Thank you, (I think - I'll reread that several times at a more awake time of day)
Why would it be ok to breed full siblings and not half siblings?
I've read it several times over a couple of years although I still wouldn't say I fully understand it all and I refer back to it before looking at who could be bred with whom. I will say that a lot of what is in here has been disputed by others who promote genetic diversity over line breeding within conservation programmes.
However, from the limited knowledge I have of genetics and reading this, I believe full siblings are "OK" because theoretically (setting aside any spontaneous mutations in either of them), any progeny would be equivalent to being a full sibling to the parents... in other words the genes both parents are carrying come from the grandparents and therefore any "swaps" in genes could have come from a mating of the grandparents.
This is probably not a good explanation and is seriously oversimplified but assume that grandparents AA (male) BB (female) and CC (male) DD (female) produce kids. The AA/BB mating gives genes AB and the CC/DD mating gives genes CD. Mating these together gives the following potential combinations:
AB + CD = AC BC AD BD which can either be male or female. Then assume that you have two of each of the genes one male one female so AC(m), AC(f), BC(m), BC(f), AD(m), AD(f) and BD(m), BD(f).
If you mate AC(m) to AC(f) you will get a kid with genes AC - in other words their progeny is equivalent genetically to themselves and could have resulted from a mating of the grandparents so there shouldn't be any increase in "risk" of inbreeding. The same goes for all the other "same" combinations.
If you mate AC(m) with BD(f) you have the following options for the kids: AB, AD, CB or CD.
AB is genetically equivalent to its grandparent AB (same for CD), AD is equivalent to its parent (same for CB/BC). The same goes for the other "different" combinations.
If there's an undetected fault in the line then perpetually line breeding/inbreeding will bring it out, and that's when you have to cull.
Spontaneous mutations are no more likely in line breeding than they are in genetically diverse breeding and therefore you always need to be aware of faults that occur and cull that animal from the breeding programme.
Line breeding can result in stronger stock if you are starting from good strong stock to begin with or are culling hard anything that isn't healthy... this is exactly what nature does if you think about breeds like Hebrideans, Soays, Borerays etc... nature culls anything that isn't strong and the rest of the flock breeds to the strongest, fittest tup - which is undoubtedly covering its own progeny until such time as it's no longer the strongest at which point likely one of its offspring will take over... if that offspring is incompatible with a particular female line resulting in faulted breeding - nature will cull it as a weakling.
I hope this helps. Please note, I'm not an expert, just read, and re-read multiple times as I have been looking to use this to develop genetic diversity from my own animals (foundation stock has good genetic diversity one male 4 and a half females - half being progeny of female from unrelated male) in a closed high health setup.