• Journal of Microbiology and Biotechnology
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• v.21 no.8
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• pp.777-790
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• 2011

To elucidate the biodiversity of plant growth-promoting rhizobacteria (PGPR) in Korea, 7,638 bacteria isolated from the rhizosphere of plant species growing in many different regions were screened. A large number of PGPR were identified by testing the ability of each isolate to promote the growth of cucumber seedlings. After redundant rhizobacteria were removed via amplified rDNA restriction analysis, 90 strains were finally selected as PGPR. On the basis of 16S ribosomal RNA sequences, 68 Gram-positive (76%) and 22 Gram-negative (24%) isolates were assigned to 21 genera and 47 species. Of these genera, Bacillus (32 species) made up the largest complement, followed by Paenibacillus (19) and Pseudomonas (11). Phylogenetic analysis showed that most of the Grampositive PGPR fell into two categories: low- and high- G+C (Actinobacteria) strains. The Gram-negative PGPR were distributed in three categories: ${\alpha}$-proteobacteria, ${\beta}$- proteobacteria, and ${\gamma}$-proteobacteria. To our knowledge, this is the largest screening study designed to isolate diverse PGPR. The enlarged understanding of PGPR genetic diversity provided herein will expand the knowledge base regarding beneficial plant-microbe interactions. The outcome of this research may have a practical effect on crop production methodologies.

• Proceedings of the Microbiological Society of Korea Conference
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• 2002.10a
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• pp.100-105
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• 2002

The diversity of epiphytic bacterial communities on deciduous oak tree (Quercus dentate Thunb.) leaves was examined both in the natural forest area with a clean air and in the industrial estate to assess effects of acidic deposition to the phyllosphere using 16S rDNA sequence data. In addition, acid-tolerant epiphytic bacterial communities were compared. A total of 78 epiphytic and 444 acid-tolerant clones were obtained from clone libraries, resulting in 20 and 17 phylotypes by analysis of restriction fragment length polymorphism (RFLP) for PCR-amplified 16S rDNA products. A low bacterial diversity in both areas was found. As tree leaves grow older, bacterial diversities were slightly increased in the level of subphylum. The community structure of epiphytic bacteria in both areas in April consisted of only two subphyla, $\beta-and\;\gamma-Proteobacteria$. In August two additional subphyla in both areas were found, but the composition was a little different, Acidobacteria and Cytophaga-Flexibacter-Bacteroids (CFB) group in the industrial estate and a -Proteobacteria and CFB group in the natural area, respectively. Acidobacteria could be an indicator of epiphytic bacteria for acidic deposition on plant leaves, whereas a -Proteobacteria be one of epiphytic bacteria that naturally survive on leaves that are not affected by acidic deposition. The acid-tolerant bacterial communities in April were composed of two subphyla, $\gamma-Proteobacteria$ and Low G+C gram-positive bacteria in both areas, and in August a-Proteobacteria was added to the community just in the natural forest area. The direct influence of acidic deposition on the acid-tolerant bacterial phylogenetic composition could not be detected in higher taxonomic levels such as subphylum, but at narrower or finer levels it could be observed by a detection of Xanthomonadales group of $\gamma-Proteobacteria$ just in the industrial estate.

• Journal of Integrative Natural Science
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• v.6 no.4
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• pp.193-196
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• 2013

Haemoglobin is an interesting physiologically significant protein composed of specific functional prosthetic haem and globin moieties. In recent decades, there has been substantial interest in attempting to understand the structural basis and functional diversity of avian haemoglobins (Hbs). Towards this end, purification, crystallization, preliminary X-ray diffraction and molecular-replacement studies have been carried out on Amaurornis phoenicurus Hb. Crystals were grown by the hanging drop vapor-diffusion method using PEG 2000 and NaCl as precipitants. The crystals belonged to the primitive monoclinic system $P2_1$, with unit-cell parameters $a=65.33{\AA}$, $b=93.14{\AA}$, $c=98.54{\AA}$, ${\beta}=100.48^{\circ}$; a complete data set was collected to a resolution of $2.6{\AA}$. The Matthews coefficient of $2.30{\AA}^3Da^{-1}$ for the crystal indicated the presence of two ${\alpha}_2{\beta}_2$ tetramers in the asymmetric unit.

