• Journal of Species Research
• /
• 제6권2호
• /
• pp.141-153
• /
• 2017

During an investigation of the biodiversity of bacterial species in Korea, we discovered many indigenous prokaryotic species. A total of 39 bacterial strains in the class Alphaproteobacteria were isolated from various environmental samples collected from marine organisms, sea water, fresh water, tap water, mud flats, activated sludge, mineral water, tidal flats, soil and decayed plants. From the high 16S rRNA gene sequence similarity (>98.7%) and formation of robust phylogenetic clades with the most closely related species, it was determined that each strain belonged to each independent and predefined bacterial species. There is no official report that any of these 39 Alphaproteobacteria species have been described in Korea. Specifically, 18 species in 11 genera in the order Sphingomonadales, 11 species in 10 genera in the order Rhizobiales, two species in two genera in the order Caulobacterales, six species in six genera in the order Rhodobacterales and two species in two genera in the order Rhodospirillales were found in Korea. Gram reaction, colony and cell morphology, basic biochemical characteristics, isolation source, and strain IDs are described in the species description section.

• Journal of Species Research
• /
• 제6권2호
• /
• pp.119-128
• /
• 2017

Within a comprehensive, widescale investigation of indigenous prokaryotic species in Korea, 29 bacterial strains in the phylum Bacteroidetes were isolated from diverse environmental habitats that included soil, plant roots, natural caves, tidal flats, freshwater from lakes, and seawater. Based on their high 16S rRNA gene sequence similarities (>99.1%) and the formation of robust phylogenetic clades with the closest type species, each strain likely belonged to an independent and predefined bacterial species. There are no publications or official reports of the isolation of these 29 species in Korea. Our study provides strong evidence that seven species in three genera in the order Cytophagales, 15 species in 13 genera in the order Flavobacteriales and seven species in five genera in the order Sphingobacteriales, all within the phylum Bacteriodetes, are new reports of bacterial species in Korea. Gram reaction, colony and cell morphology, basic biochemical characteristics, isolation source, and strain IDs are described in the species description section.

• Journal of Species Research
• /
• 제6권2호
• /
• pp.129-140
• /
• 2017

During a comprehensive investigation of indigenous prokaryotic species in Korea, a total 31 bacterial strains assigned to the class Alphaproteobacteria were isolated from diverse environmental habitats including freshwater, seawater, brackish water, ginseng soil, plant roots, natural caves, and tidal flats. Based on their high 16S rRNA gene sequence similarities(>99.1%) and formation of robust phylogenetic clades with the closest type species, each strain was assigned to an independent and predefined bacterial species. Because there were no published or official reports regarding the isolation of these 31 species in Korea, this study identified three species in two genera in the order Caulobacterales, 12 species in 10 genera in the order Rhodobacterales, three species in two genera in the order Rhizobiales, two species in two genera in the order Rhodospirillales and 11 species in seven genera, all in the order Sphingomonadaceae within the Alphaproteobacteria are reported as new alphaproteobacterial species in Korea. Gram reaction, colony and cell morphology, basic biochemical characteristics, isolation source, and strain IDs are described in the species description section.

• 미생물학회지
• /
• 제53권3호
• /
• pp.170-179
• /
• 2017

차는 세계적으로 인기있는 음료로 불발효차(녹차), 반발효차(우롱차), 완전발효차(홍차)와 흑차(미생물발효차 or 후발효차)를 포함하고 구분된다. 미생물발효차는 차나무(Camellia sinensis)의 잎을 미생물 발효과정을 통해 제조된다. 삼국시대부터 전해 내려온 청태전은 한국 남해안지역에서 제조되며 돈차 또는 떡차로 불리는 독창적인 한국의 미생물발효차이다. 본 연구에서는 청태전에 우점하는 미생물군집구조 분석을 위해 16S rRNA 유전자를 이용하였다. 청태전에 우점하는 미생물은 ${\gamma}$-proteobacteria에 속하는 Pantoea sp.와 Klebsiella oxytoca가 우점하였다. 미생물 군집크기 분석을 통해 청태전의 미생물 군집크기가 다른 미생물발효차와 비교해 가장 큰 것을 확인하였다.

• 한국지능시스템학회논문지
• /
• 제11권5호
• /
• pp.426-432
• /
• 2001

본 논문은 진화형 하드웨어를 이용하여 생물의 정보처리 시스템인 셀룰라 오토마타 신경망의 구현에 관한 연구이다. 셀룰라 오토마타 신경망은 진화 및 발생을 기반으로 한 신경망 모델이다. 진화는 다양성을 주요 근원을 제공하는 돌연변이 및 재 조합 비율에 의하여 비결정론이며, 발생은 결정론 적이며 지역적인 무리현상을 따른다. 셀룰라 오토마타 신경망은 셀룰라 오토마타에 의해 신경망 내부의 각 셀의 상태를 발생시키고, 초기 셀을 유전자 알고리즘의 개체로 간주하여 초기 셀이 진화 알고리즘을 통해 진화함으로써 신경망이 진화하는 시스템이다. 본 논문은 이 시스템을 진화형 하드웨어 이용하여 하드웨어로 구현하였다. 진화형 하드웨어는 진화 알고리즘과 재구성하드웨어의 결합체이다. 즉, 재구성 하드웨어의 구성에 필요한 bit를 유전자 알고리즘의 개체로 간주한 것이다. 진화 알고리즘을 수행하기 위해 유전자 알고리즘 프로세서를 설계하였으며, 셀룰라 오토마타 신경망이 유전자 알고리즘의 개체와 셀룰라 오토마타 룰에 의해 자동적으로 신경망을 생성하기 위해 신경망을 이루는 셀들로 설계하였다. 제안된 시스템의 효율성을 검증하기 위해 Exclusive-OR 문제에 적용하였다.

