• Title/Summary/Keyword: environmental DNA

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Molecular Monitoring of Plankton Diversity in the Seonakdong River and Along the Coast of Namhae (분자 모니터링을 이용한 서낙동강과 남해 연안 플랑크톤 군집 분석)

  • Kim, Bo-Kyung;Lee, Sang-Rae;Lee, Jin-Ae;Chung, Ik-Kyo
    • The Sea:JOURNAL OF THE KOREAN SOCIETY OF OCEANOGRAPHY
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    • v.15 no.1
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    • pp.25-35
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    • 2010

  • The biodiversity of eukaryotic plankton has commonly been used to evaluate the status of aquatic ecosystems. Therefore, an accurate and rapid method for species identification is needed to reveal the biodiversity of environmental water samples. To date, molecular methods have provided a great deal of information that has enabled identification of the hidden biodiversity in environmental samples. In this study, we utilized environmental polymerase chain reaction (PCR) and constructed the 18S nuclear ribosomal RNA clone library from environmental water samples in order to develop more efficient methods for species identification. For the molecular analysis, water samples were collected from the Seonakdong River (Gimhae Bridge) and the coast of Namhae，(Namhaedo). Colony PCR and restriction fragment length polymorphism of PCR (PCR-RFLP) were then adopted to isolate unique clones from the 18S rDNA clone library. Restriction fragment length polymorphism pattern analysis of the Gimhae Bridge sample revealed 44 unique clones from a total of 60 randomly selected clones, while analysis of the Namhae sample revealed 27 unique clones from 150 clones selected at random. A BLAST search and subsequent phylogenetic analysis conducted using the sequences of these clones revealed hidden biodiversity containing a wide range of taxonomic groups (Heterokontophyta (7), Ciliophora (23), Dinophyta (1), Chytridiomycota (1), Rotifera (1) and Arthropoda (11) in the Gimhae Bridge samples Ciliophora (4), Dinophyta (3), Cryptophyta (1), Arthropoda (19) in the Namhae samples). Therefore, the molecular monitoring method developed here can provide additional information regarding the biodiversity and community structure of eukaryotic plankton in environmental samples and helps construct a useful database of biodiversity for aquatic ecosystems.

  • https://doi.org/10.7850/jkso.2010.15.1.025 인용 PDF KSCI

cDNA cloning of a membrane-associated. magnesium-dependent 30kDa neutral sphingomyelinase

  • Jeon, Hyung-Jun;Jung, Sung-Yun;Kim, Dae-Kyong
    • Proceedings of the PSK Conference
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    • 2002.10a
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    • pp.328.1-328.1
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    • 2002

  • A major lipid-signaling pathway in mammalian cells implicated the activation of sphingomyelinase (SMase), which hydrolyses sphingomyeline to generate ceramide and phosphocholine. Sphingomyelinase is divided into many isoform groups dependent on optimal pH, and essential cation especially magnesium in their activation. Such as acidic sphingomyelinase, neutral sphingomyelinase and alkaline sphingomyelinase. Ceramide is known as a crucial second messenger in cell responses like cell proliferation. cell cycle arrest. cellular senescence, and apoptosis. (omitted)

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Detection of Denitrifying Bacteria in Groundwater by PCR (PCR을 이용한 지하수 내의 탈질화 세균의 검출)

  • Shin, Kyu-Chul;Suh, Mi-Yeon;Han, Myung-Soo;Choi, Yong-Keel
    • Korean Journal of Environmental Biology
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    • v.19 no.4
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    • pp.321-324
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    • 2001

  • Groundwater samples were collected at 6 sites in Seoul area. DNA extraction from the sample was performed by the boiling method. Samples were boiled with guanidinium thyocyanate and phenol-chloroform. One set of primer was designed for amplification of 16S rDNA. For detection of denitrifying bacteria in groundwater sample, the author used primer sets consensus regions in gene sequences encoding the two forms of nitrite reductase (NIR), a key enzyme in the denitrification pathway. Two sets of PCR primer were designed to amplify $cd_1$-and Cu-nir. We confirmed the existence of denitrifying bacteria in 3 sites using $cd_1$-nir primer and in 4 sites using Cu-nir primer.

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