During bone resorption, osteoclasts acidify the extracellular bone res
orbing compartment via a vacuolar H+-ATPase (V-ATPase), which resides
in the ruffled-border membrane. In an effort to characterize the compo
sition of the osteoclast V-ATPase catalytic domain, we have isolated a
cDNA clone that encodes the V-ATPase B-subunit from a cDNA library co
nstructed from highly purified chicken osteoclasts. Comparison of the
predicted amino-acid sequence with the published sequences of isoforms
of V-ATPase B-subunits from other sources revealed that the chicken o
steoclast B-subunit is brain type and not kidney type. Furthermore, on
ly clones encoding the brain type isoform of subunit B could be genera
ted by PCR from a cDNA library prepared from human osteoclastoma osteo
clast-like cells. Northern blot analysis revealed that two B-subunit m
RNAs, approx. 1.7 and 3.5 kb in length, are expressed in chicken bone
marrow mononuclear cells, brain and kidney, although the relative amou
nts of these two transcripts were different in each tissue. In brain,
the 3.5-kb mRNA was predominantly expressed. In bone marrow cells, the
levels of the 1.7-kb mRNA were higher than in other tissues and expre
ssion of this message was increased by 1,25-dihydroxyvitamin D-3, sugg
esting that this mRNA is specifically upregulated during osteoclast di
fferentiation. These results indicate that the B-subunit isoforms pres
ent in the catalytic domains of the osteoclast and kidney V-H+-ATPases
are different and further suggest that selective expression of isofor
ms of the B-subunit in these two tissues could provide a structural ba
sis for some of the differences we have reported in the pharmacology a
nd catalytic properties of these two enzymes.