• Mycobiology
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• v.46 no.4
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• pp.297-304
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• 2018

Two new records of Trichocomaceae, namely Aspergillus allahabadii and Penicillium sizovae, were isolated in 2016 during a survey of fungal diversity in different crop fields locations in Gyeongnam, Korea. These species were identified based on morphological characters and phylogenetic analysis using internal transcribed spacer region and ${\beta}-tubulin$-encoding gene sequence data. A. allahabadii and P. sizovae have not yet been reported in Korea. Thus, this is the first report of these species in Korea, and their descriptions as well as details of their morphological characters are presented.

• The Korean Journal of Mycology
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• v.47 no.2
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• pp.105-112
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• 2019

A unrecorded species of Trichocladium, Trichocladium griseum, was isolated in 2017 during a survey of fungal diversity in Ulsan province, South Korea. This species was identified based on morphological characteristics and phylogenetic analysis of the internal transcribed spacer (ITS) rDNA and ${\beta}-tubulin$ gene sequences. T. griseum has not yet been reported in South Korea. Thus, we report for the first time a new record of Trichocladium griseum in Korea, and we include the descriptions and morphological illustrations of this fungus.

• Korean Journal of Ecology and Environment
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• v.56 no.2
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• pp.172-186
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• 2023

Small ponds, which exhibit unstable succession pattern of plankton community, are less well studied than large lakes. Recently, the importance of small ponds for local biodiversity conservation has highlighted the necessity of understanding the dynamics of biological community. In the present study, we collected zooplankton from three small reservoirs with monthly basis and analyzed their seasonal dynamics. To understand the complicated zooplankton community dynamics of small reservoirs, we categorized zooplankton species into four groups (LALF Group, Low Abundance Low Frequency; LAHF Group, Low Abundance High Frequency; HALF Group, High Abundance Low Frequency; HAHF Group, High Abundance High Frequency) based on their occurrence pattern (abundance and frequency). We compared the seasonal pattern of each group, and estimated community diversity based on temporal beta diversity contribution of each group. The result revealed that there is a relationship between groups with the same abundance but different occurrence frequencies, and copepod nauplii are common important component for both abundance and frequency. On the other hand, species included with LALF Group throughout the study period are key in terms of monthly succession and diversity. LALF Group includes Anuraeopsis fissa, Hexarthra mira and Lecane luna. However, groups containing species that only occur at certain times of the year and dominate the waterbody, HALF Group, hindered to temporal diversity. The results of this study suggest that the species-specific occurrence pattern is one key trait of species determining its contribution to total annual biodiversity of given community.

• Journal of Life Science
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• v.33 no.7
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• pp.565-573
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• 2023

In light of the complex interactions between the host animal and its resident gut microbiomes, studies of these microbial communities as a means to improve cattle production are important. This study was conducted to analyze the intestinal microorganisms of Holstein (HT) and Jersey (JS), raised in Korea and to clarify the differences in microbial structures according to cattle species through next-generation sequencing. The alpha-diversity analysis revealed that most species richness and diversity indices were significantly higher in JS than in HT whereas phylogenetic diversity, which is the sum of taxonomic distances, is not significant. Microbial composition analysis showed that the intestinal microbial community structure of the two groups differed. In the both groups, a significant correlation was observed among the distribution of several microbes at the family level. In particular, a highly significant correlation (p<0.0001) among a variety of microbial distributions was found in JS. Beta-diversity analyis was to performed to statistically verify whether a difference exists in the intestinal microbial community structure of the two groups. Principal coordinate analysis and unweighted pair group method with arithmetic mean (UPGMA) clustering analysis showed separation between the HT and JS clusters. Meanwhile, permutational multivariate analysis of variance (PERMANOVA) revealed that their microbial structures are significantly different (p<0.0001). LEfSe biomarker analysis was performed to discover the differenc microbial features between the two groups. We found that several microbes, such as Firmicutes, Bacilli, Moraxellaceae and Pseudomonadales account for most of the difference in intestinal microbial community structure between the two groups.

