Title Page
국문 초록
Abstract
Contents
Ⅰ. INTRODUCTION 16
Ⅱ. MATERIALS & METHODS 17
1. Isolation of strains 17
1.1. Study site description and sampling 17
1.2. Reviving strains from frozen glycerol stocks 18
2. Morphological, physiological, and biochemical characteristics 20
2.1. Cell morphology 20
2.2. Growth conditions 20
2.3. Physiological and biochemical characteristics 21
3. Chemotaxonomic characteristics 23
3.1. Composition of fatty acid 23
3.2. Analysis of lipid composition 24
4. Molecular characteristics 25
4.1. Phylogenetics based on the 16S rRNA gene 25
4.2. Genomic analysis 26
Ⅲ. RESULTS & DISCUSSION 32
1. Alphaproteobacterial strains 32
2. 4-Org1-14 group 33
2.1. Genome statistics and taxonomy 34
2.2. Comparative genomic analysis 38
2.3. Phenotypic characterization 46
2.4. Taxonomic conclusions 46
3. "Parvularculaceae" group 51
3.1. Genome statistics and taxonomy 52
3.2. Comparative genomic analysis 56
3.3. Phenotypic characterization 64
3.4. Taxonomic conclusions 64
4. Pseudo-OCS116 group 69
4.1. Genome statistics and taxonomy 70
4.2. Comparative genomic analysis 74
4.3. Phenotypic characterization 82
4.4. Taxonomic conclusions 82
Ⅳ. Conclusion 86
References 88
Table 1. Summary of sampling location and date. 17
Table 2. The composition of medium used in this study. 19
Table 3. Primer sequences and sites used for 16S rRNA sequencing analyses. 25
Table 4. Summary of data used for hybrid genome assembly in this study. 28
Table 5. The result of CheckM to assess quality of 11 strains belonging to the 3 groups. 29
Table 6. Genomic features of the five novel species and related other strains. 39
Table 7. General characteristics of five strain and relative strain Minwuia thermotolerceT.[이미지참조] 48
Table 8. Cellular fatty acid composition of five strain and relative strain Minwuia thermotolerceT.[이미지참조] 49
Table 9. Detection of enzymatic abilities of five strain and relative strain Minwuia thermotolerceT.[이미지참조] 50
Table 10. Genomic features of the three novel species and related other strains. 57
Table 11. General characteristics of three strain and relative strain Parvularcular bermudendsisT.[이미지참조] 66
Table 12. Cellular fatty acid composition of three strain and relative strain Parvularcular bermudendsisT.[이미지참조] 67
Table 13. Detection of enzymatic abilities of three strain and relative strain Parvularcular bermudendsisT.[이미지참조] 68
Table 14. Genomic features of the three novel species and related other strains. 75
Table 15. General characteristics of three strains belonging to pseudo-OCS116 group 84
Table 16. Cellular fatty acid composition of three strains belonging to pseudo-OCS116 group. 85
Figure 1. Phylogenetic tree based on 16S rRNA gene sequences showing the position of the five species. 35
Figure 2. Phylogenetic tree based on genome sequence showing the position of five species. 37
Figure 3. Venn diagram illustrating the number of unique and shared protein-coding genes in the genomes of five strains. 38
Figure 4. Comparative genomic island analysis of five strains. 40
Figure 5. Regions of the prophage sequence of strain IMCC3009 42
Figure 6. Analysis of Cluster of Ortholog Groups of 4-Org1-14. 43
Figure 7. Analysis of KEGG Decoder of 4-Org1-14. 44
Figure 8. Overview of an annotated potential metabolic pathway based on KEGG database of IMCC3009. 45
Figure 9. Transmission electron microscopy (TEM) images of novel five strains. 47
Figure 10. Phylogenetic tree based on 16S rRNA gene sequences showing the position of the three species. 53
Figure 11. Phylogenetic tree based on genome sequence showing the position of three species. 55
Figure 12. Venn diagram illustrating the number of unique and shared protein-coding genes in the genomes of three strains. 56
Figure 13. Comparative genomic island analysis of three strains. 58
Figure 14. Regions of the prophage sequence of three strains belonging to "Parvularculaceae" group 59
Figure 15. Analysis of Cluster of Ortholog Groups of "Parvularculaceae". 61
Figure 16. Analysis of KEGG Decoder of "Parvularculaceae". 62
Figure 17. Overview of an annotated potential metabolic pathway based on KEGG database of IMCC12323. 63
Figure 16. Transmission electron microscopy (TEM) images of novel three strains. 65
Figure 17. Phylogenetic tree based on 16S rRNA gene sequences showing the position of the three species. 71
Figure 18. Phylogenetic tree based on genome sequence showing the position of three species. 73
Figure 19. Venn diagram illustrating the number of unique and shared protein-coding genes in the genomes of three strains. 74
Figure 20. Comparative genomic island analysis of three strains. 76
Figure 21. Regions of the prophage sequence of two strains belonging to pseudo-OCS116 group. 77
Figure 22. Analysis of Cluster of Ortholog Groups of pseudo-OCS116 79
Figure 23. Analysis of KEGG Decoder of pseudo-OCS116 80
Figure 24. Overview of an annotated potential metabolic pathway based on KEGG database of three strains. 81
Figure 24. Transmission electron microscopy (TEM) images of novel three strains. 83