Canine plasma factor IX was purified to homogeneity by a combination o
f barium citrate precipitation and three-step column chromatographies
of DEAE sepharose, heparin agarose and a monoclonal antifactor IX anti
body-linked agarose. Canine factor IX has an apparent molecular size o
f 61 kDa, which is slightly smaller than that of human factor IX, as d
etermined by denatured polyacrylamide gel electrophoresis. Its amino a
cid composition, amino-terminal and carboxyterminal amino acid sequenc
es agreed well with those predicted from the reported cDNA. Unlike pur
ified human factor IX, canine factor IX preparation often showed a dis
crete smaller molecular species (similar to 50 kDa) which was generate
d by a specific proteolytic cleavage between Arg310 and Val311. When p
urified canine factor CY was utilized as a standard far enzyme linked
immunosorbent assay, the concentration of canine factor IX in the pool
ed normal dog plasma was determined to be 5.3 mu g/ml with 11.2% carbo
hydrate content (or 4.7 mu g/ml for its polypeptide chain moiety). Con
centration of plasma factor IX antigen was measured in six severely af
fected, unrelated hemophilia B dogs. Four had factor IX antigen of les
s than 1% of the normal, and two had undetectable levels. The latter t
wo had gross molecular abnormalities in their factor IX genes. Three o
bligate carrier females had variable but proportionately reduced facto
r IX antigen and factor IX coagulant activity levels. These results pr
ovide a quantitative method for measuring canine factor IX antigen whi
ch is a prerequisite for studying hemostasis and development of gene t
ransfer approaches in the canine model of hemophilia B.