Ball Python Genetics Project

Hello all, I wanted to point out this project that Eastern Michigan University is doing. Basically, these people are trying to figure out the genetic basis of color morphs in ball pythons, and they need sheds from different color morphs to do it. Currently they are focusing on the different Albino genes, but they will take sheds from any morph! They have already discovered some interesting things about Albinos, Candy, Toffee, and Ultramel (you can see what they found on their website), but they currently need more sheds from Lavender Albinos to confirm something that they found. I’m not sponsored by them or anything, I just feel like this is going to be very important in the hobby and I want more people to know about it and help out!

13 Likes

Hey these guys are also on Reddit!

Here are a few of the posts they have made public over there…

How it works:
self.ballpythongenetics

Here is a general overview of how the process works:

The source and morph of received sheds are recorded, and sheds are then stored in the freezer to kill insects. Snake sheds are then washed and divided into equal portions, which are placed inside 1.5 mL tubes. Lysis buffer is used to perform DNA extraction. The extracted DNA is then purified, and undergoes PCR reactions. PCR reactions use restriction enzymes to fragment the DNA at specific sites. DNA fragments are then run through electrophoresis to determine their size. The PCR reactions (DNA fragments) are also sent to an outside source to analyze the DNA sequence. The DNA sequence data is then returned to us and compared to the DNA sequence of our known wild-type morphism to check for mutations.

Current progress (albino)
self.ballpythongenetics
The first color morph we decided to study was ‘albino’. We chose the albino color morph because albinism has been well studied in humans and mice, and the genes causing albinism in mammals tend to be highly similar between species. This similarity suggests that the mammalian and reptile versions of these genes function similarly at the molecular level. Mutations in the reptile versions of these genes are therefore expected to cause albinism in reptiles.
We hypothesized that albino ball pythons carry a mutation in one of the same genes causing albinism in humans or mice. To test this hypothesis, we chose seven of the genes known to cause albinism in humans or mice. We identified the ball python versions of these genes, and we sequenced the ‘coding’ regions of each gene in two animals: one normal (wildtype) ball python and one albino ball python. We focused on the coding regions of the genes because the coding regions are the parts of a gene that determine the structure and function of the protein that the gene encodes. Mutations that disrupt gene function often (but not always) reside in coding regions. What did we find? Surprisingly, we did not find any mutations in the coding regions of the genes in the albino ball python.
Our results could mean one of two things. First, our results could mean that albinism in ball pythons is not caused by a mutation in any of the seven genes we sequenced; rather, albinism might be caused by a mutation in a different gene. An alternate possibility is that albinism in ball pythons might be caused by a mutation residing in a non-coding region of one of the genes we sequenced. Such a mutation would have remained hidden to us because we did not sequence non-coding regions of the genes. We are currently performing experiments to distinguish between these possibilities. Stay tuned for updates!


Current progress (Ultramel morph):

The second color morph we decided to study was ‘ultramel’, also known as ‘ultramelanistic’. Another name occasionally used for ‘ultramel’ is ‘caramel albino’. We avoid this name because of confusion with another morph called ‘caramel albino’ that is genetically distinct from ‘ultramel’ .
Ultramel ball pythons differ from normal ball pythons in that they have less brown-to-black pigment in the skin. Ultramel is therefore a form of albinism, but is more mild than the albinism associated with the ‘albino’ color morph.
The difference between ultramel and albino ball pythons resembles the difference between mild versus severe albinism in humans and mice. Albinism in humans and mice can be caused by mutations in any of several genes. Mutations in some of these genes cause a severe form of albinism, in which patients produce little or no pigment in the skin, hair, and eyes. This severe form of albinism resembles the albino color morph in ball pythons. Mutations in other genes cause more mild forms of albinism in humans and mice, in which patients produce some pigment, but less than normal. This more mild form of albinism resembles the ultramel color morph in ball pythons.
We chose to study the ultramel color morph because its resemblance to mild forms of albinism in humans and mice allowed us to predict which genes might be mutated in ultramel ball pythons. We predicted that ultramel ball pythons carry a mutation in one of the same genes causing mild forms of albinism in humans and mice.
To test this hypothesis, we identified the ball python versions of genes known to cause mild forms of albinism in humans and mice. We sequenced the coding regions of each gene in two animals: one normal (wildtype) ball python and one ultramel ball python. What did we find? We found that the ultramel ball python carries a mutation that removes part of the one of these genes. This mutation therefore disrupts the function of the gene. This effect on gene function explains why ultramel ball pythons make less brown-to-black pigment in the skin.
The next step of our study is to confirm that the mutation we found in the single ultramel ball python is shared with other ultramels. To complete this step, we need to collect sheds from additional ultramel ball pythons. If you own an ultramel, please contribute a shed from your animal. Once we confirm that the mutation we found in a single ultramel is shared across all ultramels, we will create a genetic test for the ultramel color morph. This test will enable breeders of ultramel ball pythons to identify ultramel heterozygotes (i.e. carriers) from non-heterozygotes (i.e. non-carriers)


7 Likes

This is seriously cool stuff. Wish I had some skins to donate but alas I have no Lav Albino in my collection. On the other hand the fact that they were able to (mostly) prove that Caramel and Ultramel are allelic and even further that there are multiple lines of Ultramel is awesome. It’s good that we were able to discover a gene that doesn’t have reproductive issues like Caramel does but still gets us an amazing snake when bred.

