The conserved Phe GH5 of importance for hemoglobin intersubunit contact is mutated in gadoid fish

Table 2 Identification of positively selected sites in gadoids and burbot β1 globin by maximum likelihood analysis using various models of evolution

Method	Model	Parameter estimates	Ln likelihood	Model comparison	Positively selected sites^a
CODEML	M0: neutral	ω = 0.26	−1092.88		None
	M1a: nearly neutral	ω₀ = 0.05, ω₁ = 1.00	−1067.42		Not allowed
	M1a: nearly neutral	p₀ = 0.80, p₁ = 0.20	−1067.42		Not allowed
	M2a: positive selection	ω₀ = 0.08, ω₁ = 1.00, ω₂ = 2.22	−1064.41	M2 vs M1	6, 9, 13, 23, 55, 62, 122, 123
		ω₀ = 0.08, ω₁ = 1.00, ω₂ = 2.22		2ΔLnL = 6.02, df = 2, p = 0.05
		p₀ = 0.86, p₁ = 0, p₂ = 0.14		2ΔLnL = 6.02, df = 2, p = 0.05
	M3: discrete	ω₀ = 0.08, ω₁ = 0.08, ω₂ = 2.21	−1064.41	M3 vs M0	6, 9, 13, 23, 55, 62, 122, 123
	M3: discrete	p₀ = 0.40, p₁ = 0.46, p₂ = 0.14	−1064.41	2ΔLnL = 56.94, df = 4, p = 0	6, 9, 13, 23, 55, 62, 122, 123
	M7: β	p = 0.07, q = 0.21	−1069.19		Not allowed
	M8: β + ωS > 1	p = 9.24, q = 99	−1064.45	M8 vs M7	6, 9, 13, 23, 55, 62, 122, 123
		p = 9.24, q = 99		2ΔLnL = 9.48, df = 2, p = 0.01
		ω = 2.22
		p₀ = 0.86, p₁ = 0.14
HYPHY	REL	ω = 2.72			6, 9, 13, 55, 62, 122

^aOnly positively selected codons with Bayesian posterior probabilities equal or greater than 99% are indicated.

ISSN: 2730-7182