diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index 9c1e6fe4..f4e9165a 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -7,7 +7,7 @@ default_stages:
 minimum_pre_commit_version: 2.9.3
 repos:
     - repo: https://github.com/pre-commit/mirrors-mypy
-      rev: v1.8.0
+      rev: v1.9.0
       hooks:
           - id: mypy
             additional_dependencies: [numpy, pandas, types-requests]
@@ -17,7 +17,7 @@ repos:
       hooks:
           - id: prettier
     - repo: https://github.com/pre-commit/pre-commit-hooks
-      rev: v4.5.0
+      rev: v4.6.0
       hooks:
           - id: detect-private-key
           - id: check-merge-conflict
@@ -46,7 +46,7 @@ repos:
             name: Check executable files use .sh extension
             types: [shell, executable]
     - repo: https://github.com/astral-sh/ruff-pre-commit
-      rev: v0.2.2
+      rev: v0.3.7
       hooks:
           - id: ruff
             types_or: [python, pyi, jupyter]
diff --git a/src/squidpy/im/_feature_mixin.py b/src/squidpy/im/_feature_mixin.py
index d0caddf1..d327d71c 100644
--- a/src/squidpy/im/_feature_mixin.py
+++ b/src/squidpy/im/_feature_mixin.py
@@ -66,18 +66,15 @@ def _get_channels(xr_img: NDArrayA | xr.DataArray, channels: Channel_t | None) -
 class HasGetItemProtocol(Protocol):
     """Protocol for FeatureMixin to have correct definition of ImageContainer."""
 
-    def __getitem__(self, key: str) -> xr.DataArray:
-        ...
+    def __getitem__(self, key: str) -> xr.DataArray: ...
 
     @property
     def data(self) -> xr.Dataset:  # noqa: D102
         ...
 
-    def _get_layer(self, layer: str | None) -> str:
-        ...
+    def _get_layer(self, layer: str | None) -> str: ...
 
-    def _get_library_id(self, library_id: str | None) -> str:
-        ...
+    def _get_library_id(self, library_id: str | None) -> str: ...
 
 
 class FeatureMixin:
diff --git a/tests/datasets/test_download_visium_dataset.py b/tests/datasets/test_download_visium_dataset.py
index 887bd392..12a6506d 100644
--- a/tests/datasets/test_download_visium_dataset.py
+++ b/tests/datasets/test_download_visium_dataset.py
@@ -1,4 +1,4 @@
-""""
+""" "
 Tests to make sure the Visium example datasets load.
 """