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Genetics - An Attempt at Simplifying the Complex

Chicken genetics seem to be an endless source of confusion for so many people. I've taken a number of genetics courses in college, and at first they even confused me, but I also didn't know much about what the various mutations looked like in comparison to a number of different breeds. When I first started keeping chickens again, I had no idea where to start in determining what mutations were involved in some of the varieties I had.
 
Since then, I've done more research into specific colorations found in certain breeds, such as Bantam Cochins and Dorkings, and have gained a greater understanding of what goes into each variety. It also doesn't help that the same color in one breed may be called something else entirely in another. For example, comparing Brahma's to Cochins, a Light Brahma is also known as Columbian in the Cochins, while a Dark Brahma is known as Silver Penciled in the Cochins. Silver Grey dorkings are known as Silver Duckwing in many varieties, Red Dorkings are also called Black Breasted Red (aka BBR), or Red Duckwing in other breeds.
 
Before I start, let me mention that I tend to refer to mutations as having 1 or 2 copies of the gene, while the description below mentions each gene having 2 alleles. This is just 2 ways of saying the same thing. Here's a brief review of what DNA is.
 
Living things are made of millions of tiny self-contained components called cells. Inside of each cell are long and complex molecules called DNA. DNA stores information that tells the cells how to create that living thing. Parts of this information that tell how to make one small part or characteristic of the living thing – red hair, or blue eyes, or a tendency to be tall – are known as genes.
 
Every cell in the same living thing has the same DNA, but only some of it is used in each cell. For instance, some genes that tell how to make parts of the liver are switched off in the brain. What genes are used can also change over time. For instance, a lot of genes are used by a child early in pregnancy that are not used later.
 
A living thing has two copies of each gene, one from its mother, and one from its father. There can be multiple types of each gene, which give different instructions: one version might cause a person to have blue eyes, another might cause them to have brown. These different versions are known as alleles of the gene.
 
Since a living thing has two copies of each gene, it can have two different alleles of it at the same time. Often, one allele will be dominant, meaning that the living thing looks and acts as if it had only that one allele. The unexpressed allele is called recessive. In other cases, you end up with something in between the two possibilities. In that case, the two alleles are called co-dominant or incompletely dominant.
 
There are two types of mutations. Autosomal and Sex-linked. All the mutations known in chickens are autosomal, with the exception, for all mammals and birds, of one pair of sex-determining genes. In people, men are shown as X/Y, while women are X/X. In poultry, the hen is designated as X/- while the rooster would be X/X. Each parent donates 1 allele from each gene in the DNA strand. Only the X chromosome carries genetic information, the /Y or /- sex determining chromosome does not carry any other information.
 
There are so many mutations and so many breeds, it can be overwhelming to say the least. It also doesn't help that a number of mutations react differently when combined with others. What I'd like to do here is to explain the basic functions of some types of mutations...
 
**NOTE: When you see a mutation abbreviation with + next to it, that refers to the normal or wild type gene that is not affected by any mutation. Essentially, a Black Breasted Red is unaffected by any mutations at all. It is the coloration found in the original Jungle Fowl that chickens descended from. Mutations shown capitalized are considered dominant, while lower case letters are recessive. Sometimes there are multiple mutations found on the same gene, and even though several might be recessive, there is a dominance of one over another.
 
Recessive mutations always require 2 copies of the gene (aka matching alleles) to be visible, while dominant mutations only require 1 copy to be present for the mutation to be apparent. There are also dominant mutations that are known as 'incompletely dominant', where only 1 copy of the gene gives you one visual type while 2 copies gives you another.
 
The mutations known to chickens typically do one of three things. They affect pattern, red pigmentation (known as pheomelanin) and black pigmentation (known as eumelanin). The pattern genes can be some of the most confusing, so I will leave that for last. Some mutations affect roosters and hens differently.
 
Kippenjungle's Chicken Calculator is a handy tool for anyone wanting to learn how genes interact with each other. All pictures (other than photos) below are from there and show only the single gene effect on an otherwise wild type bird. Another note - although the images are basically the same for some mutations, there are slight differences when shown on a live bird. These images are just to give you the basic idea of what it does.
 
For the most part, pheomelanin and eumelanin are affected in one of 2 ways. They are either enhanced (made darker) or restricted (made lighter).
 
These mutations are:
 
· Mahogany (Mh) - dominant, enhances red but limits some black.
Mh-mahogany.jpg   
· Dilute (Di) - dominant, dilutes red and gold pigments.
Di-dilute.jpg
· Champagne Blond (Cb) - dominant, dilutes gold pigments.
Cb-champagneblond.jpg
· Inhibitor of Gold (ig) - recessive, changes gold pigments to yellow (lemon).
ig-inhibitorofgold.jpg
· Silver (S) - sex-linked incompletely dominant, turns red to white in roosters and turns brown to grey and lightens the salmon breast (when present) in hens.
S-silver.jpg
· Dark Brown (Db) - refers to color of chick down. Columbian-like restrictor of black. Less effective on hens. Reacts with other mutations to cause some patterns and acts under Birchen.
Db-darkbrown.jpg
· Melanotic (Ml) - dominant, enhances black pigments. Also shifts black pigment helping form patterns in the presence of other genes.
Ml-melanotic.jpg
· Charcoal (cha) - recessive black enhancer.
cha-charcoal.jpg
· Chocolate (choc) - sex-linked recessive, dilutes black pattern to chocolate color.
choc-chocolate.jpg
· Dominant White (I) - dilutes black patterns to white (sometimes leaky).
I-dominantwhite.jpg
· Dun (Id) - incomplete dominant. 1 copy dilutes black to brown, 2 copies dilute further to khaki.
idiplus-dun.jpg     IdId-khaki.jpg
· Smokey (is) - recessive blue. changes the effects of dominant white to a blue color. recessive to wild type i+
iS-smokey.jpg
· Blue (Bl) - incompletely dominant, 1 copy dilutes black to blue/grey, 2 copies dilute further to splash.
Blbl-blue.jpg     BlBl-splash.jpg
· Recessive White (c) - no expression of any color, thus white feathers.
c-recessivewhite.jpg
· Lavender (lav) - recessive, dilutes black to lavender, dilutes gold to isabell. The American Poultry Association (APA) refers to the lavender color as "Self Blue".
lav-lavender.jpg
 
Pattern genes are complex and often confusing. They may simply change the coloration of each feather, only certain areas of a bird or even areas only on a single sex. Quite often they also respond differently in the presence of other restricting or enhancing mutations listed above.
 
