diff --git a/modules/nf-core/bowtie/align/main.nf b/modules/nf-core/bowtie/align/main.nf
index 2a233c02976..1e0a9dac898 100644
--- a/modules/nf-core/bowtie/align/main.nf
+++ b/modules/nf-core/bowtie/align/main.nf
@@ -3,7 +3,9 @@ process BOWTIE_ALIGN {
     label 'process_high'
 
     conda "${moduleDir}/environment.yml"
-    container "nf-core/modules/bowtie:bowtie-1.3.0_samtools-1.16.1--2c2a8138b83d6d1d"
+    container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
+        'nf-core/modules/bowtie:bowtie-1.3.0_samtools-1.16.1--2c2a8138b83d6d1d' :
+        'nf-core/modules/bowtie:bowtie-1.3.0_samtools-1.16.1--82705d624eee2198' }"
 
     input:
     tuple val(meta), path(reads)