diff --git a/.gitmodules b/.gitmodules
index 692574bf..b0b6071e 100644
--- a/.gitmodules
+++ b/.gitmodules
@@ -1,3 +1,6 @@
 [submodule "ci/opentimestamps-client"]
 	path = ci/opentimestamps-client
 	url = https://github.com/opentimestamps/opentimestamps-client.git
+[submodule "build/assets/pandoc-jats"]
+	path = build/assets/pandoc-jats
+	url = https://github.com/mfenner/pandoc-jats
diff --git a/build/assets/pandoc-jats b/build/assets/pandoc-jats
new file mode 160000
index 00000000..d3aaa439
--- /dev/null
+++ b/build/assets/pandoc-jats
@@ -0,0 +1 @@
+Subproject commit d3aaa4393125f5cf2d5b813b2fa2693afff70eb6
diff --git a/build/build.sh b/build/build.sh
index 8f196f23..70039d8d 100644
--- a/build/build.sh
+++ b/build/build.sh
@@ -51,6 +51,23 @@ wkhtmltopdf \
   webpage/index.html \
   output/manuscript.pdf
 
+# Create JATS XML output
+# https://github.com/mfenner/pandoc-jats
+echo "Exporting JATS XML manuscript"
+pandoc --verbose \
+  --smart \
+  --from=markdown \
+  --to=build/assets/pandoc-jats/JATS.lua \
+  --filter pandoc-fignos \
+  --filter pandoc-eqnos \
+  --filter pandoc-tablenos \
+  --template=build/assets/pandoc-jats/default.jats \
+  --bibliography=$BIBLIOGRAPHY_PATH \
+  --csl=$CSL_PATH \
+  --metadata link-citations=true \
+  --output=output/manuscript.xml \
+  $INPUT_PATH
+
 # Create DOCX output when user specifies to do so
 if [ "$BUILD_DOCX" = "true" ];
 then
diff --git a/output/README.md b/output/README.md
index 8c0fd1c6..6834f815 100644
--- a/output/README.md
+++ b/output/README.md
@@ -13,4 +13,4 @@ This directory contains the following files:
 + [`references.json`](references.json) is CSL-JSON file of bibliographic item metadata ([see specification](https://github.com/citation-style-language/schema/blob/master/csl-data.json)) for all references.
 + [`variables.json`](variables.json) contains variables that were passed to the jinja2 templater. These variables contain those automatically generated by the manubot as well as those provided by the user via the `--template-variables-path` option.
 
-Pandoc consumes `manuscript.md` and `references.json` to create the formatted manuscript, which is exported to `manuscript.html`, `manuscript.pdf`, and optionally `manuscript.docx`.
+Pandoc consumes `manuscript.md` and `references.json` to create the formatted manuscript, which is exported to `manuscript.html`, `manuscript.pdf`, `manuscript.xml`, and optionally `manuscript.docx`.