TABLE 3

PCR patterns and inferred structures

PCR patternP1-rr11P1-rr910Inferred rearrangementFrequency (%)
+ − − −510Ac 5′ adjacent external deletion15
− − − +32fAc 3′ adjacent external deletion5
+ − − +32Major rearrangementa5
+ − − +10ITS rearrangementb1
+ − − +1333Inversion46
+ + − +62Ac 5′ adjacent small internal deletionc8
+ − + +45fAc 3′ adjacent small internal deletion9
− − + +11Ac excision?2
+ + − −01Unknown1
+ + + −01Unknown1
− − − −61Reference p1-ww or p1-wr allele7
4258Total100
  • Results of diagnostic PCR using the four primer pairs shown in Figure 1; + and – represent positive or negative results from each primer pair. The number of cases derived from each progenitor allele (P1-rr11 or P1-rr910) is shown. Deletions are classified as “adjacent external deletion” if they extend into the external flanking DNA. Deletions within the intertransposon segment (i.e., between the Ac 5′ end and the fAc 3′ end) are termed “small internal deletion.”

  • a Alleles containing major chromosome rearrangements (translocations or large inversions) were identified by high-frequency pollen abortion.

  • b ITS rearrangement alleles were identified using an additional primer pair (Table 2).

  • c Three alleles (p1-wwB42, p1-wwB54, and p1-wwB59) produced + − − + patterns in initial PCR analysis. Subsequent sequence analysis placed p1-wwB54 and p1-wwB59 in the + + − + group; p1-wwB42 could be in either + + − + or + − + + group; it is arbitrarily place in the former group.