diff --git a/modules/nf-core/mlst/environment.yml b/modules/nf-core/mlst/environment.yml
index c8e3764dae72..cc8ed6faa243 100644
--- a/modules/nf-core/mlst/environment.yml
+++ b/modules/nf-core/mlst/environment.yml
@@ -4,4 +4,4 @@ channels:
   - conda-forge
   - bioconda
 dependencies:
-  - bioconda::mlst=2.23.0
+  - bioconda::mlst=2.25.0
diff --git a/modules/nf-core/mlst/main.nf b/modules/nf-core/mlst/main.nf
index 2b1f83f059d6..e99fd2f4cfa6 100644
--- a/modules/nf-core/mlst/main.nf
+++ b/modules/nf-core/mlst/main.nf
@@ -4,8 +4,8 @@ process MLST {
 
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/mlst:2.23.0--hdfd78af_0' :
-        'biocontainers/mlst:2.23.0--hdfd78af_0' }"
+        'https://depot.galaxyproject.org/singularity/mlst:2.25.0--hdfd78af_0' :
+        'biocontainers/mlst:2.25.0--hdfd78af_0' }"
 
     input:
     tuple val(meta), path(fasta)
diff --git a/modules/nf-core/mlst/tests/main.nf.test.snap b/modules/nf-core/mlst/tests/main.nf.test.snap
index e5b3ea94b6ea..0452d3101dcf 100644
--- a/modules/nf-core/mlst/tests/main.nf.test.snap
+++ b/modules/nf-core/mlst/tests/main.nf.test.snap
@@ -12,7 +12,7 @@
                     ]
                 ],
                 "1": [
-                    "versions.yml:md5,940bbbc3f20d9bee11bdf66fc910cc69"
+                    "versions.yml:md5,ac9190646b911923189e7d3a1f069b77"
                 ],
                 "tsv": [
                     [
@@ -24,14 +24,14 @@
                     ]
                 ],
                 "versions": [
-                    "versions.yml:md5,940bbbc3f20d9bee11bdf66fc910cc69"
+                    "versions.yml:md5,ac9190646b911923189e7d3a1f069b77"
                 ]
             }
         ],
         "meta": {
-            "nf-test": "0.9.2",
-            "nextflow": "24.10.6"
+            "nf-test": "0.9.3",
+            "nextflow": "25.10.2"
         },
-        "timestamp": "2025-05-01T22:45:29.959115768"
+        "timestamp": "2025-12-23T09:35:14.293292"
     }
 }
\ No newline at end of file