A linkage map of the cocoa genome comprising 193 loci has been constru
cted. These loci consist of 5 isozymes, 101 cDNA/RFLPs, 4 loci from ge
nes of known function, 55 genomic DNA/RFLPs and 28 RAPDs. A population
of 100 individuals derived from a cross between two heterozygous geno
types was used. Segregation analyses were performed with the JoinMap p
rogram. Ten linkage groups, which putatively correspond to the ten gam
etic chromosomes of cocoa, were identified. The map covers a total len
gth of 759 cM with a 3.9 cM average distance between 2 markers. A smal
l fraction (9%) of the markers deviated significantly from the expecte
d Mendelian ratios.