Bring a large pot of water to a boil for the pasta.
Heat a deep skillet over medium-high heat with EVOO, 3 turns of the pan. Add the bacon and render 2-3 minutes. Add garlic and chili pepper, and stir 1 minute. Add shredded Brussels sprouts and season with black pepper. Toss to lightly brown, season with nutmeg, thyme and lemon zest. Once Brussels wilt and lightly brown at edges, add stock, lemon juice and butter; reduce heat to low.
Salt the boiling water for the pasta. Drop pasta and cook to al dente, reserve 1/2 cup starchy cooking water. Drain pasta, toss with sprouts and a little starchy water. Remove from heat and toss with cheese, serve immediately.