Table 3.

Number of Bands Amplified Using Seven MSAP Selective Primer Combinations in the Parental Lines Ae. sharonensis (S^lS^l) and T. monococcum ssp aegilopoides (A^mA^m), the F1 Hybrid (S^lA^m), and the Allotetraploid (S^lS^lA^mA^m)

Primer (HM+4/E+3)a	Total Number of Bands in the Two Diploid Parentsb	Polymorphic Sitesc	Total Number of Methylated Sitesd	Methylation Alteration in the F1 Hybrid	Methylation Alteration in the Amphiploid
E+AAG	76	2	31	2	3
E+AGC	65	4	28	3	0
E+AGG	64	3	18	8	8
E+ACG	72	7	20	0	0
E+ACT	78	4	22	0	2
E+ACA	70	9	15	1	2
E+ACC	76	8	25	0	3
Total	501	37	159	14	18

^aThe selective primer HM+4 (5′-CATGAGTCCTGCTCGGTCAA [HM+TCCA]) was used in combination with each of the seven E+3 primers listed. The core sequence of EcoRI is identical to that used in the AFLP protocol by Vos et al. (1995).

^bBands from four lanes were analyzed in each selective primer combination, two lanes for each parent (digested with either HpaII or MspI). Bands that were monomorphic (identical in both parents) were counted only once.

^cSites showing conventional AFLP polymorphism, not related to methylation.

^dBands were considered methylated if they showed polymorphism between the two isoschizomers. Bands with the same methylation pattern in both parents were scored only once.