Table 5.
Number of genes associated with general COG functional categories obtained from BROAD or JCVI pipelines
| Code | Description | strain ACC19a | strain CM2 | strain CM5 | strain OBRC8 | strain AS15 | |||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Value | %a | Value | %a | Value | %a | Value | %a | Value | %a | ||
| J | Translation, ribosomal structure and biogenesis | 136 | 5.8 | 132 | 6.5 | 136 | 5.7 | 136 | 5.9 | 142 | 6.1 |
| A | RNA processing and modification | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
| K | Transcription | 105 | 4.5 | 97 | 4.8 | 105 | 4.4 | 106 | 4.6 | 105 | 4.5 |
| L | Replication, recombination and repair | 111 | 4.8 | 96 | 4.7 | 145 | 6.1 | 113 | 4.9 | 104 | 4.5 |
| B | Chromatin structure and dynamics | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 |
| D | Cell cycle control, cell division, chromosome partitioning | 23 | 1 | 22 | 1.1 | 23 | 1 | 22 | 1 | 21 | 0.9 |
| V | Defense mechanisms | 46 | 2 | 34 | 1.7 | 42 | 1.8 | 41 | 1.8 | 55 | 2.4 |
| T | Signal transduction mechanisms | 77 | 3.3 | 75 | 3.7 | 78 | 3.3 | 80 | 3.5 | 77 | 3.3 |
| M | Cell wall/membrane/envelope biogenesis | 70 | 3 | 67 | 3.3 | 69 | 2.9 | 73 | 3.2 | 71 | 3 |
| N | Cell motility | 56 | 2.4 | 50 | 2.5 | 52 | 2.2 | 48 | 2.1 | 55 | 2.4 |
| U | Intracellular trafficking, secretion, and vesicular transport | 40 | 1.7 | 33 | 1.6 | 35 | 1.5 | 37 | 1.6 | 41 | 1.8 |
| O | Posttranslational modification, protein turnover, chaperones | 52 | 2.2 | 54 | 2.7 | 52 | 2.2 | 55 | 2.4 | 60 | 2.6 |
| C | Energy production and conversion | 96 | 4.1 | 95 | 4.7 | 98 | 4.1 | 97 | 4.2 | 103 | 4.4 |
| G | Carbohydrate transport and metabolism | 75 | 3.2 | 76 | 3.7 | 75 | 3.2 | 75 | 3.2 | 76 | 3.3 |
| E | Amino acid transport and metabolism | 138 | 5.9 | 147 | 7.2 | 142 | 6 | 146 | 6.3 | 146 | 6.3 |
| F | Nucleotide transport and metabolism | 54 | 2.3 | 54 | 2.7 | 54 | 2.3 | 55 | 2.4 | 54 | 2.3 |
| H | Coenzyme transport and metabolism | 69 | 3 | 67 | 3.3 | 69 | 2.9 | 72 | 3.1 | 79 | 3.4 |
| I | Lipid transport and metabolism | 40 | 1.7 | 39 | 1.9 | 41 | 1.7 | 41 | 1.8 | 38 | 1.6 |
| P | Inorganic ion transport and metabolism | 77 | 3.3 | 76 | 3.7 | 72 | 3 | 81 | 3.5 | 87 | 3.7 |
| Q | Secondary metabolites biosynthesis, transport and catabolism | 17 | 0.7 | 16 | 0.8 | 16 | 0.7 | 15 | 0.6 | 17 | 0.7 |
| R | General function prediction only | 155 | 6.6 | 171 | 8.4 | 167 | 7 | 170 | 7.3 | 166 | 7.1 |
| S | Function unknown | 125 | 5.4 | 118 | 5.8 | 131 | 5.5 | 120 | 5.2 | 128 | 5.5 |
| - | Not in COGs | 927 | 40 | 668 | 33 | 931 | 39 | 891 | 39 | 864 | 37 |
a% - Percent of annotated genes. The total is based on the total number of protein coding genes in the genome