• Journal of Life Science
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• v.31 no.12
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• pp.1079-1087
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• 2021

To analyze gut microbiota of livestock in Korea and compare taxonomic differences, we conducted 16S rRNA metagenomic analysis through next-generation sequencing. Fecal samples from broiler chickens, pigs, and cattle were collected from domestic feedlots randomly. α-diversity results showed that significant differences in estimated species richness estimates (Chao1 and ACE, Abundance-based coverage estimators) and species richness index (OUTs, Operational taxonomic units) were identified among the three groups. However, NPShannon, Shannon, and Simpson indices revealed that abundance and evenness of the species were statistically significant only for poultry (broiler chickens) and mammals (pigs and cattle). Firmicutes was the most predominant phylum in the three groups of fecal samples. Linear discriminant (LDA) effect size (LEfSe) analysis was conducted to reveal the ranking order of abundant taxa in each of the fecal samples. A size-effect over 2.0 on the logarithmic LDA score was used as a discriminative functional biomarker. As shown by the fecal analysis at the genus level, broiler chickens were characterized by the presence of Weissella and Lactobacillus, as well as pigs were characterized by the presence of provetella and cattele were characterized by the presence of Acinetobacter. A permutational multivariate analysis of variance (PERMANOVA) showed that differences of microbial clusters among three groups were significant at the confidence level. (p=0.001). This study provides basic data that could be useful in future research on microorganisms associated with performance growth, as well as in studies on the livestock gut microbiome to increase productivity in the domestic livestock industry.

• Korean Journal of Plant Resources
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• v.34 no.4
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• pp.297-310
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• 2021

Lonicera harae is a species of shrub in the Caprifoliaceae family, mostly distributed in East asia. So far, the related research on the genus of Lonicera is insufficient compared to the Lonicera japonica belonging to the same genus, which requires attention to domestic native plants. Therefore, this study aims to provide baseline data for cultivation and utilization through the growth environment and vegetation structure of the natural habitat. Lonicera harae, which plant found throughout the Korean Peninsula. The natural habitats of Lonicera harae is the forest, valley and lowland areas of the southern region. study examined 24 quadrats in 11 regions, including Gwangju, Wanju and Namhae. As a result, environmental condition of Lonicera harae was 8 to 483 m above sea level, normally distributed over 173 m, Slope was 5 to 25 degree with 8.5 degree on average. The list of plants were classified as a total of 229 taxa comprising 80 families, 166 genus, 198 species, 3 subspecies, 24 varieties, 4 forma. As a result of the clustering analysis, the three clusters were divided into three groups; Robinia pseudoacacia, Zelkova serrata, Larix kaempferi. Species diversity was 1.399 and Dominance and Evenness were found to be 0.978 and 0.022 respectively.

• Horticultural Science & Technology
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• v.32 no.1
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• pp.84-90
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• 2014

Berchemia racemosa var. magna is only found in Anmyeon Island of South Korea. Genetic diversity and the spatial genetic structure of B. racemosa var. magna in Anmyeon Island were studied by I-SSR marker system. Fifty I-SSR amplicons were produced from 8 selected primers. We used 13 polymorphic markers to analyze the genetic structure. Distribution of 39 individuals in the study plot($90m{\times}70m$) showed aggregate pattern (aggregation index = 0.706). Total 21 genets were observed from 39 individuals through I-SSR genotyping. Proportion of distinguishable genotype (G/N), genotype diversity (D) and genotype evenness (E) were 53.8%, 0.966 and 0.946, respectively. In spite of the small number and the narrow distribution, Shannon's diversity index (I = 0.598) was relatively high as compared with those of the other plant species. For ex situ genetic conservation of B. racemosa var. magna, the sampling strategy based on spatial autocorrelation using Tanimoto distance is efficient at choosing the conserved individuals with a 6 meter interval between individual trees.

• Journal of Microbiology and Biotechnology
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• v.24 no.9
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• pp.1149-1161
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• 2014

