The production of the variant surface glycoprotein coat of bloodstream form African trypanosomes ceases after conversion to the procyclic form. In the bloodstream stage alternate expression of different variant surface glycoprotein genes is responsible for the antigenic variation that occurs during relapse infections in the mammalian host. We have examined procyclic stage populations, derived from different bloodstream variant antigen types, for the two types of genomic alterations associated with variant surface glycoprotein genes in the bloodstream stage. Transcriptional activation of some variant antigen genes is accompanied by the generation of a new copy of the gene, the expression-linked copy. We find that the expression-linked copy is maintained after conversion to procyclic form, indicating that the presence of an expression-linked copy is not sufficient for the expression of a surface coat. Sequences 3' to other variant surface glycoprotein genes show expression-independent variation in bloodstream stage trypanosomes. The same genes showed variation between procyclic populations of different origin, and between procyclics and their bloodstream parent. These data are discussed in light of observations on the sequence of variant antigen expression after cyclic transmission.