• Journal of Microbiology and Biotechnology
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• v.29 no.3
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• pp.441-453
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• 2019

Organic farming is considered an effective form of sustainable agricultural management. However, understanding of soil microbial diversity and composition under long-term organic and conventional farming is still limited and controversial. In this study, the Illumina MiSeq platform was applied to investigate the responses of soil bacterial and fungal diversity and compositions to organic farming (OF) and improved conventional farming (CF, applied straw retention) in the rice-wheat rotation system. The results highlighted that the alpha diversity of microbial communities did not differ significantly, except for higher bacterial diversity under OF. However, there were significant differences in the compositions of the soil bacterial and fungal communities between organic and conventional farming. Under our experimental conditions, through the ecological functional analysis of significant different or unique bacterial and fungal taxonomic members at the phyla and genus level, OF enhanced nitrogen, sulfur, phosphorus and carbon dynamic cycling in soil with the presence of Nodosilinea, Nitrospira, LCP-6, HB118, Lyngbya, GOUTA19, Mesorhizobium, Sandaracinobacter, Syntrophobacter and Sphingosinicella, and has the potential to strengthen soil metabolic ability with Novosphingobium. On the other hand, CF increased the intensity of nitrogen cycling with Ardenscatena, KD1-23, Iamia, Nitrosovibrio and Devosia, but enriched several pathogen fungal members, including Coniochaeta, Corallomycetella, Cyclaneusma, Cystostereum, Fistulina, Curvularia and Dissoconium.

• Journal of Korean Society on Water Environment
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• v.35 no.2
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• pp.152-164
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• 2019

In this study, a Benthic Macroinvertebrates Family Index (BMFI) was developed using 100 indicator groups (99 families including Chironomidae with 2 phena). Families were assigned a score between 1 and 10 depending on their sensitivity to organic pollution. The BMFI was composed of the sensitivity and relative abundance of the indicator taxa. Sensitivity values of each group were generally similar to Biological Monitoring Working Party (BMWP) scores or Walley, Hawkes, Paisley, Trigg (WHPT) scores of UK, Japanese BMWP scores, and the FBI tolerance values of North America. However, sensitivity values of some taxa were significantly different from those of foreign countries, which seemed to have resulted from discrepancy in species composition, difference of taxonomic classification system, or methodological difference for estimation of sensitivity. As an annual average level, BMFI showed significant correlation with concentration of 5-day biochemical oxygen demand (BOD5) (correlation coefficient r = -0.80, n = 569 sites), total suspended solids (r = -0.68), and total phosphorus (r = -0.79). In addition, BMFI revealed strong correlation with Shannon-Weaver's species diversity (r = 0.85), Margalef's species richness (r = 0.85) and McNaughton's dominance (r = -0.84). Correlation between BMFI and water quality parameters or community indices such as species diversity did not show significant difference compared to that of species-level indices such as BMI (Benthic Macroinvertebrates Index). This means that BMFI is a more useful indicator in terms of easy identification of organisms. BMFI was used to assess the environmental status of 3,017 sites of Stream Ecosystem Survey conducted by the Korean Ministry of Environment between 2016 and 2018. As a result, about half of all sites appeared to be in good condition, and a quarter in poor condition.

• Food Science of Animal Resources
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• v.41 no.4
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• pp.701-714
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• 2021

In this study, the microbial community succession and the protein hydrolysis of donkey meat during refrigerated (4℃) storage were investigated. 16S rDNA sequencing method was used to analyze the bacteria community structure and succession in the level of genome. Meanwhile, the volatile base nitrogen (TVB-N) was measured to evaluate the degradation level of protein. After sorting out the sequencing results, 1,274,604 clean data were obtained, which were clustered into 2,064 into operational taxonomic units (OTUs), annotated to 32 phyla and 527 genus. With the prolonging of storage time, the composition of microorganism changed greatly. At the same time, the diversity and richness of microorganism decreased and then increased. During the whole storage period, Proteobacteria was the dominant phyla, and the Photobacterium, Pseudompnas, and Acinetobacter were the dominant genus. According to correlation analysis, it was found that the abundance of these dominant bacteria was significantly positively correlated with the variation of TVB-N. And Pseudomonas might play an important role in the production of TVB-N during refrigerated storage of donkey meat. The predicted metabolic pathways, based on PICRUSt analysis, indicated that amino metabolism in refrigerated donkey meat was the main metabolic pathways. This study provides insight into the process involved in refrigerated donkey meat spoilage, which provides a foundation for the development of antibacterial preservative for donkey meat.

