Genomic analyses of the Chlamydia trachomatis core genome show an association between chromosomal genome, plasmid type and disease

Table 3 Polymorphism analysis and allelic variance among 157 Chlamydia trachomatis isolates of seven housekeeping genes present in the Chlamydiales MLST scheme

				Overall Mean Distance (pairwise deletion; bootstrap = 1000 replicates)
				Nucleotide				Amino Acid				P-distance; Non- and Synonymous substitutions
Gene^a	Length (bp)^b	No. alleles	No. polymorphic sites	No. of differences	[SE]	P-distance	[SE]	No. of differences	[SE]	P-distance	[SE]	Mean dS	[SE]	Mean dN	[SE]	dN/dS^c
enoA (CHLAM0587)	1275	5	7	1.847	0.915	0.001	0.001	0.867	0.554	0.002	0.001	0.002	0.002	0.001	0.001	0.500
fumC (CHLAM0855)	1392	17	20	3.040	1.136	0.002	0.001	0.358	0.111	0.001	0.000	0.006	0.002	0.001	0.000	0.167
gatA (CHLAM0003)	1476	11	10	1.464	0.686	0.001	0.000	0.503	0.450	0.001	0.001	0.002	0.001	0.001	0.000	0.500
gidA (CHLAM0498)	1833	15	22	5.933	1.576	0.003	0.001	2.652	1.014	0.004	0.002	0.005	0.002	0.002	0.001	0.400
hemN (CHLAM0746)	1374	8	7	1.282	0.633	0.001	0.000	0.880	0.560	0.002	0.001	0.001	0.001	0.001	0.001	1.000
hflX (CHLAM0379)	1344	16	20	3.330	1.059	0.002	0.001	2.158	0.836	0.005	0.002	0.002	0.001	0.002	0.001	1.000
oppA_3 (CHLAM0193)	1557	12	20	4.469	1.353	0.003	0.001	3.314	1.182	0.006	0.002	0.002	0.001	0.003	0.001	1.500

^aCHLAM refers to the gene annotated in the pubMLST database
^bLength in base pairs relative to the sequence of the plasmid of the E/Bour strain (GenBank No. HE603212)
^cThe value of dN/dS > 1 obtained for oppA_3 was not statistically significant by the Z-test of positive selection

ISSN: 1471-2164