diff --git a/git-filter-branch.sh b/git-filter-branch.sh
index 81fd3dba3de9671a1202bea389ad192cdd31c6ef..e95845c0d6345ccc341d70d17431235197dfd967 100755
--- a/git-filter-branch.sh
+++ b/git-filter-branch.sh
@@ -331,7 +331,7 @@ while read commit parents; do
 			die "tree filter failed: $filter_tree"
 
 		(
-			git diff-index -r --name-only $commit &&
+			git diff-index -r --name-only --ignore-submodules $commit &&
 			git ls-files --others
 		) > "$tempdir"/tree-state || exit
 		git update-index --add --replace --remove --stdin \
diff --git a/t/t7003-filter-branch.sh b/t/t7003-filter-branch.sh
index 9503875e97e09ad94283e63ae298551453e5787a..0da13a8d6b8f75ba041a353dfc6a356c1e8bbed0 100755
--- a/t/t7003-filter-branch.sh
+++ b/t/t7003-filter-branch.sh
@@ -306,4 +306,43 @@ test_expect_success '--remap-to-ancestor with filename filters' '
 	test $orig_invariant = $(git rev-parse invariant)
 '
 
+test_expect_success 'setup submodule' '
+	rm -fr ?* .git &&
+	git init &&
+	test_commit file &&
+	mkdir submod &&
+	submodurl="$PWD/submod" &&
+	( cd submod &&
+	  git init &&
+	  test_commit file-in-submod ) &&
+	git submodule add "$submodurl" &&
+	git commit -m "added submodule" &&
+	test_commit add-file &&
+	( cd submod && test_commit add-in-submodule ) &&
+	git add submod &&
+	git commit -m "changed submodule" &&
+	git branch original HEAD
+'
+
+orig_head=`git show-ref --hash --head HEAD`
+
+test_expect_success 'rewrite submodule with another content' '
+	git filter-branch --tree-filter "test -d submod && {
+					 rm -rf submod &&
+					 git rm -rf --quiet submod &&
+					 mkdir submod &&
+					 : > submod/file
+					 } || :" HEAD &&
+	test $orig_head != `git show-ref --hash --head HEAD`
+'
+
+test_expect_success 'replace submodule revision' '
+	git reset --hard original &&
+	git filter-branch -f --tree-filter \
+	    "if git ls-files --error-unmatch -- submod > /dev/null 2>&1
+	     then git update-index --cacheinfo 160000 0123456789012345678901234567890123456789 submod
+	     fi" HEAD &&
+	test $orig_head != `git show-ref --hash --head HEAD`
+'
+
 test_done