start with something simple and build on it.
drill a well in the shelter and put a septic tank in with a low flow toilet a good septic wont need to be pumped for 3to 5 years what ever you can't compost flush it.
with a green house in a separate area with a worm compost bin (worms are edible and full of protein if it gets that bad and things go wrong)
you can compost most of your food cloth and paper trash do some reading on this give them coffee and they multiply, then you have snack food for the chickens plant food for the garden. a lot of people talk about can food that is not a good idea to me any food not in a disposable biodegradable package I would use canning jars bring extra lids and you can reuse them if you have to many cluttering up the place you can Grind them to powder and flush.
there is a lot of work but you can become self sufficient and semi bio dome.
the price don't have to be in the millions don't use the florescent bulbs they release mercury if they break, will poison the ground up to 15 years use led lights in the living area. and you will need special light for the planting area which draw a lot of power and generate heat which is good because under ground temperature stays between 50 and 60 degrees plants need minimum 12 hours light per day when starting and around 70 degrees , and less light to go to flower must go to flower to get fruit or veggies hope you know how to garden,
one thing people don't talk about is a air e vac system if you were to have a fire or burn something you want a way to change the air in the area quickly, they have exercise bikes that will charge 12 volt batteries you need to work out why not generate juice since you will need a lot PV panels and wind generators are your best bet for the lights but they could get damaged above ground so have back up plan like a little pump that cause water to flow to turbine which is attach to a generator to charge batteries which will run the pump like perpetual motion and the flowing water is relaxing.and like a river flowing through the grow room.
some one told me about some show they seen were they rent out space in old steel mines were you can use it to build storage or shelters I have been trying to find it but no luck the show was call underground city's they said.http://www.crystalinks.com/underbases.html http://americanbombshelter.com/