• Title/Summary/Keyword: Bio diversity

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Isolation of wild yeasts from soils collected in Pochoen-si, Korea and characterization of unrecorded yeasts

  • Maeng, Soohyun;Park, Yuna;Srinivasan, Sathiyaraj
    • Journal of Species Research
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    • v.9 no.3
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    • pp.204-209
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    • 2020
  • In 2019, as a subset study to discover indigenous yeast species in Korea, a total of 20 yeast species were isolated from soil samples collected in Pochoen-si. Among them, eight strains were unreported species. From the high 26S rRNA gene sequence similarity and formation of a robust phylogenetic clade with the closest species, it was determined that each strain belonged to independent and predefined yeast species. The 20 strains were assigned to the genera Aureobasidium (1 strain) and Meyerozyma (1 strain) of the phylum Ascomycota and Cystofilobasidium (2 strains), Filobasidium (1 strain), Naganishia (2 strains), Bullera (3 strains), Leucosporidium (9 strains) and Sampaiozyma (1 strain) of the phylum Basidiomycota. There is no official report of the following species in Korea: Leucosporidium creatinivorum (4 strains), Leucosporidium escuderoi(2 strains), Leucosporidium golubevii(1 strain) and Leucosporidium intermedium (2 strains). Basic biochemical characteristics, colony and cell morphology are also described in the species description section.

Higher Order Knowledge Processing: Pathway Database and Ontologies

  • Fukuda, Ken Ichiro
    • Genomics & Informatics
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    • v.3 no.2
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    • pp.47-51
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    • 2005
  • Molecular mechanisms of biological processes are typically represented as 'pathways' that have a graph­analogical network structure. However, due to the diversity of topics that pathways cover, their constituent biological entities are highly diverse and the semantics is embedded implicitly. The kinds of interactions that connect biological entities are likewise diverse. Consequently, how to model or process pathway data is not a trivial issue. In this review article, we give an overview of the challenges in pathway database development by taking the INOH project as an example.

Detection of Salmonella spp. by TaqMan real-time PCR and comparison of nucleotide sequences of ompC gene among Salmonella (TaqMan 실시간 중합 효소 연쇄반응에 의한 살모넬라속의 검출 및 ompC 항원단백 유전자의 비교)

  • Lee, Young-Sung;Choi, Kyoung-Seong;Kim, Myeong-Chul;Han, Jae-Cheol;Chae, Joon-Seok
    • Korean Journal of Veterinary Research
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    • v.42 no.4
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    • pp.513-522
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    • 2002
  • Antigenic ompC genes of S. gallinarum, S. pullorum and S. dublin were characterized among Salmonella spp. isolated from chickens and other animals to identify genetic variation. Salmonella ompC gene fragment (1,027 bp) was amplified by PCR and the amplicons were cloned for comparison of nucleotide sequences. The identity of the sequences between S. gallinarum and S. pullorum, S. gallinarum and S. dublin, S. pullorum and S. dublin was 99.8%, 97.6% and 97.8%, respectively. Also, we found that ompC has some diversity between S. gallinarum and S. pullorum, and other Salmonella spp. which may be useful to type the organisms. Similar to diagnosis in other organisms, the TaqMan PCR method can be applied to rapid and accurate diagnosis of salmonellosis in chickens and other animals. We designed PCR primers and TaqMan probe for flagellin gene (fliC) for detection of Salmonella spp. by TaqMan PCR. The TaqMan PCR method was 10,000 times more sensitive than conventional PCR.

An 2.4 GHz Bio-Radar System for Non-Contact Measurement of Heart and Respiration (호흡 및 심박수 측정을 위한 비 접촉 방식의 2.4 GHz 바이오 레이더 시스템)

  • Lee, Yong-Jin;Jang, Byung-Jun;Yook, Jong-Gwan
    • The Journal of Korean Institute of Electromagnetic Engineering and Science
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    • v.19 no.2
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    • pp.191-199
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    • 2008
  • In this paper, we present a performance analysis and design and implementation results of a 2.4 GHz bio-radar system that can detect human heartbeat and respiration signals. In order to design a 2.4 GHz bio-radar system qualitatively, we investigate the electromagnetic properties of human tissues and calculate the target SNR of demodulation output with respect to distance. The target SNR is defined by the 90 % success ratio for detecting heartbeat signal. With this target SNR value, the performance and link budget of the bio-radar system is simulated using MATLAB. Using this link budget results, the direct conversion receiver is designed and Implemented in 4 layer printed circuit board(PCB). With output power of 0 dBm and 5 Hz bandwidth, 80 % success ratio of 50 cm is measured. Measurement results show a good agreement with simulation results.

