diff --git a/pyproject.toml b/pyproject.toml
index a4f15e268c..aca36eb9db 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -325,7 +325,6 @@ ignore = [
     "ANN401",
     "PT011",  # TODO: apply this rule
     "PT030",  # TODO: apply this rule
-    "PT031",  # TODO: apply this rule
     "RET505",
     "RET506",
     "RUF005",
diff --git a/tests/test_api.py b/tests/test_api.py
index 9baca3791b..7a7650002f 100644
--- a/tests/test_api.py
+++ b/tests/test_api.py
@@ -470,7 +470,7 @@ def test_tree() -> None:
     g3.create_group("baz")
     g5 = g3.create_group("qux")
     g5.create_array("baz", shape=(100,), chunks=(10,), dtype="float64")
-    with pytest.warns(DeprecationWarning):
+    with pytest.warns(DeprecationWarning):  # noqa: PT031
         assert repr(zarr.tree(g1)) == repr(g1.tree())
         assert str(zarr.tree(g1)) == str(g1.tree())