The case studies on the evolution of marine arthropods through de novo genome assemblies and analyses
학위논문 (박사) -- 서울대학교 대학원 : 자연과학대학 생명과학부, 2020. 8. 김원. The de novo genome assembly has become an essential approach for studying non-model organisms since the post-genome era arrived. The reported cases of de novo genome assemblies of non-model arthropods have increased dramatically in recent days. The...
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| Other Authors: | , , |
| Format: | Doctoral or Postdoctoral Thesis |
| Language: | English |
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서울대학교 대학원
2020
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| Online Access: | https://hdl.handle.net/10371/170681 http://dcollection.snu.ac.kr/common/orgView/000000161914 |
| Summary: | 학위논문 (박사) -- 서울대학교 대학원 : 자연과학대학 생명과학부, 2020. 8. 김원. The de novo genome assembly has become an essential approach for studying non-model organisms since the post-genome era arrived. The reported cases of de novo genome assemblies of non-model arthropods have increased dramatically in recent days. The marine arthropod, however, is one of the least sequenced animal groups despite of their surprisingly high taxonomic and morphological diversity. The de novo genome studies on these marine arthropods remain mostly limited in terms of their cases and quality of assemblies up to now. This study therefore conducted the first case of de novo genome research focusing to the under-sampled marine arthropod groups, the Class Pycnogonida and the Infraorder Brachyura in Korea. In this study, one mitochondrial genome and four whole-genomes were de novo assembled and their genomic characteristics were discussed. While the two cases of de novo genomes assembled by using short read-length sequencing showed limited assembly quality, the long read-length based assemblies of Nymphon striatum and Chionoecetes opilio provided significantly informative, high-qualitied genomes. The preliminary phylogenomic research of this study which firstly included the representative genomes of pycnogonid and brachyuran decapod, also implied that recent hypothesis of xiphosuran nested in the most derived clade, Arachnopulmonate, is indeedly plausible. Furthermore, the limitations of de novo genome researches on the laboratory experiment lacking bioinformatics background were discussed to establish an optimized research workflow for the genomic study on non-model marine arthropod. 포스트게놈 시대의 도래에 따라 드노보 유전체 조립은 비모델 생명체의 생명현상을 연구하는데 필수적인 과정이 되었다. 비모델 절지동물의 드노보 조립된 유전체의 사례는 근래에 들어 급격하게 증가했다. 그러나, 해양 절지동물은 놀라울 정도로 다양한 분류군과 형태를 가짐에도 불구하고, 가장 드노보 유전체 조립 연구가 미흡한 분류군 중 하나이다. 현재까지 보고된 해양 절지동물의 드노보 유전체 조립 연구는 대부분이 그 양과 질 모두가 제한적이다. 그러므로, 본 연구는 국내에서 최초로 선행 연구가 미흡한 해양 절지동물 분류군인 바다거미 강과 단미 하목에 초점을 맞춰 드노보 유전체 조립 및 분석을 실시하였다. 본 연구의 결과로, 1건의 미토콘드리아 유전체와 4건의 전장유전체가 ... |
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