S-Space College of Natural Sciences (자연과학대학) Dept. of Biological Sciences (생명과학부) Theses (Master's Degree_생명과학부)
Metagenomic analysis of Eukaryote diversity in coastal areas of South Korea revealed by Illumina Miseq
Illumina Miseq을 이용한 한국 연안의 진핵생물 다양성에 대한 메타지놈 분석
- 자연과학대학 생명과학부
- Issue Date
- 서울대학교 대학원
- Metagenomics; Eukaryote; Illumina Miseq; High-throughput technology; 18S rDNA V4; Biodiversity
- 학위논문 (석사)-- 서울대학교 대학원 : 생명과학부, 2016. 2. 김원.
- Metagenomic analysis was carried out on the multiple taxa of eukaryotes, for the first time in Korea. Each samples were obtained from fourteen sites of Jeju island and the seas surrounding the Korean peninsula (East Sea, East China Sea, Yellow Sea) during August 2015. To more focus on Metazoa, total fourteen samples were washed through with a 63㎛ mesh sieve, then amplified based on 18S rDNA V4 hypervariable region. High-throughput sequencing of PCR amplicons was performed using the Illumina MiSeq. Paired-ends sequences, ranged from 25,637-38,463 reads per sample, revealed a mean of unique 230 OTUs (operational taxonomic units, 97% similarity). PoHang, had the highest number of unique OTUs, which showed 334 OTUs, while GoChang had the lowest unique OTUs, which had 49 OTUs. A total of 319 OTUs were identified into the species level by BLAST against SILVA database. For Metazoa, 103 species of 101 genera belonging to 75 families in 10 phyla were represented. Among these phyla, Annelida, Arthropoda, Mollusca, Nematoda and Platyhelminthes were dominated, account for 92.23% of the total. Of these, several undescribed taxa were detected at family-level identification
Nematoda 100% (6 families), Annelida 31.6% (6 families), Arthropoda 30.8% (4 families), Mollusca 20% (4 families), Platyhelminthes 100% (10 families) compared with integrated three DBs (MABIK, KOMBIS, MRBR). Also, relatedness community structure of eukaryotes and habitat were analyzed by beta-diversity using PCoA (Principle Coordinate Analysis) plot and UPGMA (Unweighted Pair Group Method with Arithmetic mean) tree. As a result, composition of eukaryotes community is likely to be largely affected by the habitat, however, the same habitat not always guarantee the same community structure.