Genetic and biochemical differences in populations bred for extremes in maize grain methionine concentration

BMC Plant Biology

Table 5 Allele frequencies of candidate genes

Gene	Population	Allele¹	Number of haplotypes	Number of homozygotes	Expected homozygotes²	P value³	Significance⁴
Cys2	C0	1	0	0	0	N/A
		2	6	2	0	>0.01	**
		3	44	18	13	0.21	n.s.
		4	18	5	2	0.07	n.s.
		5	4	1	0	>0.01	**
	LMC6	1	0	0	0	N/A
		2	0	0	0	N/A
		3	20	6	3	0.05	n.s.
		4	52	22	19	0.46	n.s.
		5	0	0	0	N/A
	HMC6	1	10	5	1	>0.01	**
		2	27	4	4	0.95	n.s.
		3	55	18	16	0.63	n.s.
		4	1	0	0	0.94	n.s.
		5	1	0	0	0.94	n.s.
CgS1	C0	1	21	7	11	0.23	n.s.
		2	17	5	7	0.41	n.s.
	LMC6	1	45	16	11	0.17	n.s.
		2	35	11	7	0.12	n.s.
	HMC6	1	5	0	0	0.68	n.s.
		2	67	31	31	0.98	n.s.

¹Alleles were arbitrarily assigned numbers based on SNPs in the section of the gene that was sequenced.
²Number of homozygotes that would be expected under Hardy-Weinberg equilibrium.
³Probability that the observed deviation from Hardy-Weinberg equilibrium is due to chance based on a chi-squared test with one degree of freedom.
⁴Significance of the test for Hardy-Weinberg equilibrium: n.s., not significant; *, probability of observed deviation being due to chance < 0.05 or **,< 0.01.

ISSN: 1471-2229