~ 1.28 mgS/g-dry. The high values of organic contents and AVS indicated that there had been the serious organic enrichment in Dangdong Bay. The number of species and the density of the benthic polychaetous community in Dangdong Bay were in the range of 2 ~ 38 species and 2 ~ 2,185 ind./㎡ during the study period. The number of species and density were highly sustained in winter and spring, and then decreased gradually with the formation of a hypoxic water mass in summer, and the lowest number of species and density were recorded in autumn. In September and November 2015, the dead zone expanded to almost the whole study area. Dominant polychaetous species were Capitella capitata, Lumbrineris longifolia, Paraprionospio patiens and Sigambra tentaculata, each known as opportunistic species and potential organic pollutant indicator species. In particular, Paraprionospio patiens showed a very high population density of 2,019 ind./㎡ in December 2016. Polychaetous communities at each sampling time were classified into 4 temporal groups according to dominant species in each period by cluster analysis and nMDS. 'Period Group AI' was formed in winter and spring of 2015, dominated by Capitella capitata, 'Period AII' in summer dominated by Lumbrineris longifolia, 'Period B' in autumn with no fauna in the dead zone, and particularly 'Period C' in winter of 2016 dominated by Paraprionospio patiens. As a result of analysis of benthic healthiness, the study area was estimated to be in a Fair~Very Poor condition by AMBI and in a Poor~Very Poor condition by BPI during the study period. Both AMBI and BPI showed that the study area was in a Very Poor condition in September and November 2015, and when the dead zone occurred. In Dongdong Bay, the fact that the formation of a hypoxic water mass occurred in summer and a dead zone in autumn were confirmed. In addition, the dominance of opportunistic and organic pollutant indicator species was also observed clearly. The benthic healthiness indexes such as AMBI and BPI showed that organic enrichment was serious in Dangdong Bay.

• Journal of Oral Medicine and Pain
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• v.47 no.1
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• pp.52-61
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• 2022

Purpose: Most cases of oral and maxillofacial infections are usually easily treated by proper diagnosis, elimination of causative factors, and antibiotic therapy. However, the emergence and the increase of multidrug-resistant bacteria make treatment challenging. "ESKAPE" pathogens are the most common opportunistic organisms in nosocomial infections and have resistant to commonly used antibiotics. There are many medical reviews of ESKAPE pathogens, but few in dentistry. This study focuses on oral and maxillofacial infection especially with ESKAPE pathogens. The purpose of this study is to prepare feasible data about tracing and treatment of infection related to pathogens that may be beneficial to clinicians. Methods: A total of 154 patients with oral and maxillofacial infections were reviewed by analyzing retrospectively hospitalized data in the Department of Oral and Maxillofacial surgery, Chosun University Hospital, Korea, past 5 years from January 2014 to December 2018. Based on the medical records and microbiological tests, the results were divided into two groups: infections with ESKAPE pathogens and other bacteria. Results: A total of 22 species were isolated from 154 patients. The proportion of ESKAPE pathogens among all bacterial isolates collected from infected patients was 39.6%. Causative factors, especially in post-operative infection, showed a statistically significant correlation to ESKAPE infections (29 cases). And average of treatment period in ESKAPE group was longer than non-ESKAPE groups. Overall, Klebsiella pneumoniae (60.7%) was the most frequently isolated ESKAPE pathogen. And high antibiotic resistance rates had been detected in the ESKAPE during the five-year period. Conclusions: Infections with ESKAPE pathogens are now a problem that can no longer be overlooked in Dentistry. Based on results of this study, ESKAPE pathogens were highly associated with post-operative or opportunistic infections. Clinicians should be careful about these antibiotic resistant pathogens and use appropriate antibiotics to patients while having dental treatments.

• Korean Journal of Clinical Laboratory Science
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• v.48 no.1
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• pp.15-21
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• 2016

Aspergillus is the most common opportunistic fungus causing infection. Aspergillus is the most morphologically identified in the laboratory. Recently, molecular genetic methods have been proposed for identification of fungi that unidentified morphologically or identified genus level. Of 475 cases of Aspergillus isolated from clinical specimens, there were Aspergillus fumigatus 257 (54.1%), A. niger 101 (21.3%), A. flavus 43 (9.1%), A. terreus 29 (6.1%), Aspergillus nidulans 2 (0.4%), Aspergillus clavatus 1 (0.2%), and the Aspergillus species 42 (8.8%). Eleven cases of unidentified or identified at the genus level included Aspergillus fumigatus 5, Aspergillus falvus 1, Aspergillus terreus 1, and Aspergillus lentulus 1 was identified in the sequencing of the strain level. It was identified as Aspergillus versicolor 2, and Emericella parvathecia 1. 92.2% of Aspergillus was identified as a possible morphological, 8.8% could not be identified at the species level. Sequence-based molecular analysis using the ITS and D1D2 is considered useful for identification of the species level.

