Quantification of codon selection for comparative bacterial genomics

BMC Genomics

Table 4 Correlation coefficients of genome-wide codon selection measures with the number of tRNA genes in each genome.

			Pearson Correlation Coefficient of tRNA Gene Number and Genome-wide Codon Selection Statistic^a
Family	Number of Genomes	Number of Orthologues	ACEχ²_core^b	ACEχ²₄₀^b	ENC_diff	ΔN'_c	S
Enterobacteriaceae	14	1060	0.628 (p = 0.008)^c	0.338 (0.119)	0.264 (0.181)	0.399 (0.079)	0.257 (0.188)
Mycobacteriaceae	9	982	0.409 (0.167)	0.461 (0.106)	0.512 (0.080)	0.495 (0.088)	0.153 (0.347)
Bacilliaceae	12	541	0.556 (0.030)	0.440 (0.076)	0.373 (0.116)	0.346 (0.136)	0.427 (0.083)

a. All codon statistics were calculated using the Translation40 gene set to construct f_o and the shared set of ORFs to construct f_n.
b. ACEχ²_core was calculated from all orthologues; ACEχ² 40 was calculated from Translation40 genes.
c. Probability of calculating a correlation coefficient this large in the absence of a true correlation; one-tailed test using Fisher's z-transformed correlation.

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