diff --git a/biology/ncbi-cxx-toolkit/Makefile b/biology/ncbi-cxx-toolkit/Makefile
index 2a24528adfbc..51b51e58add4 100644
--- a/biology/ncbi-cxx-toolkit/Makefile
+++ b/biology/ncbi-cxx-toolkit/Makefile
@@ -1,50 +1,51 @@
 PORTNAME=	ncbi-cxx-toolkit
 DISTVERSIONPREFIX=	release-
-DISTVERSION=	26.0.1
-PORTREVISION=	3
+DISTVERSION=	27.0.0
 CATEGORIES=	biology science devel
 
 MAINTAINER=	yuri@FreeBSD.org
 COMMENT=	NCBI C++ Toolkit
 WWW=		https://ncbi.github.io/cxx-toolkit/
 
 LICENSE=	PD
 LICENSE_FILE=	${WRKSRC}/doc/public/LICENSE
 
 BROKEN_armv6=	platform not defined for FreeBSD arm, see https://github.com/ncbi/ncbi-cxx-toolkit-public/issues/2
 
 LIB_DEPENDS=	libcdd.so:math/cddlib \
 		liblmdb.so:databases/lmdb \
-		libpcre.so:devel/pcre
+		libpcre.so:devel/pcre \
+		libunwind.so:devel/libunwind \
+		libzstd.so:archivers/zstd
 RUN_DEPENDS=	bash:shells/bash
 
 USES=		compiler:c++17-lang gmake mysql perl5 python shebangfix ssl xorg
 USE_XORG=	x11 xpm
 
 USE_GITHUB=	yes
 GH_ACCOUNT=	ncbi
 GH_PROJECT=	${PORTNAME}-public
 
 SHEBANG_FILES=	src/app/blast/get_species_taxids.sh
 SHEBANG_GLOB=	*.pl *.py
 
 GNU_CONFIGURE=	yes
 CONFIGURE_ARGS=	--without-debug --with-dll --without-static \
 		--without-vdb
 
 CONFLICTS_INSTALL=	dakota libxdiff ncbi-blast+ ncbi-toolkit proj \
 			py*-speedtest-cli # bin/blast_formatter bin/speedtest bin/test_regexp lib/libeutils.so lib/libproj.so lib/libxdiff.so
 
 post-install:
 	# strip
 	@${FIND} ${STAGEDIR}${PREFIX}/bin -type f | ${GREP} -v -E '\.(sh|py|pl)$$' | ${XARGS} ${STRIP_CMD}
 	@${FIND} ${STAGEDIR}${PREFIX}/lib -name "*.so" | ${XARGS} ${STRIP_CMD}
 	# remove the conflicting files
 	@${RM} \
 		${STAGEDIR}${PREFIX}/lib/libcdd.so \
 		${STAGEDIR}${PREFIX}/lib/liblmdb.so
 	# autoplist: thousands of files
 	@cd ${STAGEDIR}${PREFIX} && \
 		${FIND} * -type f -or -type l >> ${TMPPLIST}
 
 .include <bsd.port.mk>
diff --git a/biology/ncbi-cxx-toolkit/distinfo b/biology/ncbi-cxx-toolkit/distinfo
index af7c94b0fa38..61f897e153de 100644
--- a/biology/ncbi-cxx-toolkit/distinfo
+++ b/biology/ncbi-cxx-toolkit/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1643225773
-SHA256 (ncbi-ncbi-cxx-toolkit-public-release-26.0.1_GH0.tar.gz) = aba79da5c8d0407ffc92b7831f4f8f8a8096a15e47a016ada81b6568f9d280cc
-SIZE (ncbi-ncbi-cxx-toolkit-public-release-26.0.1_GH0.tar.gz) = 103933829
+TIMESTAMP = 1687817071
+SHA256 (ncbi-ncbi-cxx-toolkit-public-release-27.0.0_GH0.tar.gz) = c8fb3f99c6fce4f170b381f3a7789c76a2ff1c23c094c9852e2e3de1fdc57277
+SIZE (ncbi-ncbi-cxx-toolkit-public-release-27.0.0_GH0.tar.gz) = 57187775
diff --git a/biology/ncbi-cxx-toolkit/files/patch-src_build-system_configure b/biology/ncbi-cxx-toolkit/files/patch-src_build-system_configure
deleted file mode 100644
index c6ca30fee2c4..000000000000
--- a/biology/ncbi-cxx-toolkit/files/patch-src_build-system_configure
+++ /dev/null
@@ -1,10 +0,0 @@
---- src/build-system/configure.orig	2020-09-27 04:51:28 UTC
-+++ src/build-system/configure
-@@ -8080,6 +8080,7 @@ case "$compiler:$ncbi_compiler_ver" in
-     ICC:??.?.? | \
-     ICC:??.?.?.* ) ncbi_compiler_sed='s/\([0-9][0-9]\)\.\([0-9]\)\.\([0-9]\).*/\1\2\3/' ;;
-     *:?.?.?)    ncbi_compiler_sed='s/\([0-9]\)\.\([0-9]\)\.\([0-9]\)/\1\2\3/' ;;
-+    *:??.?.?)   ncbi_compiler_sed='s/\([1-9][0-9]\)\.\([0-9]\)\.\([0-9]\)/\1\2\3/' ;;
-     *:?.??*)    ncbi_compiler_sed='s/\([0-9]\)\.\([0-9][0-9]\).*/\1\2/' ;;
-     *:?.?)      ncbi_compiler_sed='s/\([0-9]\).\([0-9]\)/\1\20/' ;;
-     *:?)        ncbi_compiler_sed='s/\([0-9]\)/\100/' ;;
diff --git a/biology/ncbi-cxx-toolkit/files/patch-src_objtools_edit_pubmed__citmatch_Makefile.pubmed__citmatch.app b/biology/ncbi-cxx-toolkit/files/patch-src_objtools_edit_pubmed__citmatch_Makefile.pubmed__citmatch.app
new file mode 100644
index 000000000000..8781ac4b7d09
--- /dev/null
+++ b/biology/ncbi-cxx-toolkit/files/patch-src_objtools_edit_pubmed__citmatch_Makefile.pubmed__citmatch.app
@@ -0,0 +1,11 @@
+--- src/objtools/edit/pubmed_citmatch/Makefile.pubmed_citmatch.app.orig	2023-06-26 23:22:57 UTC
++++ src/objtools/edit/pubmed_citmatch/Makefile.pubmed_citmatch.app
+@@ -2,7 +2,7 @@
+ 
+ APP = pubmed_citmatch
+ SRC = pubmed_citmatch
+-LIB = $(OBJEDIT_LIBS) mlacli mla eutils uilist efetch $(SEQ_LIBS) \
++LIB = $(OBJEDIT_LIBS) mlacli mla eutils uilist efetch seqset $(SEQ_LIBS) \
+       pubmed medlars pub medline biblio general xser xconnect xutil xncbi
+ 
+ LIBS = $(DL_LIBS) $(NETWORK_LIBS) $(ORIG_LIBS)