Cotton plants were sampled and ranked according to their resistance to Verticillium wilt. In total, 642 endophytic fungi isolates representing 27 genera were recovered from Gossypium hirsutum root, stem, and leaf tissues, but were not uniformly distributed. More endophytic fungi appeared in the leaf (391) compared with the root (140) and stem (111) sections. However, no significant difference in the abundance of isolated endophytes was found among resistant cotton varieties. Alternaria exhibited the highest colonization frequency (7.9%), followed by Acremonium (6.6%) and Penicillium (4.8%). Unlike tolerant varieties, resistant and susceptible ones had similar endophytic fungal population compositions. In three Verticillium-wilt-resistant cotton varieties, fungal endophytes from the genus Alternaria were most frequently isolated, followed by Gibberella and Penicillium. The maximum concentration of dominant endophytic fungi was observed in leaf tissues (0.1797). The evenness of stem tissue endophytic communities (0.702) was comparatively more uniform than the other two tissues. Eighty endophytic fungi selected from 27 genera were evaluated for their inhibition activity against highly virulent Verticillium dahliae isolate Vd080 in vitro. Thirty-nine isolates exhibited fungistasis against the pathogen at varying degrees. Seven species, having high growth inhibition rates (${\geq}75%$), exhibited strong antifungal activity against V. dahliae. The antifungal activity of both volatile and nonvolatile metabolites was also investigated. The nonvolatile substances produced by CEF-818 (Penicillium simplicissimum), CEF-325 (Fusarium solani), CEF-714 (Leptosphaeria sp.), and CEF-642 (Talaromyces flavus) completely inhibited V. dahliae growth. These findings deepen our understanding of cotton-endophyte interactions and provide a platform for screening G. hirsutum endophytes with biocontrol potential.

• Journal of Microbiology and Biotechnology
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• v.27 no.3
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• pp.561-572
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• 2017

The global commercial cultivation of transgenic crops, including glyphosate-tolerant soybean, has increased widely in recent decades with potential impact on the environment. The bulk of previous studies showed different results on the effects of the release of transgenic plants on the soil microbial community, especially rhizosphere bacteria. In this study, comparative analyses of the bacterial communities in the rhizosphere soils and surrounding soils were performed between the glyphosate-tolerant soybean line NZL06-698 (or simply N698), containing a glyphosate-insensitive EPSPS gene, and its control cultivar Mengdou12 (or simply MD12), by a 16S ribosomal RNA gene (16S rDNA) amplicon sequencing-based Illumina MiSeq platform. No statistically significant difference was found in the overall alpha diversity of the rhizosphere bacterial communities, although the species richness and evenness of the bacteria increased in the rhizosphere of N698 compared with that of MD12. Some influence on phylogenetic diversity of the rhizosphere bacterial communities was found between N698 and MD12 by beta diversity analysis based on weighted UniFrac distance. Furthermore, the relative abundances of part rhizosphere bacterial phyla and genera, which included some nitrogen-fixing bacteria, were significantly different between N698 and MD12. Our present results indicate some impact of the glyphosate-tolerant soybean line N698 on the phylogenetic diversity of rhizosphere bacterial communities together with a significant difference in the relative abundances of part rhizosphere bacteria at different classification levels as compared with its control cultivar MD12, when a comparative analysis of surrounding soils between N698 and MD12 was used as a systematic contrast study.

• Journal of Ecology and Environment
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• v.35 no.2
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• pp.123-129
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• 2012

Salt marsh is an important transitional zone among terrestrial, riverine, and marine ecosystems and is a productive habitat that interacts extensively with adjacent landscape elements of estuarine and coastal ecosystems. Nowadays, in addition to various human activities, a variety of natural processes induce changes in salt marshes. This study aims to provide background information to restore disturbed salt marshes and to propose their ecological restoration using seed banks. The study area is a prepared area for the Gwangyang Container Port located in the southern Korea. This area was formed by accumulating mud soils dredged from the bottom of the forward sea. This land was created in a serial process of preparing the Gwangyang container port and the salt marsh was passively restored by seeds buried in mud soil dredged from seabed. As a result of stand ordination based on vegetation data collected from the land, stands were arranged according to tolerance to salinity in the order of $Suaeda$ $maritima$, $Salicornia$ $europaea$, and $Phragmites$ $communis$ communities on the Axis 1. Landscape structure of the projected area was analyzed as well. Edges of the projected area were divided from the marginal waterway by the dike. Four types of vegetation appeared on the dike: $Alnus$ $firma$ plantation, $Robinia$ $pseudoacacia$ plantation, $Lespedeza$ $cyrtobotrya$ plantation, and grassland. In the more internal areas, two types of vegetation sequences appeared: $Aster$ $tripolium$ community-$Suaeda$ $glauca$ community-$Salicornia$ $europaea$ community sequence and $Aster$ $tripolium$ community-$Suaeda$ $maritima$ community-$S.$ $europaea$ community sequence. Mixed community showed the highest species diversity (H' = 0.86) and $S.$ $europaea$ community showed the lowest (H' = 0.0). Evenness is the highest in Mixed community (J' = 2.26) and the lowest in $S.$ $maritime-S.$ $europaea$ community (J' = 0.0). Several plant communities were successfully established on the land created by mud soil dredged from the bottom of Gwangyang Bay. Moreover, community diversity in this area approached a similar level with those from other studies involving natural salt marshes. Therefore, restoration effect based on community diversity obtained in our study can be evaluated as a successful achievement. In this respect, although most salt marshes in Korea and other places worldwide have been destroyed or disturbed by excessive land use, feasibility of seed bank as a restoration tool is greatly expected.

