The population of fish with pelvic spines that arrived in the lake at time B evolved a reduced pelvis over time (beginning at time C).
(Having a reduced pelvis must have been advantageous for this ancient stickleback population, just as it is for many current freshwater stickleback populations.)
A simple example to illustrate genotype as distinct from phenotype is the flower colour in pea plants (see Gregor Mendel). There are three available genotypes, PP (homozygous dominant), Pp (heterozygous), and pp (homozygous recessive).