TABLE 2.

SD% for RP, PHX, PMX, and PA genes^a

Genomeb	RP		PHX		PMX		PA		βc	SEd
	No. of genes	SD%	No. of genes	SD%	No. of genes	SD%	No. of genes	SD%
ESCCO	57	75.4	306	71.6	3,321	57.1	269	40.9	0.71	0.12
HAEIN	57	82.5	140	75.7	1,328	51.6	60	48.3	1.82	0.26
VIBCH	56	80.4	172	64.0	2,907	47.5	174	44.8	0.51	0.14
PSEAE	57	87.7	128	82.8	4,836	69.1	274	65.3	0.77	0.19
CAMJE	54	92.6	119	79.0	1,351	57.1	11	45.5	2.09	0.42
HELPY	54	81.5	73	83.6	1,287	58.1	27	55.6	3.54	0.79
RICPR	54	50.0	41	31.7	728	17.9	0		2.97	1.17
NEIME	57	84.2	91	83.5	1,368	48.4	209	40.2	1.90	0.28
CHLPN	53	75.5	85	62.4	864	40.7	14	50.0	3.20	0.63
CHLTR	51	70.6	52	69.2	766	45.4	9	33.3	2.66	0.83
BORBU*	54	79.6	71	67.6	700	50.7	0		0.98	0.59
TREPA	51	98.0	99	73.7	791	59.2	26	34.6	2.33	0.60
BACSU**	62	100.0	147	93.2	3,292	89.4	172	84.9	0.33	0.26
MYCGE**	51	22.4	27	14.8	419	10.5	0		0.09	1.31
MYCPN	53	34.0	57	28.1	546	17.0	50	10.0	2.81	1.00
UREUR	52	84.6	72	73.6	469	55.0	11	54.5	2.31	0.64
MYCTU	55	74.5	560	55.4	2,939	46.4	158	46.2	0.96	0.27
SYNSQ	57	49.1	380	37.6	2,329	24.5	186	21.5	1.54	0.29
DEIRA	55	85.5	337	58.5	2,329	39.5	254	42.5	1.16	0.14
AQUAE	56	92.9	233	69.5	1,174	43.5	74	54.1	3.18	0.39
THEMA	54	98.1	174	93.7	1,443	89.9	64	84.4	2.35	0.78
METJA*	62	87.1	113	54.9	1,325	48.5	28	35.7	0.53	0.29
METTH	60	85.0	160	71.3	1,393	59.6	76	59.2	1.66	0.46
ARCFU	59	78.0	343	59.8	1,601	43.5	133	43.6	2.35	0.36
PYRAB	60	96.7	241	80.5	1,351	70.5	89	59.6	1.87	0.36
PYRHO	54	81.2	173	69.9	1,680	55.7	134	29.9	1.52	0.38
THEAC	49	85.7	149	33.6	1,140	22.9	94	14.9	2.24	0.83
HALSP*	58	53.4	328	24.1	1,283	27.4	140	25.7	−0.82	0.45
SULSO	65	58.5	654	27.1	1,760	21.7	322	21.4	1.29	0.42
PYRAE**	66	33.3	59	25.4	1,985	23.3	92	14.1	0.45	1.01

^aSee text for definitions of PHX, PMX, and PA gene classes. For the gene classes RP, PHX, and PA, SD% in bold indicates a significant increase over the group PMX, while underlining signifies a significant decrease (P < 0.05 for a χ² test using the Yates correction). The P value of the logistic regression (for a likelihood ratio test of the regression) was <0.01 for all genomes except those marked with * (0.05 < P < 0.1) and ** (P > 0.1).

^bSee Fig. 2 legend for abbreviations.

^cEstimated coefficient for the logistic regression model (β₁ in equation 5).

^dStandard error of the estimated β.