diff --git a/biology/ugene/Makefile b/biology/ugene/Makefile
index 8cd7c2e94c6f..6947d3efb962 100644
--- a/biology/ugene/Makefile
+++ b/biology/ugene/Makefile
@@ -3,6 +3,7 @@
 
 PORTNAME=	ugene
 DISTVERSION=	1.22.0
+PORTREVISION=	1
 CATEGORIES=	biology science
 MASTER_SITES=	http://ugene.unipro.ru/downloads/
 DISTFILES=	${DISTNAME}${EXTRACT_SUFX} QueryDesigner_UserManual.pdf \
diff --git a/biology/ugene/files/patch-src_libs__3rdparty_samtools_samtools.pri b/biology/ugene/files/patch-src_libs__3rdparty_samtools_samtools.pri
new file mode 100644
index 000000000000..3951d5f87ecb
--- /dev/null
+++ b/biology/ugene/files/patch-src_libs__3rdparty_samtools_samtools.pri
@@ -0,0 +1,11 @@
+--- src/libs_3rdparty/samtools/samtools.pri.orig	2016-03-31 12:21:56 UTC
++++ src/libs_3rdparty/samtools/samtools.pri
+@@ -3,7 +3,7 @@ UGENE_RELATIVE_DESTDIR = ''
+ 
+ TEMPLATE = lib
+ CONFIG +=thread debug_and_release staticlib warn_off
+-INCLUDEPATH += src src/samtools ../../include /usr/include
++INCLUDEPATH += src src/samtools ../../include
+ win32 : INCLUDEPATH += src/samtools/win32
+ DEFINES+="_FILE_OFFSET_BITS=64" _LARGEFILE64_SOURCE _USE_KNETFILE
+ win32 : DEFINES += _USE_MATH_DEFINES "inline=__inline" "__func__=__FUNCTION__" "R_OK=4" "atoll=_atoi64" "alloca=_alloca"
diff --git a/biology/ugene/files/patch-src_plugins__3rdparty_variants_variants.pri b/biology/ugene/files/patch-src_plugins__3rdparty_variants_variants.pri
new file mode 100644
index 000000000000..9ecf2cc231fb
--- /dev/null
+++ b/biology/ugene/files/patch-src_plugins__3rdparty_variants_variants.pri
@@ -0,0 +1,11 @@
+--- src/plugins_3rdparty/variants/variants.pri.orig	2016-03-31 12:22:09 UTC
++++ src/plugins_3rdparty/variants/variants.pri
+@@ -20,7 +20,7 @@ use_bundled_zlib() {
+ win32 : LIBS += -lwsock32
+ 
+ 
+-INCLUDEPATH += src ../../include /usr/include
++INCLUDEPATH += src ../../include
+ INCLUDEPATH += ../../libs_3rdparty/samtools/src/samtools 
+ INCLUDEPATH += ../../libs_3rdparty/samtools/src
+ INCLUDEPATH += ../../libs_3rdparty/samtools/src/samtools/bcftools
diff --git a/biology/ugene/files/patch-src_ugene__globals.pri b/biology/ugene/files/patch-src_ugene__globals.pri
new file mode 100644
index 000000000000..6c0a38639d38
--- /dev/null
+++ b/biology/ugene/files/patch-src_ugene__globals.pri
@@ -0,0 +1,13 @@
+--- src/ugene_globals.pri.orig	2016-03-31 12:22:21 UTC
++++ src/ugene_globals.pri
+@@ -8,8 +8,8 @@ DEFINES+=UGENE_VER_MAJOR=$${UGENE_VER_MA
+ DEFINES+=UGENE_VER_MINOR=$${UGENE_VER_MINOR}
+ DEFINES+=UGENE_VER_PATCH=$${UGENE_VER_PATCH}
+ 
+-unix : !macx : INCLUDEPATH-=/usr/include
+-unix : !macx : INCLUDEPATH+=/usr/include/qt5 /usr/include
++#unix : !macx : INCLUDEPATH-=/usr/include
++#unix : !macx : INCLUDEPATH+=/usr/include/qt5 /usr/include
+ #unix : !macx : INCLUDEPATH =/usr/include/qt5 $$INCLUDEPATH
+ 
+ # NGS package