A report of 14 unrecorded bacterial species in Korea isolated in 2017

  • Kim, Ju-Young;Jang, Jun Hwee;Maeng, Soohyun;Kang, Myung-Suk;Kim, Myung Kyum
    • Journal of Species Research
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    • v.7 no.2
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    • pp.161-180
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    • 2018
  • Fourteen bacterial strains, low10-4-1, J11015, 17J27-22, 17G22-9, 17G9-4, 17Bio_15, 17gy_33, 17SD1_21, Strain8, 17Sr1_17, J21014T, H31021, 17J49-9, and 17J80-6 assigned to the phylum Actinobacteria, Bacteroidetes, Deinococcus-Thermus, and Firmicutes were isolated from soil samples. Phylogenetic analysis based on 16S rRNA gene sequence revealed that strains low10-4-1, J11015, 17J27-22, 17G22-9, 17G9-4, 17Bio_15, 17gy_33, 17SD1_21, Strain8, 17Sr1_17, J21014T, H31021, 17J49-9, and 17J80-6 were most closely related to Marmoricola aurantiacus (98.9%), Calidifontibacter indicus (99.8%), Gordonia soli (98.8%), Rhodococcus globerulus (99.5%), Pseudarthrobacter siccitolerans (99.1%), Hymenobacter qilianensis (98.7%), Hymenobacter terrae (99.0%), Deinococcus yunweiensis (99.2%), Deinococcus proteolyticus (99.7%), Domibacillus indicus (99.2%), Exiguobacterium mexicanum (100.0%), Kurthia senegalensis (99.1%), Lysinibacillus composti (99.6%), and Bacillus loiseleuriae (99.3%). These fourteen species have never been reported in Korea, therefore we report them here for the first time.

A report of eight unrecorded UV-resistant bacterial species in Korea isolated in 2018

  • Kim, Ju-Young;Sathiyaraj, Srinivasan;Subramani, Gayathri;Lee, JinWoo;Maeng, Soo hyun;Jang, Jun Hwee;Lee, Ki-Eun;Lee, Eun-young;Kim, Myung Kyum
    • Journal of Species Research
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    • v.7 no.3
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    • pp.202-209
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    • 2018
  • Eight bacterial strains, 18JY8-13, 18JY13-16, 18JY43-7, 18JY12-7, 18JY1-1, 18JY1-7, 18JY15-3, and 18JY7-2 assigned to the phylum Firmicutes were isolated from a variety of soil samples collected in the Jeju Island, Korea. Cells of the eight strains were Gram-positive, aerobic and showed resistant to UV-radiation. Phylogenetic analysis based on 16S rRNA gene sequence revealed that strains 18JY8-13, 18JY13-16, 18JY43-7, 18JY12-7, 18JY1-1, 18JY1-7, 18JY15-3, and 18JY7-2 were most closely related to Bacillus paranthracis(99.9%), Bacillus paramycoides(99.6%), Bacillus australimaris(99.9%), Bacillus wiedmannii (100%), Bacillus halosaccharovorans(99.6%), Bacillus deserti(98.7%), Bacillus cereus (99.8%), and Bacillus albus(100%), respectively. This is the first report of these eight species in Korea.

A report of eight unrecorded radiation resistant bacterial species in Korea isolated in 2018

  • Jang, Jun Hwee;Sathiyaraj, Gayathri;Sathiyaraj, Srinivasan;Lee, Jin Woo;Kim, Ju-Young;Maeng, Soohyun;Lee, Ki-Eun;Lee, Eun young;Kang, Myung Suk;Kim, Myung Kyum
    • Journal of Species Research
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    • v.7 no.3
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    • pp.210-221
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    • 2018
  • Eight bacterial strains assigned to the phylum Firmicutes were isolated from the soil samples in Korea. Phylogenetic analysis based on 16S rRNA gene sequences showed that strains 18JY14-16, 18JY14-35, 18JY42-5, 18JY12-20, 18JY35-8, 18JY76-9, 18JY39-1 and 18JY54-12 were most closely related to Paenibacillus lupini (MH497638; 99.4%), Paenibacillus illinoisensis (MH497643; 99.8%), Paenibacillus tundrae (MH497658; 99.7%), Paenibacillus selenitireducens (MH497639; 99.4%), Paenibacillus eucommiae (MH 497640; 99.9%), Paenibacillus vini (MH497654; 99.4%), Paenibacillus gorillae (MH497647; 99.5%), and Paenibacillus macquariensis (MH497649; 99.9%) respectively. These Paenibacillus species were Gram-stain-positive, rod-shaped and radiation resistant bacteria. This is the first report of these nine bacterial species in Korea.