Also they are working on tests to prove (at least for these genes) het and non-het snakes. Imagine not having to wait and prove out a snake potentially waiting 1-3 years only to not have the genes you want. Imagine if this branched out to all recessive genes!

6 Likes

There’s actually a group out of McGill University who has found the gene for piebald, they’re currently working on validating it by using CRISPR to make a piebald ball python. They sent me a copy of the preprint and it’s pretty cool! I’ll definitely share once it’s published

4 Likes

That’s one of the things I’m really excited about! I have a Pastel Chocolate probable Hypo DG possible het Caramel Albino and I would love to find out if he is het for Caramel Albino without actually having to produce visuals!

2 Likes

This is really interesting. Love when it gets really scientifically involved.

2 Likes

This is why I love ball python genetics! It’s so much more complex than other animal genetics. I have been driving my boyfriend crazy with explaining dominant, co-dominant and recessive genes and combination genes. And I’m not an expert, I just think it’s amazing!

3 Likes

Can i ask has anyone ever looked at genetically identifying what the difference between morphs actually are, im from a science background and im wondering has anyone ever tried. we identify alot of things based on genetic markers, we can do this process alot quicker and easier than ever before in terms of the technology we have now. We can test for human disease based on genetic markers, im thinking it would take all the guess work out of identification of what the morph is and if you have something new. Im wondering if there is any genetic material in a snake shed that could be used as they are easy to get from a snake without live tissue or blood etc…

Im guessing snake breeders would use a service like this, depending on cost etc…

Just a thought ive been toying with

We know that the morphs are genetic mutations on an allele of a gene. The mutations are passed down and cause the pattern and color change. If the mutations were sequenced then a library could be created for what mutations are associated with which morphs and then this would be possible by taking a mouth swab and sending it in. This has been done with lemon frost leopard geckos and it was proven that it was the same gene that caused the cancerous tumors. If this were done for all leopard gecko morphs this library would be possible and that swab test for genetics would be possible.

1 Like

Are all the mutations in balls on the same gene??? That would make it even easier, it wouldnt take long to build a library theres not that many morphs, if you look at all the different types on sale. Would breeders pay to know for sure what genes they have in a new snake.

1 Like

This diagram is useful to determine that. I think they can occur anywhere on any of the chromosomes but I’m not positive on that.

1 Like

There are several groups currently working on it right now, I know there’s a lab at McGill University who has identified the causative gene for piebald, and there’s a group out of Eastern Michigan University who are working on albino, lav. albino, and ultramel.

It’s still not an easy project because it involves sequencing mutliple ball pythons of each morph (which will cost about $1k), and comparing the genome with a wild type reference (which is not currently publicly available and annotated). There isn’t a huge amount of funding available for ball python genetics (unlike cancer or alzheimer’s) and there’s a limited number of people who are geneticists and also interested in ball pythons.

Also, no, definitely not. Coral glow/banana glow is sex linked, so it’s on the sex chromosomes, but the rest could be anywhere.

Oh yes it definitely would, we’re talking 150+ traits, and some are allelic so even once you identify the causative locus, the nature of the varient would need to be determined (deletion, SNP, copy number variant, etc)

We’ve discussed why this is so challenging in some other threads, I can’t track them all down but here’s one Spider BP Research

1 Like

Cheers for the response, im used to working with human illness that has deeper pockets i guess, i may have to do some digging, is most of research you know of usa based?? Just got me thinking earlier, i watch and read so many articles where people are unsure what is at play in the ball, would this be the simplest way of a definite answer.

Can i ask you said about doing multiple animals of same morph, do you mean same morph or morph family like bel etc, i would of thought that if the morph link was genetic like human eye colour, they would all have same mutation at same place. Base mutation or sequence etc… Sounds like a fascinating project. Maybe if i win the lottery. :joy::joy::joy:

A every representative of a given morph should have the same mutation at a given locus (with some notable exceptions, like Albino), yes. But, to be able to confidently call the specific mutation requires a statistically significant number of individuals that carry the mutation being interrogated to ensure that the change at the genomic level that is found is consistent. Given the number of “silent” mutations that occur across a genome, if you only looked at a single representative of any given morph, odds are you would not be able to call which of the many small changes you found was the absolute source for the mutant phenotype

1 Like

Is this the paper you were referencing?

Yes it is!

1 Like