Table 1.
Pairwise comparison of Halobacterium NRC-1 proteome and 11 other microbial proteomes
| Proteome* | Genome size, MB | Number of homologs† | Number of unique homologs‡ | Average accepted point mutation (PAM)§ |
|---|---|---|---|---|
| Mge | 0.58 | 252 | 0 | 148.9 |
| Ctr | 1.05 | 429 | 4 | 153.6 |
| Tpa | 1.14 | 524 | 12 | 157.3 |
| Mja | 1.66 | 876 | 0 | 128.8 |
| Hin | 1.83 | 710 | 2 | 149.4 |
| Afu | 2.18 | 1,243 | 44 | 129.8 |
| Dra | 3.28 | 1,503 | 35 | 152.0 |
| Syn | 3.57 | 1,013 | 34 | 146.5 |
| Bsu | 4.20 | 1,027 | 29 | 141.0 |
| Eco | 4.60 | 1,190 | 25 | 149.5 |
| Sce | 13.12 | 1,183 | 79 | 153.0 |
Peptide sequences of 11 microorganisms [Mycoplasma genitalium (Mge), Chlamydia trachomatis (Ctr), Treponema pallidum (Tpa), M. jannaschii (Mja), Haemophilus influenzae (Hin), Archaeoglobus fulgidus (Afu), D. radiodurans (Dra), Synechocystis sp. PCC6803 (Syn), B. subtilis (Bsu), E. coli K12 (Eco), Saccharomyces cerevisiae (Sce)] were retrieved either from the National Center for Biotechnology Information Entrez Genome web site or from web sites for the specific genome projects.
The number of Halobacterium proteins that have at least one qualified homolog from the specified proteome.
The number of Halobacterium proteins that are uniquely homologous to the other organism.
To determine PAM values, only matches satisfying the minimum alignment length of 100 residues and maximum PAM value at 200 were collected. For each Halobacterium protein, the best match with the lowest PAM value from each compared proteome was used for generating the data in this table. The average PAM value between the Halobacterium proteome and each of the other 11 proteomes was obtained by dividing the sum of the best PAM values for all Halobacterium proteins by the number of proteins that have at least one qualified homolog in the compared proteome (the numbers in column 3). To determine whether the average PAMs for each proteome are significantly different from each other, ANOVA post-hoc tests were performed by using StartView from SAS Institute, Cary, NC. Afu or Mja vs. any other proteomes: P value <0.0001; Bsu vs. all other bacteria and Sce: P value less than or equal to 0.0024.