A report of six unrecorded radiation-resistant bacterial species isolated from soil in Korea in 2018

  • Maeng, Soohyun;Sathiyaraj, Srinivasan;Subramani, Gayathri;Kim, Ju-Young;Jang, Jun Hwee;Kang, Myung-Suk;Lee, Ki-Eun;Lee, Eun-young;Kim, Myung Kyum
    • Journal of Species Research
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    • v.7 no.3
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    • pp.222-230
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    • 2018
  • Six bacterial strains 18JY42-3, 18SH, 18JY76-11, 17J11-11, 18JY14-14, and 18JY15-11 assigned to the phylum Proteobacteria, Firmicutes, and Actinobacteria were isolated from soil samples in Korea. The Cohnella species, strain 18JY42-3 was Gram-stain-positive, short rod-shaped and beige-colored. The Methylobacterium species, strains 18SH and 18JY76-11 were Gram-stain-negative, short rod-shaped and pink-colored. The Microterricola species, strain 17J11-11 was Gram-stain-positive, short rod-shaped and yellow-colored. The Paenarthrobacter species, strains 18JY14-14 and 18JY15-11 were Gram-stain-positive, short rod-shaped and white-colored. Phylogenetic analysis based on 16S rRNA gene sequence showed that strains 18JY42-3, 18SH, 18JY76-11, 17J11-11, 18JY14-14, and 18JY15-11 were most closely related Cohnella rhizosphaerae (MH497628; 98.8%), Methylobacterium goesingense (MH497632; 99.1%), Methylobacterium populi (MH497635; 99.9%), Microterricolagilva (MH504108; 98.4%), Paenarthrobacter nicotinovorans (MH497641; 100%), and Paenarthrobacter nitroguajacolicus (MH497646; 99.2%), respectively. All the six unrecorded strains showed resistance to UV radiation. This is the first report of these six species in Korea.

Identification of 12 radiation-resistant bacterial species in the phylum Proteobacteria new to Korea

  • Han, Joo Hyun;Maeng, Soohyun;Park, Yuna;Lee, Sang Eun;Lee, Byoung-Hee;Lee, Ki-eun;Kim, Myung Kyum
    • Journal of Species Research
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    • v.9 no.2
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    • pp.85-104
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    • 2020
  • In 2019, after a comprehensive investigation of indigenous prokaryotic species in Korea, a total of 12 bacterial strains assigned to the phylum Proteobacteria were isolated from soil. With the high 16S rRNA gene sequence similarity (>98.8%) and formation of a robust phylogenetic clade with the closest species, it was determined that each strain belonged to independent, predefined bacterial species. This study identified two species in the family Burkholderiaceae, one species in the family Comamonadaceae, two species in the family Oxalobacteraceae, one species in the family Micrococcaceae, one species in the family Bradyrhizobiaceae, one species in the family Methylobacteriaceae, one species in the family Rhizobiaceae, one species in the family Rhodocyclaceae, and one species in the family Sphingomonadaceae. There is no official report about these 12 species in Korea, so are described as unreported bacterial species in Korea in this study. Gram reaction, basic biochemical characteristics, colony, and cell morphology are also described in the species description section.

Analysis of Ecodiversity as the Foundation for Conserving Biodiversity and Its Restoration Strategy (생물다양성을 보존하기 위한 토대로서 생태다양성 분석 및 복원 전략)

  • Lim, Bong Soon;Kim, Dong Uk;Kim, A Reum;Seol, Jae Won;Lee, Chang Seok
    • Korean Journal of Ecology and Environment
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    • v.53 no.4
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    • pp.408-426
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    • 2020
  • This study aims to establish the national strategy for biodiversity conservation by analyzing the current status of ecodiversity as the foundation of biodiversity conservation. Furthermore, this study has another purpose of preparing the measures for conservation and restoration of biodiversity. Ecodiversity was discussed as the basis for conserving biodiversity. Five climate zones and 14 climatic regions, eight plant geographic regions, three massifs and major geologic series, horizontal and vertical topographic conditions, 16 ecoregions, major ecosystems including forest, river and streams, wetlands, coast and marine, agriculture, and urban esosystems, and land use types were discussed as the element of the ecodiversity. In terms of biodiversity conservation, the actual conditions of each ecological unit were reviewed and measures were proposed to reduce biodiversity loss. Destruction and fragmentation of habitat, poor ecosystem management due to socioeconomic changes, the effects of exotic species and chemicals, and climate change were discussed as the major factors causing biodiversity loss. Systematic monitoring based on scientific principles and ecological restoration based on those monitoring results were recommended as measures for biodiversity conservation.