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Figure 3 Characterization of the creA disrupted strain and the creA-GFP fused gene strain.
Upstream the mtrC gene, strain SB2B contains two hypothetical omcA genes, while strain PV4 and WP3 contain 3 hypothetical omcA like genes.
For quantification of DNA amounts, a serial standard was prepared from a purified PCR product of the C. jejuni pglB gene (strain xy259).
We co-transformed E. coli Rosetta 2 with pETDuet_XR_FDH (Kratzer et al., 2008) and a pRSF plasmid carrying the FDH gene (strain Rosetta_XR_2FDH; Mädje et al., 2012).
Additionally, we examined the CPSase and ATCase domains from the URA2 gene (strain S288c) individually to determine the relative rates of dN/dS for these domains, because they carry out distinct enzymatic reactions.
IS 16 was linked to (a) several putative fragments of a conjugative transposon (strain E1162, ST17), (b) ORF involved in sugar metabolism (strain E1636; ST106), (c) a genomic fragment containing other transposases of the IS 256 family (strain U0317, ST78) and (d) the supposed pathogenicity island containing the esp gene (strain E1679, ST104).
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Among metabolic regulator biosynthesis genes, strain CpC231 showed the citrulline-nitric oxide cycle.
The circled regions on the relevant chromosomes in Fig. 3A D highlight these single-gene strain differences, while Fig. 5A shows the data in more detail for these three genes.
To identify such strain specific unique genes, strain specific genes of individual strains were BLAST searched against the GenBank nr database with an E-value of e-5.
Among the 36 ETT2 genes, strain ECL2033 possessed only 21, strain ECL2004 possessed 20, strain ECL1001 possessed 17, and strain ECL2017 possessed 15.
These orthologous genes (strain orthologs) share different levels of nucleotide sequence identity with paralogous genes (homologous genes derived by a duplication event from a single sequence) (Fitch, 1970).
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