Somehow I seem to be getting sucked into a lot of genetic discussion on species I no longer keep...
From the available data it appears that the melanistic phase of Variable Kingsnakes is a form of polymorphism likely controlled by what is called a "supergene".
A supergene is a cluster of neighboring genes on a chromosome that they tend to be inherited together, almost acting like a single locus.
This explains why older breedings gave results suggesting simple Mendelian genetics (i.e. a single gene recessive trait).
Moreover it is possible that years of captive breeding have homgenized the trait to an extent that these super genes are no longer maintained in linkage disequlibrium so Melanistic x Melanistic captive matings can produce "normal" phenotypes.
It also explains why we may see some addtive genetic effects in normal babies from melanistic parents. In other words, they are receiving some degree of multiple melanistic genes from their parents, but not all of them.
This is my (somewhat) educated guess. It certainly explains everything we have seen in melanistic Thayeri breedings. To be specific, it explains...
1) Apparently single-gene recessive inheritance patterns, particuarly in older matings. The supergene was still held together in linkage disequilibrium and inherited like a single gene.
2) Melanistic x Melanistic matings producing non-melanistic phenotypes. In thise case the supergene was broken up enough during meiotic recombination and not inherited like a single gene.
3) Some sort of seemingly additive genetic effects, or I guess one could say non-melanistic phenotypes with some extra melanin. This would be from babies receiving a part or parts of the supergene.
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Currently keeping:
6.10 Gonyosoma oxycephalum (Javan, mixed colors)
1.1 Philodryas baroni
1.1 Lampropeltis triangulum multistriata
1.0 Rhodesian Ridgeback