• Journal of Animal Science and Technology
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• v.63 no.1
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• pp.125-136
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• 2021

Bovine coronavirus (BCoV) is associated with severe diarrhea, dehydration, and depression, which result in significant economic damages in the dairy and beef cattle industries worldwide. However, differences in the gut microbiota structure and their correlations with differing physiological parameters between BCoV-infected calves with diarrhea and recovered calves are not well understood. In this study, fecal specimens were collected from 10 post-weaned calves, before and after 2 months of fluid therapy, and the samples were used for microbiota analysis. Following recovery, the alpha-diversity profiles (observed operational taxonomic units [OTUs], and Chao1, Shannon, and Simpson indices) changed significantly when compared with those of calves with diarrhea. Beta-diversity analysis exhibited significant differences in gut microbiota compositions between calves with diarrhea and those in the recovered state. The abundances of eight phyla and thirteen genera in feces changed markedly after restoration of BCoV diarrhea. In addition, our correlation study clearly revealed that increased abundances of the genera Caproiciproducens, Pseudoflavonifractor, and Oscillibacter negatively correlated with serum glucose, and phosphorus levels, but positively correlated with serum chloride in calves with diarrhea, whereas increased abundances of the genera Peptostreptococcaceae;Clostridium (Clostridium cluster XI), Intestinibacter, Cellulosilyticum, Ruminococcus, Romboutsia, Paeniclostridium, Clostridiaceae;Clostridium and Turicibacter in recovered calves showed the opposite pattern. These results suggest that structural changes of the gut microbiota after recovery from BCoV infection correlate with changes in physiological parameters. In conclusion, our data provide evidence of gut microbiota-composition changes and their correlations with the physical profiles of post-weaned calves, before and after fluid therapy for BCoV-related diarrhea.

• Microbiology and Biotechnology Letters
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• v.51 no.1
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• pp.109-123
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• 2023

Preterm birth (PTB) is defined as giving birth prior to the 37th week of pregnancy and is a major cause of infant mortality. Studies have indicated that the vaginal microbiota's composition and its dysbiosis, particularly during pregnancy, may play a major role in PTB. While previous research work concentrated on well-studied microorganisms such as Lactobacillus, Prevotella, Gardnerella, various other microbes, and their significance in the vaginal microbiota's stability remain unknown. Moreover, current studies have focused primarily on the relative abundances of the microbes found, without considering their interactions with other members of the vaginal microbiota. In this work, we developed a novel computational approach and performed taxonomic classification of vaginal microbiota samples stratified longitudinally (Term/PTB) to observe compositional disparities and find underexamined microbes that may be contributing to PTB. Furthermore, we carried out a correlational analysis to build a microbial co-interaction network and investigated the functional implications of the genes present in both Term and PTB samples. The co-occurrence network revealed that Lactobacillus acts in solidarity to maintain the stability of the vaginal microbiota and did not have strong co-interactions with any of the other microbes. Similarly, microbes with strong interactions with Atopobium, a well-known marker microbe of PTB, were also observed. Additionally, several genes such as PTXA, FANCM, GPX, and DUSP were found to be playing an important role in the occurrence of PTB. This study provides a novel conceptual framework revealing distinct vaginal microbiota signatures that could be potential therapeutic targets for the prevention of PTB.

• The Sea:JOURNAL OF THE KOREAN SOCIETY OF OCEANOGRAPHY
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• v.6 no.2
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• pp.93-102
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• 2001

Biomass and species composition of phytoplankton and zooplankton along the salinity gradients in the Seomjin River estuary were investigated in March, July, September and November, 1999. The locations of sampling sites were set based on the surface salinity during each cruise rather than geographic locations. A total of 96 phytoplankton species were identified with 60 diatom species in the study area. The species number of green algae was relatively high in low salinity region while the number of dinoflagellates increased in high salinity areas. Monthly mean of phytoplankton biomass ranged from 183 cells/ml to 833 cells/ml. There was a diatom bloom of Skeletonema costatum in November at the 5-15 psu salinity region and sharp decrease of biomass in very low salinity region occurred in March. During the rainy season in July with the salinity less than 8.1 psu, the green algae dominated in most of the study areas. Chroomonas spp. were highly dominant in March and September and the biomass increased towards the high salinity regions. A total of 83 zooplankton taxa were identified with 72 marine and 11 freshwater taxa. Major group of marine form was copepods with34 taxonomic groups. Most freshwater taxa were aquatic insects. Threshold salinities of freshwater zooplankton appearance were 8.1 psu in July, 4.7 psu in September, and 0.2 psu in November. The number of taxa appeared and abundances of zooplanktons were minimal in the middle of salinity gradients in this estuary.

