algicola, with orthologs belonging to different COG categories. The LIM 21T genome contains 15 genes Rucaparib clinical coding for sulfatases, which are located in close proximity to glycoside hydrolase genes suggesting that sulfated polysaccharides may be used as substrates. ��-L-fucoidan could be a substrate, as three ��-L-fucosidases (Celly_0440, Celly_0442, Celly_0449) are located in close proximity to nine sulfatases (Celly_0432, Celly_0425, Celly_0426, Celly_0436, Celly_0431, Celly_0433, Celly_0435, Celly_0438, Celly_0444). Sakai and colleagues report the existence of intracellular ��-L-fucosidases and sulfatases, which enable ‘Fucophilus fucoidanolyticus’ to degrade fucoidan [42]. The above mentioned sulfatases and fucosidases containing region of C. lytica is similar to the recently described region of C.

algicola with five ��-L-fucosidases and three sulfatases [14]. This fucoidan degrading ability could be also shared by Coraliomargarita akajimensis, as the annotation of the genome sequence revealed the existence of 49 sulfatases and 12 ��-L-fucosidases [43]. Comparative genomics The genomes of the two recently sequenced Cellulophaga type strains differ significantly in their size, C. lytica having 3.8 Mb and C. algicola 4.9 Mb and their number of pseudogenes, 19 (0.6%) and 122 (2.8%), respectively. Liu et al., 2004 have shown that pseudogenes in prokaryotes are not uncommon; the analysis of 64 genomes, including archaea, pathogen and nonpathogen bacteria, revealed an occurrence of pseudogenes of at least 1-5% of all gene-like sequences, with some genomes containing considerably higher amounts [44].

To estimate the overall similarity between the genomes of C. lytica and C. algicola the GGDC-Genome-to-Genome Distance Calculator [45,46] was used. The system calculates the distances by comparing the genomes to obtain HSPs (high-scoring segment pairs) and interfering distances from the set of formulas (1, HSP length / total length; 2, identities / HSP length; 3, identities / total length). The comparison of the genomes of C. lytica with C. algicola revealed that 25% of the average of both genome lengths are covered with HSPs. The identity within these HSPs was 82%, whereas the identity over the whole genome was only 20%. These results demonstrate that according to the whole genomes of C. lytica and C. algicola the similarity is not very high, although the comparison of 16S rRNA gene sequences showed only 7.

7% differences. In order to compare the C. lytica and C. algicola genomes, correlation values (Pearson coefficient) according to the similarity on the level of COG category, pfam, enzymes and TIGRfam were calculated. The highest correlation value (0.98) was reached on the level of pfam data; the correlation values on the basis of COG, enzyme and TIGRfam GSK-3 data were 0.88, 0.92 and 0.93, respectively.