The synaptic vesicle proteins SV2A and SV2B (SV2 = synaptic vesicle pr
otein 2) are two highly related proteins belonging to a family of tran
sporters. As a first step toward identifying the function of the SV2 p
roteins, we examined the expression of SV2A and SV2B in the rat brain
by in situ hybridization, immunohistochemistry, and immunoprecipitatio
n with isoform-specific antibodies. These analyses revealed that one i
soform, SV2A, is expressed ubiquitously throughout the brain at varyin
g levels. The other isoform, SV2B, has a more limited distribution wit
h varying degrees of coexpression with SV2A. Immunoprecipitation of br
ain synaptic vesicles with isoform-specific antibodies followed by Wes
tern analyses suggests that both isoforms can be present on the same s
ynaptic vesicle. The expression of the SV2 proteins did not correlate
either with neurotransmitter phenotype or with the expression of other
synaptic vesicle protein isoforms. SV2B expression was observed to ch
ange during development; it is more widely expressed in the immature b
rain and is found in cells that have yet to establish synaptic contact
s. The ubiquitous and overlapping expression of the SV2s suggests that
they perform a function common to all synaptic vesicles. Variable and
changing coexpression of the SV2 isoforms may indicate that SV2 funct
ion is regulated by the isoform composition of synaptic vesicles. The
observation that the synaptic vesicle proteins, all occurring in multi
ple isoforms, are differentially expressed with respect to each other
indicates that up to 90 different vesicle types are possible.