• Korean Journal of Ecology and Environment
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• v.55 no.1
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• pp.84-98
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• 2022

Estuary is important in terms of biodiversity because it has the characteristics of transition waters, created by the mixing of fresh- and seawater. The estuarine water circulation provides a variety of habitats with different environments by inducing gradients in the chemical and physical environment, such as water quality and river bed structure, which are ultimately the main factors influencing biological community composition. If the water circulation is interrupted, the loss of brackish areas and the interception of migration of biological communities will lead to changes in the spatial distribution of biodiversity. In this study, among the sites covered by the Estuary Aquatic Ecosystem Health Assessment, we selected study sites where changes in biodiversity can be assessed by spatial gradient from the upper reaches of the river to the lower estuarine area. The α-, γ- and β-diversity of diatom, benthic macroinvertebrates, and fish communities were calculated, and they were divided into open and closed estuary data and compared to determine the trends in biodiversity variation due to estuarine circulation. As results, all communities showed higher γ-diversity at open estuary sites. The benthic macroinvertebrate community showed a clear difference between open and closed estuaries in β-diversity, consequently the estuarine transects were considered as a factor that decreases spatial heterogeneity of their diversity among sites. The biodiversity trends analyzed in this study will be used to identify estuaries with low γ- and β-diversity by community, providing a useful resource for further mornitoring and management to maintain estuarine health.

• The Korean Journal of Mycology
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• v.25 no.4 s.83
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• pp.320-329
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• 1997

Botrytis cinerea isolates obtained from infected plants of cucumber, tomato, and strawberry were divided into three groups (sporing, sclerotial, and mycelial types). Of which sclerotial types were the major group. There were no correlations between morphological phenotypes and responses to benzimidazole and dicarboximide fungicides. External structure of conidia of three phenotypes by scanning electron microscope was the same with verrucose surface. Mycelial type was the most virulent on fruits of eggplants. Comparative tests were carried out to examine correlations between the virulence and production of fungal enzymes such as phenol oxidases, pectin methyl esterases (PME), amylases, cellulases, ureases, ${\beta}-glucosidases$, and proteinases. There was no correlation among the phenotypes in production of phenol oxidases and ${\beta}-glucosidases$. However, there were significantly different from each other in PME, amylase, cellulase, urease, and protease activity.

• The Plant Pathology Journal
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• v.24 no.3
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• pp.269-278
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• 2008

Ripe rot was frequently observed on fruits, leaves and stems of grape growing in eight locations in Korea from 2004 to 2006. All 30 isolates of Colletotrichum sp. were obtained from lesions of the ripe rot on grape plants. Out of the isolates, 19 isolates were identified as Colletotrichum acutatum and the others as Colletotrichum gloeosporioides based on morphological and cultural characteristics. Inter and intra specific variations of the Colletotrichum spp. isolates were investigated using RAPD and sequences of rDNA ITS and $\beta$-tubulin-2. Isolates of C. acutatum and C. gloeosporioides were distinctly differentiated by molecular analyses. Phylogenetic trees of ITS and$\beta$-tubulin-2 showed that Korean isolates of C. acutatum were clustered into groups A2 and A3 among the eight global groups. A2 included non-chromogenic isolates and A3 chromogenic ones. Both C. acutatum and C. gloeosporioides isolates were tested for pathogenicity to grape leaves. All isolates tested induced lesions on the leaves of grape by artificial inoculation. There was no difference in pathogenicity between C. acutatum and C. gloeosporioides isolates. This is the first report that C. acutatum except C. gloeosporioides causes grape ripe rot in Korea.