diff --git a/biology/mothur/Makefile b/biology/mothur/Makefile
index 9fc6c24779ba..20ffc948ef5b 100644
--- a/biology/mothur/Makefile
+++ b/biology/mothur/Makefile
@@ -1,29 +1,28 @@
 PORTNAME=	mothur
 DISTVERSIONPREFIX=	v
-DISTVERSION=	1.45.3
+DISTVERSION=	1.46.0
 CATEGORIES=	biology
 
 MAINTAINER=	yuri@FreeBSD.org
 COMMENT=	Software for bioinformatics of the microbial ecology community
 
 LICENSE=	GPLv3
 LICENSE_FILE=	${WRKSRC}/LICENSE.md
 
 BUILD_DEPENDS=	bash:shells/bash
 
 USES=		compiler:c++11-lang gmake localbase readline
 USE_GITHUB=	yes
+
+MAKE_ARGS=	INSTALL_DIR=${STAGEDIR}${PREFIX}/bin
+
 ALL_TARGET=	${PORTNAME}
 
 BINARY_ALIAS=	g++=${CXX}
 
-EXES=		${PORTNAME} uchime
-
-PLIST_FILES=	${EXES:S/^/bin\//}
+PLIST_FILES=	bin/${PORTNAME}
 
-do-install: # https://github.com/mothur/mothur/issues/615
-.for e in ${EXES}
-	${INSTALL_PROGRAM} ${WRKSRC}/${e} ${STAGEDIR}${PREFIX}/bin
-.endfor
+post-install:
+	@${STRIP_CMD} ${STAGEDIR}${PREFIX}/bin/${PORTNAME}
 
 .include <bsd.port.mk>
diff --git a/biology/mothur/distinfo b/biology/mothur/distinfo
index 1843d68e9f3c..45c1d1a93280 100644
--- a/biology/mothur/distinfo
+++ b/biology/mothur/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1620575011
-SHA256 (mothur-mothur-v1.45.3_GH0.tar.gz) = 865317569260ab7fa8fde2cbe00bcc05e6402dcd97267615d863ede145f381e8
-SIZE (mothur-mothur-v1.45.3_GH0.tar.gz) = 1613336
+TIMESTAMP = 1629994194
+SHA256 (mothur-mothur-v1.46.0_GH0.tar.gz) = 0bb833b82c8841dca8cecfa58c93d537ec55f4a66d0def40916668a18baf6424
+SIZE (mothur-mothur-v1.46.0_GH0.tar.gz) = 1637691