• BMB Reports
• /
• 제40권3호
• /
• pp.349-357
• /
• 2007

The ubiquitous family of 14-3-3 proteins functions as regulators in a variety of physiological processes. Eight rice 14-3-3 genes, designated OsGF14a through h, were identified from an exhaustive search of the genome database. Comparisons of deduced amino acid sequences reveal a high degree of identity among members of the OsGF14 family and reported Arabidopsis 14-3-3 proteins. A phylogenetic study indicates that OsGF14s contain both $\varepsilon$ and non-$\varepsilon$ forms, which is also confirmed by a structural analysis of OsGF14 genes. Furthermore, transcripts of OsGF14b, OsGF14c, OsGF14d, OsGF14e, OsGF14f and OsGF14g were detected in rice tissues. Their different expression patterns, the different effects of environmental stresses and plant hormones on their transcription levels, and the different complementary phenotypes in yeast 14-3-3 mutants not only indicates that OsGF14s are responsive to various stress conditions and regulated by multiple signaling pathways, but also suggests that functional similarity and diversity coexist among the members of OsGF14 family.

• The Plant Pathology Journal
• /
• 제24권3호
• /
• pp.269-278
• /
• 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.

• Ocean and Polar Research
• /
• 제25권4호
• /
• pp.607-615
• /
• 2003

Many organisms are known to survive in icy environments. These include both over wintering terrestrial insects and plants as well the marine fish inhabiting high latitudes. The adaptation of these organisms is both a fascinating and important topic in biology. Marine teleosts in particular, can encounter ice-laden seawater that is approximately $1^{\circ}C$ colder than the colligative freezing point of their body fluids. These animals produce a unique group of proteins, the antifreeze proteins (AFPs) or antifreeze glycoproteins (AFGPs) that absorb the ice nuclei and prevent ice crystal growth. Presently, there are at least four different AFP types and one AFGP type that are isolated from a wide variety of fish. Despite their functional similarity, there is no apparent common protein homology or ice-binding motifs among these proteins, except that the surface-surface complementarity between the protein and ice are important for binding. The remarkable diversity of these proteins and their odd phylogenetic distribution would suggest that these proteins might have evolved recently in response to sea level glaciations just 1-2 million years ago in the northern hemisphere and 10-30 million years ago around Antarctica. Winter flounder, Pleuronectes americanus, has been used as a popular model to study the regulation of AFP gene expression. It has a built-in annual cycle of AFP expression controlled negatively by the growth hormone. The signal transduction pathways, transcription factors and promoter elements involved in this process have been studied in our laboratory and these studies will be presented.

• Journal of Species Research
• /
• 제4권2호
• /
• pp.109-126
• /
• 2015

As a subset study to discover indigenous prokaryotic species in Korea, a total of 39 bacterial strains assigned to the classes Betaproteobacteria and Gammaproteobacteria were isolated from diverse environmental samples collected from soil, tidal flat, freshwater, seawater, seaweed, wetland, plant roots, guts of insects, and fermented foods. From the high 16S rRNA gene sequence similarity (>99.1%) and formation of a robust phylogenetic clade with the closest species, it was determined that each strain belonged to each independent and predefined bacterial species. There is no official report that these 39 species have been described in Korea; therefore 4 species of 4 genera in the order Burkholderiales and 1 species in the order Neisseriales within the class Betaproteobacteria, and 10 species of 6 genera in the order Alteromonadales, 11 species of 3 genera in the order Pseudomonadales, 4 species of 4 genera in the order Enterobacteriales, 2 species of 2 genera in the order Vibrionales, 1 species in the order Aeromonadales, 3 species of 3 genera in the order Oceanospirillales, 2 species of 2 genera in the order Xanthomonadales, and 1 species in the order Chromatiales within the Gammaproteobacteia are reported for proteobacterial species found in Korea. Gram reaction, colony and cell morphology, basic biochemical characteristics, isolation source, and strain IDs are also described in the species description section.

• Journal of Species Research
• /
• 제4권2호
• /
• pp.97-108
• /
• 2015

As a subset study to discover indigenous prokaryotic species in Korea, a total of 29 bacterial strains assigned to the classes Alphaproteobacteria were isolated from various environmental samples collected from plant root, ginseng soil, forest soil, marsh, mud flat, freshwater and seawater. From the high 16S rRNA gene sequence similarity (>99.1%) and formation of a robust phylogenetic clade with the closest species, it was determined that each strain belonged to each independent and predefined bacterial species. There is no official report that these 29 species included in Alphaproteobacteria is have been described in Korea; therefore 14 species of 9 genera in the order Rhizobiales, 7 species of 6 genera in the order Sphingomonadales and 4 species of 2 genera in the order Caulobacterales and 3 species in the order Rhodobacterales and 1 species in the order Rhodospirillales found in Korea. Gram reaction, colony and cell morphology, basic biochemical characteristics, isolation source, and strain IDs are also described in the species description section.