diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index b5ec1f1..93cb5b8 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -3,7 +3,7 @@
 # See https://pre-commit.com/hooks.html for more hooks
 repos:
   - repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v5.0.0
+    rev: v6.0.0
     hooks:
       - id: trailing-whitespace
       - id: end-of-file-fixer
@@ -16,25 +16,25 @@ repos:
       - id: mixed-line-ending
 
   - repo: https://github.com/PyCQA/flake8
-    rev: 7.1.1
+    rev: 7.3.0
     hooks:
       - id: flake8
         args: ['--config=.flake8']
 
   - repo: https://github.com/PyCQA/isort
-    rev: 5.13.2
+    rev: 9.0.0a3
     hooks:
       - id: isort
         args: ['--profile', 'black']
 
   - repo: https://github.com/asottile/pyupgrade
-    rev: v3.19.1
+    rev: v3.21.2
     hooks:
       - id: pyupgrade
         args: [--py39-plus]
 
   - repo: https://github.com/snakemake/snakefmt
-    rev: v0.11.4
+    rev: v1.1.0
     hooks:
       - id: snakefmt