4)  by using cut-off values of 30% protein identity and an E-value of 1e-05. The average percentages of nucleotide sequence identity between corresponding Sorafenib Tosylate Raf inhibitor orthologous sets were determined using the Needleman-Wunsch algorithm global alignment technique. Artemis  was used for data management and DNA Plotter  was used for visualization of genomic features. The Mauve alignment tool was used for multiple genomic sequence alignment and visualization . Genome properties The genome of H. massiliensis strain AP2T is 3,795,625 bp long (1 chromosome, no plasmids) with a 47.1% G + C content (Figure 6 and Table 4). Of the 3,510 predicted genes, 3,461 were protein-coding genes, and 49 were RNAs. Three rRNA genes (one 16S rRNA, one 23S rRNA and one 5S rRNA) and 46 predicted tRNA genes were identified in the genome.
A total of 2,581 genes (74.57%) were assigned a putative function. Two hundred thirteen genes were identified as ORFans (6.06%). The remaining genes were annotated as hypothetical proteins. The properties and the statistics of the genome are summarized in Table 4 and Table 5. The distribution of genes into COGs functional categories is presented in Table 5. Figure 6 Graphical circular map of the chromosome. From the outside in, the outer two circles show open reading frames oriented in the forward (colored by COG categories) and reverse (colored by COG categories) directions, respectively. The third circle marks … Table 4 Nucleotide content and gene count levels of the genome Table 5 Number of genes associated with the 25 general COG functional categories Genome comparison with Holdemania filiformis, Solobacterium moorei and Erysipelothrix rhusiopathiae Here, we compared the genome of H.
massiliensis strain AP2T, with those of H. filiformis strain ATCC 51649 (GenBank accession number “type”:”entrez-nucleotide”,”attrs”:”text”:”ACCF00000000″,”term_id”:”223965545″,”term_text”:”ACCF00000000″ACCF00000000), S. moorei strain F0204 (“type”:”entrez-nucleotide”,”attrs”:”text”:”AECQ00000000″,”term_id”:”320132904″,”term_text”:”AECQ00000000″AECQ00000000), and E. rhusiopathiae strain Fujisawa (“type”:”entrez-nucleotide”,”attrs”:”text”:”AP012027″,”term_id”:”334295188″,”term_text”:”AP012027″AP012027). The draft genome of H. massiliensis is comparable in size to that of H. filiformis (3.79 and 3.80 Mb, respectively) and larger in size than those of S.
moorei and E. rhusiopathiae (2.01 and 1.79 Mb, respectively). The G+C content of H. massiliensis is smaller than that of H. filiformis (47.10 and 50.18%, respectively) but higher than those of S. moorei and E. rhusiopathiae (36.80 and 36.60%, respectively). The gene content of H. massiliensis is lower than that of H. filiformis Dacomitinib (3,510 and 4,272, respectively) but higher than those of S. moorei and E. rhusiopathiae (2,081 and 1,780, respectively). The ratio of genes per Mb of H.