A phylogenetic study of cytochrome b561 proteins

Table 1 Li93 analysis of a selection of cytochrome b561-encoding genes

Plant paralogs
		K_s	K_a	K_a/K_s	Synonymous rate	Nonsynonymous rate
Artb561-1	Artb561-2	2.00	0.49	0.245
Artb561-1	Artb561-3	2.90	0.57	0.197
Artb561-1	Artb561-4	1.75	0.55	0.314
Artb561-3	Artb561-4	2.93	0.75	0.256
Artb561-2	Artb561-4	0.47	0.63	1.340
Mouse paralogs
Mumb561-1		1.9	0.61	0.321
Mumb561-1	Mumb561-3	1.71	0.51	0.298
Mumb561-2	Mumb561-3	2.01	0.5	0.249
Dicot versus monocot
	Average	0.37 ± 0.09	0.43 ± 0.06	1.22 ± 0.38	2.88 ± 0.69	3.33 ± 0.45
Within dicots
	Average	-	-	-	12.63 ± 2.41	2.38 ± 1.18
Exception
Crpb561	Sotb561	0.48	0.53	1.10	11.75	13.25
Tunicate versus vertebrates
	Average	0.65 ± 0.13	0.78 ± 0.12	1.26 ± 0.45	1.21 ± 0.24	1.45 ± 0.22
Human versus mouse
Hosb561-1	Mumb561-1	0.12	0.19	1.583	1.20	1.90
Hosb561-2	Mumb561-2	0.47	0.16	0.340	4.70	1.60
Hosb561-3	Mumb561-3	0.48	0.07	0.146	4.80	0.70

K_s, synonymous substitutions; K_a, nonsynonymous substitutions. The rate of synonymous and nonsynonymous substitutions (right-hand columns) is expressed as 10^-9 substitutions/position/year. The estimated divergence times between different branches used for these calculations are 130 × 10⁶ years for monocots-dicots [27], 12 × 10⁶ years for tomato-potato [44], 540 × 10⁶ years for tunicate-vertebrates [30], and 100 × 10⁶ years for human-mouse [45]. Divergence times for different dicot families are estimated from Figure 2 in [29]: 90 million years for Fabales (M. truncatula), Caryophyllales (B. vulgaris, M. crystallinum) and Malvales (G. hirsutum), 40 million years for Lamiales (C. plantagineum) and Solanales (S. tuberosum), and 20 million years for the radiation within the Fabales (M. truncatula and G. max).

ISSN: 1474-760X