• Ocean and Polar Research
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• v.30 no.4
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• pp.497-507
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• 2008

With the reduction of tidal currents by the closing of the Saemangeun 4th dyke, sedimentary environments on the Gunsan tidal flat, the nearest inner flat from the 4th dyke, has been severely changed, which might affect macrobenthic assemblages on the habitats. In order to investigate changes in macrobenthic community structure on Gunsan tidal flat, field surveys were seasonally conducted at seven stations from April 2002 to November, 2005. Sedimentary facies on the study area were shifted into muddominant facies. The fine sediment has been greatly deposited on the tidal flat with accumulation of organic materials after closing the water passage of 4th dyke section. These drastic variations in environments gave rise to change in macrobenthic community structure. Since the closure of the 4th dyke, the number of species of macrobenthos has gradually decreased. And the filter feeders and sand-favored species such as Urothoe convexa, Macrophthalmus dilatatus, Umbonium thomasi, and Mactra veneriformis have been replaced by the deposit feeders such as Macrophthalmus japonicus and Ilyoplax pingi. MDS ordination based on Bray-Curtis similarity from forth-root transformed species abundance data showed that the macrobenthic communities have passed through three succession stages from 2002 to 2005. During the third stage of 2005 opportunistic species such as Prionospio japonica, Heteromastus filiformis and Sinocorophium sinensis increased in population on the tidal flat.

• Korean Journal of Veterinary Research
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• v.47 no.3
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• pp.321-324
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• 2007

Pneumocystis (P.) carinii is an opportunistic fungal pathogen of many animal species and human, which can cause fatal pneumonia in immunocompromised individuals. Three 100-day-old pigs with progressive atrophy, anorexia and respiratory distress were submitted to the Cheju National University for diagnosis. Grossly, the lungs were enlarged with rubbery consistency. Histopathologically, the lungs were characterized by diffuse interstitial pneumonia with thickening of alveolar septa due to infiltration of macrophages and lymphocytes. Alveolar lumens were filled with a foamy eosinophilic proteinaceous material in which numerous punctiform organisms. The organisms were demonstrated as P. carinii by Grocott-methenamine-silver staining and immunohistochemistry in lungs of two pigs. In our best knowledge, this is believed to be the first report of P. carinii pneumonia in pigs in Korea.

• Korean Journal of Environment and Ecology
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• v.38 no.2
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• pp.127-142
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• 2024

This study aimed to understand the interrelationships between tree species in plant communities through Plant Social Network (PSN) analysis using a large amount of vegetation data surveyed in an island area belonging to a warm-temperate boreal forest. The Machilus thunbergii, Castanopsis sieboldii, and Ligustrum japonicum, which belong to the canopy layer, Pittosporum tobira and Ardisia japonica, which belong to the shrub layer and Trachelospermum asiaticum and Stauntonia hexaphylla, which belong to the vines, appearing in evergreen broad-leaved climax forest community, showed strong positive association(+) with each other. These tree species had a negative association or no friendly relationship with deciduous broad-leaved species due to the large difference in location environments. Divided into 4 group modularizations in the PSN sociogram, evergreen broad-leaved tree species in Group I and deciduous broad-leaved tree species in Group II showed high centrality and connectivity. It was analyzed that the arrangement of tree species (nodes) and the degree of connection (grouping) of the sociogram can indirectly estimate environmental factors and characteristics of plant communities like DCA. Tree species with high centrality and influence in the PSN included T. asiaticum, Eurya japonica, Lindera obtusiloba, and Styrax japonicus. These tree species are common with a wide range of ecological niches and appear to have the characteristics and survival strategies of opportunistic species that commonly appear in forest gaps and damaged areas. They will play a major role in inter-species interactions and structural and functional changes in plant communities. In the future, long-term research and in-depth discussions are needed to determine how these species actually influence plant community changes through interactions