During carboniferous, microbes couldn't eat lignin from wood. Now we have fungi and all sorts of bacteria (including those termites host) that can make use of it.
Oh, and time. Life is more diverse now than it was during carboniferous, but it still took millions of years for bacteria to learn how to digest lignin/wood.
My point was: whether we use GMO or not, such a thing might happen naturally.
There is also a chance that such a mutation does not offer much competitive advantage if other nutrients are easy to find, and the mutation disappears. I wouldn't bet on it though, given the number of ecological niches that exist.
Basically wood cells are hard to penetrate, don't provide a food source if they've been air dried, and even in cases where fresh cut wood isn't dried quickly, organisms don't cause enough damage to affect wood's strength. Pretty fascinating stuff.
> Deterioration Without Decomposition. When fresh-cut lumber or veneer is properly air-seasoned, the stored food materials in the sapwood are soon depleted by the respiratory processes of the wood parenchyma cells themselves. If drying is delayed, however, the fresh-cut wood can be invaded by so-called sap-stain fungi and algae, or by bacteria and molds that develop over the surface or penetrate deep into the sapwood by growing through the ray cells from one wood storage cell to another. These organisms use the contents of the wood storage cells as food and thus do not affect the strength of wood seriously; they primarily discolor the wood or alter its permeability. When fresh-cut wood is kiln-dried immediately, the living cells of the sapwood are killed by the heat and the reserve foods are retained in the wood storage cells. If kiln-dried wood becomes wet again, these stored foods can again become substrates for growth of discoloring fungi and bacteria.
Source: https://www.fpl.fs.fed.us/documnts/pdf1984/kirk84a.pdf
Discoloration only? But then what is rot?
Another common method is to protect the wood with a layer of plastic (polyurethane, paint, etc). That's evidently out the window...
The other way we protect wood is to acknowledge that it will get damp, and pressure treat it with poison so that mold can't grow on it.
We might have a harder time with traditional limewash. It is rather caustic and takes a long time to prepare. And while you can achieve different colors with it, it's not the uniform easy perfectness modern paints have. It also has to be re-applied periodically, so it's not as hands off.
It's a bit like gyp rock. You can buy these sheets that go up quickly and easily even for the lay person (I've built a wall). Lathe and plaster existed before that and worked well enough. It's a lot more work though.