• Korean Journal of Plant Taxonomy
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• v.37 no.4
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• pp.545-563
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• 2007

The investigated vascular plants of Dok-do island were confirmed that consisted of 46 species, 1 subspecies, 1 varieties in total of 48 taxa growing spontaneously. 1 taxa of Pteridophyta, 36 taxa of Dicotyledon and 11 taxa of Monocotyledon identified. In 48 identified taxa in this study, total 13 taxa included Orobanche coerulescens Stephan, Fallopia sachalinensis (F. Schmidt) Rouse Decr., Lonicera insularis Nakai identified according to the Korean plant taxa for environmental assessment. Planting species were about 10 taxa included Pinus thunbergii Parl., Hibiscus syriacus L. and etc. Four species confirmed in this study such as between Chenopodium virgatum Thunb. and Chenopodium album L., Echinochloa crusgalli (L.) P.Beauv. and Echinochloa crusgalli var. oryzicola (Vasinger) Ohwi. were doubt on identification in taxonomic entity due to morphological characteristics. The dispersion type of Do-kdo plants were anemochore 31 taxa, zoodchore 8 taxa, hydrochore 2 taxa and the others by artificial means.

• 한국해양학회지
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• v.29 no.3
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• pp.304-318
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• 1994

Macrobenthic fauna in three Keum-Mankyung-Dongjin Estuaries and their nieghbouring coastal region in the west coast of Korea were sampled as 39 stations with van Veen grab to describe the distribution patterns of macrobenthos. Total 61 taxa from 10 faunal taxonomic groups and 5,636 individuals were collected. Abundance, species number, and faunal composition varied among three estuaries and coastal region. Dominant species from estuaries were similar to each other, but different from those of coastal region. Dominant species in estuarine regions were Prionospio cirrifera, potamocorbula amurensis. Nephtys californiensis, Glycera chiron and Glycinde sp, those from coastal area were Mactra chinensis. Magelona japonica, Owenia fusiformis. Anaitides Korean and Nephtys polybranchia. Two most dominant species in estuaries, Potamocorbula amanuensis and Prionospio cirrifer were not found elsewhere in Korean waters. The patchy distribution of dominant species and low species richness were reflected in the low species diversity Filter feeders were a major component in estuaries. High proportion of carnivores and low percentage of subsurface deposit feeders seemed to be a typical trophic composition in the study area. the distribution pattern of macrobenthos was related with the salinity and sediment types.

• Asian Journal of Turfgrass Science
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• v.25 no.2
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• pp.153-159
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• 2011

This study was carried out to know the insect fauna of turf grass area in forest. In Korea, graves and public cemetery in mountain areas are usually covered by turf grass which were mainly examined. There were 86 species belonging to 77 genera of 39 families in 11 orders. Among them, site 3 had highest occurrence (38%), second was site 2 (36%) and in the last place was site 1 (26%). Hemiptera revealed best species composition (29.1%) and came Coleoptera (19.8%), Orthoptera (15.1%), Lepidoptera (12.8%) and Odonata (5.8%) etc. The reason why Hemiptera and Orthoptera are mainly found in these areas is because they usually feed on short plants that grow in there. Taxonomic species composition, occurrence ratio by site and species and comparison analysis were provided.

• Korean Journal of Environmental Biology
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• v.27 no.3
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• pp.272-278
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• 2009

To investigate abundance of soil organisms in the ginseng cultivation, we have selected 6 different cultivated lands in Jinan-gun, Jeollabuk-do. The microarthropods were assessed on the basis of 3,101 individuals collected between April and November 2008. The taxonomic composition and abundance of microarthropods were as follows: Acari 44.9%, Collembola 50.1% and others 5.0%. Density increased at the cast and 4 year point, and the population of microarthropods was high in April and May, but low in July and August. Acari/Collembola ratio was approximately 0.90%. There was no correlation between soil factors and microarthropods. The density of soil actinomyces represented a monthly average $0.3{\sim}0.9{\times}10^6\;cfu\;g^{-1}$, and fungi tended to increase and decrease regularity at each spots, where highest decrease was observed in August and September. The density of bacteria was $1.1{\sim}9.6{\times}10^6\;cfu\;g^{-1}$ in each period and those in June and August were much higher than after August. The distribution of fluorescent Pseudomonas showed regular tendency in early survey periods but did not appear in significant numbers after July.