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In the game, inbreeding won't hurt the animals but they will be worth less and with lower stats.
With species which have more than one female in the habitat, such as Elephants or Lemurs, simply put the mother on contraceptives after the babies arrive, this will mean the male has to mate with an alternative female. Then you have babies being born from different gene pools and your future mating should go well. Some inbreeding will happen though for sure.
With species that have a single male and a single female like your Tigers, Best you can do is sell all cubs and when your parents get old, save your best tiger cub, buy him or her a mate and release your old adults to the wild.
In multiple male/female breeding pens I put alternating pairs on contraceptives so I get alternate family groups born at the same time so that they can breed with each other in the next generation, bringing in alternative parents for the next generation of breeding stock.
It's harder to control in a zoo with tons of different animals so I tend to have specialist breeding zoos concentrating on a few animals at a time with the bigger zoos breeding to keep the guests happy with the little babies. Again keeping the best for future breeding.
Do you have a separate franchise zoo with those breeding pens?
I have several zoos for different continent/biome setups and if I want to concentrate on breeding a specific set of animals I just create a new zoo. I don't worry about money once they are all set up but it can help if I decide to build an additional habitat because the children are all too good to give away without at least one or two breeding cycles before trading them out.
Here is one I set up not long after release.It houses my original peafowl breeding groups.
https://steamcommunity.com/sharedfiles/filedetails/?id=2014656985
Thank you. I'll keep that in mind ;)
@ The classy alien
I do that also, but at a certain point when I have several animals, I'm occupied doing this and can't play the game anymore, because I've to pause constantly.
Also, guests will only donate once per animal. The babies help keep the interest up but variety can boost the zoos intake as well as shops. So deciding on a breeding zoo with no other animals with very little money to offset the costs, or adding things like exhibits or random releasable animals may help bring the profit margin up.
Yep, this is usually how I do it. Each zoo will have one or two animals that I monitor with the other animals. Deciding which animal in which zoo for me is based on animals per continent.biome ratio. I may have 1 animal in multiple zoos because of their multiple zone options but not all of them will be breeding monitored. Any other animal in that zoo are just trimmed down when they get over crowded. At that point I select the best unrelated pairs and release all the others or trade those that aren't inbred or needed for he next generation.