• Journal of Life Science
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• v.28 no.1
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• pp.105-109
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• 2018

Biodiversity (or biological diversity) is defined as the variability of living organisms, the "diversity of life on Earth," and the complex relationships that make up ecosystems. This study aimed to investigate the spatial and temporal patterns in animal species composition and diversity at the Deukjin River, located in Hapcheon Province, Korea. The fauna community at the Deukjin River during 2016 season was identified with a total of 55 taxa, representing the following six classes: Mammalia (mammals), Actinopterygii (bony fish), Chondrichthyes (cartilaginous fish), Aves (birds), Amphibia (amphibians), Reptilia (reptiles), and invertebrates. The Berger - Parker index (BPI) for mammals varied from 0.233 (Station A) to 0.333 (Station D). The Shannon - Weaver index (H') and two diversity indexes (N1 and N2) for mammals and birds in the upper region were higher than those in the lower region. The values of ${\beta}$-diversity for animals varied from 0.229 for fish to 0.339 for invertebrates. The richness indices for animal taxa also varied among the stations and seasons. Station A showed considerably high richness in mammals, birds, and reptiles/amphibians. Although the richness indices (R1 and R2) for six animal kingdoms during the seasons were different from each other, the difference was not significant (p<0.05). The evenness indices for five animal kingdoms were different from each other, but again, the difference was not significant (p<0.05).

• Korean Journal of Environment and Ecology
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• v.30 no.5
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• pp.896-907
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• 2016

The habitat characteristics of Aconitum austrokoreense Koidz. were investigated to provide basic data for conservation and restoration. The altitude ranged from 260m to 728m with inclinations of $4-39^{\circ}$. As a result of vegetation survey within natural populations, a total of 147 taxa were identified inside 20 quadrates in 7 natural habitats. The importance value of Aconitum austrokoreense was 23.0% based on the coverage and frequency of the herbaceous layer and sat is more dominant. Species diversity was 1.23, and dominace and evenness were found to be 0.22 and 0.77, respectively. The soil type were silty loam (four sites), sandy loam (two sites) and loam (one site). The average field organic matter was 7.83% and the total nitrogen and pH were 0.35, and 5.69. Correlation analysis between environmental factors and population characteristic showed the correlations between chlorophyll content and slope, flowering rate and soil humidity. Conservation on habitats conditions is important for stable maintenance the flora and the surrounding area including habitats has to be designated a protection area for habitats conservation.

• Journal of the Korean Society of Marine Environment & Safety
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• v.19 no.5
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• pp.430-438
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• 2013

In this study, the seasonal field survey was conducted in Goseong Jaran Bay(22 stations), Geoje Hansan Bay(15 stations) and Jinhae Bay(18 stations). We analyzed the sediment environmental parameters(Chemical Oxygen Demand, Ignition Loss, Acid Volatile Sulfides, Total Organic Carbon) and biotic parameters of macrobenthic polychaetes(number of species, density, diversity, evenness). It had a good correlation between total organic carbon and polychaete diversity(R=0.61, P<0.01), and we made a decision them as representative environmental indices. As a result of that, regarding the criteria in the assessment of farm environment, we suggest concentrations of total organic carbon : Peak Point = 15 mg/g dry, Warning Point = 26 mg/g dry, Contaminated Point = 31 mg/g dry and polychaete diversity : ~2.6(Good), 2.6~2.1(Moderate), 2.1~1.2(Poor) and 1.2~(Bad). This could be a scientific basis to establish the environmental standards for fishery management.

• Korean Journal of Plant Resources
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• v.25 no.4
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• pp.407-415
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• 2012

Pinus pumila, which occurs in the northeast Asia, is found limitedly in Daecheongbong area of Mt. Seorak in the South Korea. This population was chosen to study spatial pattern, genetic diversity and spatial genetic structure. There were 48 polymorphic and 30 monomorphic I-SSR markers. A total of 65 individuals which distributed in the study site (40 m ${\times}$ 70 m) showed weakly aggregate distribution (Aggregate Index = 0.871). A total of 40 genets were observed from 65 individuals through I-SSR genotype comparison. Proportion of distinguishable genotype (G/N), genotype diversity (D) and genotype evenness (E) were 61.5%, 0.977 and 0.909, respectively. In spite of the small number and the limited distribution, Shannon's diversity index (I = 0.567) was relatively high as compared with those of other plant species. Spatial autocorrelation using Tanimoto's distance showed that the genetic patch was established within 12 m. Based on Mantel tests, there was relatively low correlation between genetic distance and geographic distance. Therefore, it seems the P. pumila population was formed by many parent trees in early stage. For ex situ genetic conservation of P. pumila, the sampling strategy is efficient at least above 12 m between individual trees.