diff --git a/biology/py-gffutils/Makefile b/biology/py-gffutils/Makefile
index d7a3a74860a9..bf0a0a44ef14 100644
--- a/biology/py-gffutils/Makefile
+++ b/biology/py-gffutils/Makefile
@@ -1,24 +1,30 @@
 PORTNAME=	gffutils
-DISTVERSION=	0.11.1
+DISTVERSION=	0.13
 CATEGORIES=	biology python
 MASTER_SITES=	PYPI
 PKGNAMEPREFIX=	${PYTHON_PKGNAMEPREFIX}
 
 MAINTAINER=	yuri@FreeBSD.org
 COMMENT=	Work with GFF and GTF files in a flexible database framework
 WWW=		https://github.com/daler/gffutils
 
 LICENSE=	MIT
 
 RUN_DEPENDS=	${PYTHON_PKGNAMEPREFIX}argcomplete>=1.9.4:devel/py-argcomplete@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}argh>=0.26.2:devel/py-argh@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}pyfaidx>=0.5.5.2:biology/py-pyfaidx@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}simplejson>0:devel/py-simplejson@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}six>=1.12.0:devel/py-six@${PY_FLAVOR}
 
 USES=		python
-USE_PYTHON=	distutils concurrent autoplist pytest # tests use nose and therefore don't work, see https://github.com/daler/gffutils/issues/211
+USE_PYTHON=	distutils concurrent autoplist pytest
+
+TEST_ENV=	${MAKE_ENV} \
+		PATH=${STAGEDIR}${PREFIX}/bin:${PATH} \
+		PYTHONPATH=${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}
 
 NO_ARCH=	yes
 
+# 1 test (test_roundtrip) fails, see test_roundtrip
+
 .include <bsd.port.mk>
diff --git a/biology/py-gffutils/distinfo b/biology/py-gffutils/distinfo
index 87aef9733a5d..e5a11a3fb3cf 100644
--- a/biology/py-gffutils/distinfo
+++ b/biology/py-gffutils/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1678604359
-SHA256 (gffutils-0.11.1.tar.gz) = ca7bf814d600b389bb2d5c403dd279755118cb1476c19c6f7aecb8c51a84263c
-SIZE (gffutils-0.11.1.tar.gz) = 1553140
+TIMESTAMP = 1718571181
+SHA256 (gffutils-0.13.tar.gz) = b0d52f35c014cc0330fb5c4e3c6fea127c90ccf4c5384a825cdb5c8ff330d4eb
+SIZE (gffutils-0.13.tar.gz) = 1560489