Table 1.
Genome statistical information of nine investigated Salmonella strains as obtained by Prokka pipeline and ANI calculator.
Fig 1.
Circular plot genome representation of nine investigated Salmonella strains i.e. a) S. Gallinarum str. 287/91 b) S. Gallinarum str. 9184 b) S. Gallinarum Sal40 strain d) S. Pullorum str. ATCC 9120 e) S. Pullorum str. S06004 f) S. Pullorum QJ-2D-Sal g) S. Gallinarum/Pullorum str. CDC1983-67 and h) S. Gallinarum/Pullorum str. RKS5078 with demonstration of GC content, GC skew and CDS in reference to S. Enteritidis str. P125109.
Fig 2.
Core genome development plot for nine Salmonella genomes.
The red curve shows the fitted model. Green represents confidence interval upper limit and blue demonstrates confidence interval lower limit.
Table 2.
Number of CDS identified in pan genome, core genome and singletons of the investigated Salmonella genomes.
Fig 3.
a) Distribution of COG functional classes in core genome of investigated Salmonella strains by eggnog mapper b) Distribution of COG functional categories in strain specific genes by eggnog mapper.
Fig 4.
Unrooted phylogenetic tree showing taxonomic positions of the investigated Salmonella strains constructed by EDGAR on the basis of core genome set.
Branch support values that were lower than the maximum values of 1.0 are shown at the respective branches.
Fig 5.
Synteny plot constructed by EDGAR of eight S. Gallinarum strains i.e. a) S. Pullorum str. ATCC 9120 (b) S. Gallinarum str. 287/91 c) S. Pullorum QJ-2D-Sal (d) S. Gallinarum/Pullorum str. CDC1983-67 (e) S. Gallinarum str. 9184, (f) S. Gallinarum/Pullorum str. RKS5078 (g) S. Pullorum str. S06004 against the reference of S. Enteritidis str. P125109.
Fig 6.
Toxin-antitoxin cassettes identified by TA finder in investigated Salmonella strains with functional classification of candidate toxin and antitoxin proteins.