LJAZ is correct... Never, ever use your stabilizer jacks for lifting the trailer's wheels off the ground. The jacks could probably do it, but, your trailer's frame may never forgive you
I saw the results one time of what may happen if you do...the guy's door wouldn't open because the frame got tweaked. He finally managed to pry the door open, but, then couldn't close it. He wasn't a happy camper. I think he used a whole roll of duct tape to close the door for the trip home...
As mentioned, you can lift from the frame at the wheels, but, requires a lot of cribbing that can get wiggly if not done properly. You can also lift from the shackle area as you mentioned. It isn't recommended as if you do it improperly you can deform/damage the axle, but, I've done it for years that way; you want to make sure that you distribute the weight on the shackles and not a small area of the axle. On most shackle assemblies, there is enough coverage and bracing provided by the shackle themselves to prevent damage to the axle (dual curved reinforcement bands provided by the u-bolts and shackle bracket) since you aren't going to lift any higher than an inch or so, just enough for ground clearance. Another option, on tandem axle trailers is to hook up and drive the trailer up onto a stepped set of blocks (I've used my Lynx levelers). If you only use the blocks under the tire you don't want to remove, the other axle will be hanging in the air to allow the wheel to be removed. Similar to the Trailer Aid device (but you are using leveling blocks that you may already have):
Trailer Aid
Just some other options that will work...