diff --git a/environment-accelerate.yml b/environment-accelerate.yml
index 5248c3a953..5738909d7d 100644
--- a/environment-accelerate.yml
+++ b/environment-accelerate.yml
@@ -7,8 +7,8 @@ channels:
 dependencies:
   - pip
   - python=3.9
-  - numpy=1.24.1
-  - scipy=1.10.1
+  - numpy=1.25.0
+  - scipy=1.13.1
   - scikit-learn
   - scikit-image
   - libblas=*=*accelerate
diff --git a/environment-default.yml b/environment-default.yml
index f827ec55bc..2b1d542fd6 100644
--- a/environment-default.yml
+++ b/environment-default.yml
@@ -7,7 +7,7 @@ channels:
 dependencies:
   - pip
   - python=3.9
-  - numpy=1.23.5
-  - scipy=1.9.3
+  - numpy=1.25.0
+  - scipy=1.13.1
   - scikit-learn
   - scikit-image
diff --git a/environment-intel.yml b/environment-intel.yml
index 840dd92f76..3295ff934a 100644
--- a/environment-intel.yml
+++ b/environment-intel.yml
@@ -7,8 +7,8 @@ channels:
 dependencies:
   - pip
   - python=3.9
-  - numpy=1.23.5
-  - scipy=1.9.3
+  - numpy=1.25.0
+  - scipy=1.13.1
   - scikit-learn
   - scikit-image
   - mkl_fft
diff --git a/environment-openblas.yml b/environment-openblas.yml
index 088035f88d..04f80266be 100644
--- a/environment-openblas.yml
+++ b/environment-openblas.yml
@@ -7,8 +7,8 @@ channels:
 dependencies:
   - pip
   - python=3.9
-  - numpy=1.23.5
-  - scipy=1.9.3
+  - numpy=1.25.0
+  - scipy=1.13.1
   - scikit-learn
   - scikit-image
   - libblas=*=*openblas
diff --git a/environment-win64.yml b/environment-win64.yml
index 34ca5d9fa6..ea9ed840f6 100644
--- a/environment-win64.yml
+++ b/environment-win64.yml
@@ -7,8 +7,8 @@ channels:
 dependencies:
   - pip
   - python=3.9
-  - numpy=1.23.5
-  - scipy=1.9.3
+  - numpy=1.25.0
+  - scipy=1.13.1
   - scikit-learn
   - scikit-image
   - mkl=2024.1.*  # possible regression impacts eig solver in later versions up to 2025.0
diff --git a/pyproject.toml b/pyproject.toml
index 8a7696dcb9..2e132d8e1e 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -37,7 +37,7 @@ dependencies = [
     "joblib",
     "matplotlib >= 3.2.0",
     "mrcfile",
-    "numpy>=1.21.5",
+    "numpy>=1.25.0",
     "packaging",
     "pooch>=1.7.0",
     "pillow",