diff --git a/modules/nf-core/agat/convertspgff2gtf/main.nf b/modules/nf-core/agat/convertspgff2gtf/main.nf
index 38af025ea16..628b10c9ce7 100644
--- a/modules/nf-core/agat/convertspgff2gtf/main.nf
+++ b/modules/nf-core/agat/convertspgff2gtf/main.nf
@@ -5,7 +5,7 @@ process AGAT_CONVERTSPGFF2GTF {
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/agat:1.4.0--pl5321hdfd78af_0' :
-        'biocontainers/agat:1.4.0--pl5321hdfd78af_0' }"
+        'biocontainers/agat:1.4.2--pl5321hdfd78af_0' }"
 
     input:
     tuple val(meta), path(gff)
diff --git a/modules/nf-core/agat/convertspgff2tsv/main.nf b/modules/nf-core/agat/convertspgff2tsv/main.nf
index a6f73b6c1e7..a61940dcb9c 100644
--- a/modules/nf-core/agat/convertspgff2tsv/main.nf
+++ b/modules/nf-core/agat/convertspgff2tsv/main.nf
@@ -5,7 +5,7 @@ process AGAT_CONVERTSPGFF2TSV {
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/agat:1.4.0--pl5321hdfd78af_0' :
-        'biocontainers/agat:1.4.0--pl5321hdfd78af_0' }"
+        'biocontainers/agat:1.4.2--pl5321hdfd78af_0' }"
 
     input:
     tuple val(meta), path(gff)
diff --git a/modules/nf-core/agat/convertspgxf2gxf/main.nf b/modules/nf-core/agat/convertspgxf2gxf/main.nf
index b9a766830f7..5dd6b0957a2 100644
--- a/modules/nf-core/agat/convertspgxf2gxf/main.nf
+++ b/modules/nf-core/agat/convertspgxf2gxf/main.nf
@@ -5,7 +5,7 @@ process AGAT_CONVERTSPGXF2GXF {
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/agat:1.4.0--pl5321hdfd78af_0' :
-        'biocontainers/agat:1.4.0--pl5321hdfd78af_0' }"
+        'biocontainers/agat:1.4.2--pl5321hdfd78af_0' }"
 
     input:
     tuple val(meta), path(gxf)
diff --git a/modules/nf-core/agat/spaddintrons/main.nf b/modules/nf-core/agat/spaddintrons/main.nf
index 3db8a4391c9..a4b9c42944e 100644
--- a/modules/nf-core/agat/spaddintrons/main.nf
+++ b/modules/nf-core/agat/spaddintrons/main.nf
@@ -5,7 +5,7 @@ process AGAT_SPADDINTRONS {
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/agat:1.4.0--pl5321hdfd78af_0':
-        'biocontainers/agat:1.4.0--pl5321hdfd78af_0' }"
+        'biocontainers/agat:1.4.2--pl5321hdfd78af_0' }"
 
     input:
     tuple val(meta), path(gff)
diff --git a/modules/nf-core/agat/spfilterfeaturefromkilllist/main.nf b/modules/nf-core/agat/spfilterfeaturefromkilllist/main.nf
index 4918ed7f340..b55e45754d1 100644
--- a/modules/nf-core/agat/spfilterfeaturefromkilllist/main.nf
+++ b/modules/nf-core/agat/spfilterfeaturefromkilllist/main.nf
@@ -5,7 +5,7 @@ process AGAT_SPFILTERFEATUREFROMKILLLIST {
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/agat:1.4.0--pl5321hdfd78af_0':
-        'biocontainers/agat:1.4.0--pl5321hdfd78af_0' }"
+        'biocontainers/agat:1.4.2--pl5321hdfd78af_0' }"
 
     input:
     tuple val(meta), path(gff)
diff --git a/modules/nf-core/agat/spmergeannotations/main.nf b/modules/nf-core/agat/spmergeannotations/main.nf
index e0861c08095..d630bc6ed4c 100644
--- a/modules/nf-core/agat/spmergeannotations/main.nf
+++ b/modules/nf-core/agat/spmergeannotations/main.nf
@@ -5,7 +5,7 @@ process AGAT_SPMERGEANNOTATIONS {
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/agat:1.4.0--pl5321hdfd78af_0':
-        'biocontainers/agat:1.4.0--pl5321hdfd78af_0' }"
+        'biocontainers/agat:1.4.2--pl5321hdfd78af_0' }"
 
     input:
     tuple val(meta), path(gffs)
diff --git a/modules/nf-core/agat/spstatistics/main.nf b/modules/nf-core/agat/spstatistics/main.nf
index fd69d9c50ba..939d41e0e61 100644
--- a/modules/nf-core/agat/spstatistics/main.nf
+++ b/modules/nf-core/agat/spstatistics/main.nf
@@ -5,7 +5,7 @@ process AGAT_SPSTATISTICS {
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/agat:1.4.0--pl5321hdfd78af_0' :
-        'biocontainers/agat:1.4.0--pl5321hdfd78af_0' }"
+        'biocontainers/agat:1.4.2--pl5321hdfd78af_0' }"
 
     input:
     tuple val(meta), path(gff)
diff --git a/modules/nf-core/agat/sqstatbasic/main.nf b/modules/nf-core/agat/sqstatbasic/main.nf
index d9b98c6b54a..1f765655eee 100644
--- a/modules/nf-core/agat/sqstatbasic/main.nf
+++ b/modules/nf-core/agat/sqstatbasic/main.nf
@@ -5,7 +5,7 @@ process AGAT_SQSTATBASIC {
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/agat:1.4.0--pl5321hdfd78af_0' :
-        'biocontainers/agat:1.4.0--pl5321hdfd78af_0' }"
+        'biocontainers/agat:1.4.2--pl5321hdfd78af_0' }"
 
     input:
     tuple val(meta), path(gff)