Table 3.

ILP markers polymorphism between diploid A- and D-genome (A/D), or between tetraploid A_tD_t-genome (GhA_tD_t/GbA_tD_t) in nine tested gene family*.

Gene family	No. of tested marker	A/D		GhAtDt/GbAtDt
		No. of polymorphic marker	Polymorphic rate (%)	No. of polymorphic marker	Polymorphic rate (%)
Aquaporin	14	10	71.43	9	64.29
Heat shock proteins	24	16	66.67	4	16.67
NAC transcription factors	25	21	84.00	6	24.00
WRKY transcription factors	27	24	88.89	15	55.56
Mitogen-activated protein kinase	37	26	70.27	12	32.43
Cytochrome P450	59	37	62.71	14	23.73
Leucine-rich repeat	74	56	75.68	29	39.19
WD40 repeat-containing proteins	111	84	75.68	40	36.04
Zinc finger	164	115	70.12	66	40.24
Total	535	389	72.71	195	36.45

*A/D means two diploid cotton species, G. herbaceum var. africanum (A-genome) and G. raimondii (D-genome).

GhA_tD_t/GbA_tD_t means two allotetraploid cultivated species, G. barbadense cv. Hai7124 and G. hirsutum acc. TM-1.