Nanomelia is a recessively inherited connective tissue disorder of chi
cken affecting cartilage development. Other investigators have demonst
rated that it involves low aggrecan production and diminished aggrecan
mRNA levels. Based on genetic linkage studies showing a high likeliho
od that the mutation responsible for the nanomelic phenotype lay withi
n the aggrecan gene, a series of experiments was performed to define t
he molecular basis of the trait. Aggrecan mRNA was present in the nucl
eus of the nanomelic chondrocyte but greatly reduced in the cytoplasmi
c compartment, a finding suggestive of a premature stop codon within t
he aggrecan transcript. Since no defect in mRNA splicing could be demo
nstrated by ribonucleasease protection studies, direct DNA sequencing
was initiated by polymerase chain reaction of the mRNA and of genomic
DNA. A stop codon was demonstrated at codon 1513, which is located in
the eighth repeat of the chondroitin sulfate 2 domain of the large ten
th exon. The mutation creates a unique BasBI restriction site which re
adily distinguishes the mutant and wild-type alleles.