The e-locus mutations are sometimes the hardest to understand, since many affect each sex differently. They may also modify (or be modified by) other genes present.
 
· Wild Type (e+) - Males black breasted with red duckwing (wing triangle), hackle, saddle, shoulders. Females brown-gold with salmon breast, black stippling on back and black tail.
e-wildtype.jpg
· Extended Black (E) - Dominant, turns the wing triangle black, changing it from a duckwing to a crow-wing. Males become a rusty black, hens less rusty black.
EB-extendedblack.jpg
· Birchen (ER) - Turns wing triangle black (crow-wing) but leaves hackle and saddles normally marked. Black breast can be laced. Somewhat flattens red tints.
ER-birchen.jpg
· Wheaten (eWh) - Least permissive for black, most permissive for red. Males are wild type without hackle black, females wheaten colored without salmon breast and almost no stippling on back.
eWh-wheaten.jpg
· Partridge (eb) - Males are wildtype but somewhat heavier black striping in hackle. Hens are wildtype but without salmon breast. (Not to be confused with the color Partridge, in which hens are double laced)
eb-partridge.jpg
 
The mutations affecting feather patterns are probably the easiest to understand (at least for me).
 
· Columbian (Co) - restricts black from the body of both males and females, also suppressing the salmon breast in hens. leaving the hackle pattern and black tails. Does not have any effect on ER (birchen) birds.
Co-columbian.jpg
· Pattern gene (Pg) - changes the black pigment in hens to concentric penciling, males remaining unchanged except in the presence of certain other genes.
Pg-pattern.jpg
· Barred (B) - sex-linked dominant. produces alternating bars of black and white pigment. Males with 2 copies of the gene will appear lighter and the barring finer and more distinct, where males with only 1 copy will resemble females with wider and less distinct barring (sometimes darker overall coloration).
B-barred.jpg
· Mottled (mo) - recessive, giving white feather tips or less regular white patches.
Mo-mottled.jpg
 
When you start combining certain mutations you can get some drastic differences from what you might expect, and some different combinations produce nearly the same result.
 
· Co, Pg, Ml - single lacing
CoPgMl.jpg
· Co, Ml - quail-type pattern, columbian with patterned back
CoMl.jpg · Pg, Ml - double laced
PgMl.jpg
· Db, Pg, Ml - spangling
DbPgMl.jpg
· Db, Pg - autosomal barring (quilt pattern)
DbPg.jpg
· Co, Db, Pg, Ml - single lacing (sometimes half moon spangling) with patterned tail
CoDbPgMl.jpg
· Co, Db, Ml - quail-type pattern, columbian with patterned back
CoDbMl.jpg
· Db, Ml - quail-type pattern, columbian with patterned back
DbMl.jpg
· Co, Pg - incomplete single lacing
CoPg.jpg

I should also mention though, all of the talk of colors has NOTHING to do with breed requirements in regards to type or conformation. For more information on specific breed requirements I recommend purchasing the APA Standard of Perfection, available directly from the APA at http://www.amerpoultryassn.com/store.htm
 
Here are a few other examples of a few patterns and combinations, including some not mentioned above, that you might find when dealing with laced varieties.
patterns.jpg
Also included are a few pictures of REAL birds, to give an idea of some of the colors listed above...
 
    10_2012_728.jpgSwedish_Flower_Hens_189.jpg
Leigh's Blue and Splash Swedish Flower Hens. These birds have the blue gene (Bl/bl on the left, Bl/Bl on the right), in addition to mottling (Mo) and columbian (Co) that give the typical calico/mille fleur pattern.
 
    smee12.17.12-2.jpglacy12.17.12.jpg
My own blue laced red bantam Wyandotte rooster and a splash laced red Wyandotte (LF) pullet. The mutations involved in these birds involves the pattern gene (Pg), melanizing (Ml) and columbian (Co) which give the classic lacing, plus blue (Bl/bl for the roo & Bl/Bl for the hen) and Mahogany (Mh) to deepen the intensity of the red.
 
bigreddkred.jpg
This next pair are both Red Dorkings, essentially the wild type of chickens, having no mutations at all.
 
    dorkings10.20.12.jpg
The three birds in the foreground are silver grey Dorkings (two hens on the left, rooster on the right). The only mutation involved in these birds is silver (S). To the right (chopped off a bit) and also the picture below are two dilute red Dorkings. I'm not positive of the exact genome, but these two girls have dilute (Di) and the one below may possibly also have mahogany (Mh), which would explain the darker red head and breast than the one above.
tannishbaby12.15.12.jpg

Comments (3)

Great presentation. Provided a great foundation, and will help when I start breeding.
My only negative comment is that I would have found it easier to use if the picture of the wild type was posted right next to each mutation. That way I could immediately compare the "before" and "after" effect of these genetic changes. Or at least have the wild type's picture at the beginning of the examples instead of the middle. I studied the first half of the pictures without even realizing that there was a picture to compare to.
Always trying to learn this stuff, so I appreciate the lesson!
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