diff --git a/processing/src/main/java/io/druid/query/groupby/GroupByQueryQueryToolChest.java b/processing/src/main/java/io/druid/query/groupby/GroupByQueryQueryToolChest.java
index 8b6c0538f5d6..6417bd3d891a 100644
--- a/processing/src/main/java/io/druid/query/groupby/GroupByQueryQueryToolChest.java
+++ b/processing/src/main/java/io/druid/query/groupby/GroupByQueryQueryToolChest.java
@@ -62,9 +62,11 @@
 import io.druid.query.dimension.DimensionSpec;
 import io.druid.query.extraction.ExtractionFn;
 import io.druid.query.filter.DimFilter;
+import io.druid.query.spec.MultipleIntervalSegmentSpec;
 import io.druid.segment.incremental.IncrementalIndex;
 import io.druid.segment.incremental.IncrementalIndexStorageAdapter;
 import org.joda.time.DateTime;
+import org.joda.time.Interval;
 
 import javax.annotation.Nullable;
 import java.nio.ByteBuffer;
@@ -173,14 +175,30 @@ private Sequence<Row> mergeGroupByResults(
       final GroupByQuery outerQuery = new GroupByQuery.Builder(query)
           .setLimitSpec(query.getLimitSpec().merge(subquery.getLimitSpec()))
           .build();
-      IncrementalIndex index = makeIncrementalIndex(innerQuery, subqueryResult);
+      final IncrementalIndex index = makeIncrementalIndex(innerQuery, subqueryResult);
 
+      //Outer query might have multiple intervals, but they are expected to be non-overlapping and sorted which
+      //is ensured by QuerySegmentSpec.
+      //GroupByQueryEngine can only process one interval at a time, so we need to call it once per interval
+      //and concatenate the results.
       return new ResourceClosingSequence<>(
           outerQuery.applyLimit(
-              engine.process(
-                  outerQuery,
-                  new IncrementalIndexStorageAdapter(
-                      index
+              Sequences.concat(
+                  Sequences.map(
+                      Sequences.simple(outerQuery.getIntervals()),
+                      new Function<Interval, Sequence<Row>>()
+                      {
+                        @Override
+                        public Sequence<Row> apply(Interval interval)
+                        {
+                          return engine.process(
+                              outerQuery.withQuerySegmentSpec(
+                                  new MultipleIntervalSegmentSpec(ImmutableList.of(interval))
+                              ),
+                              new IncrementalIndexStorageAdapter(index)
+                          );
+                        }
+                      }
                   )
               )
           ),
diff --git a/processing/src/test/java/io/druid/query/groupby/GroupByQueryRunnerTest.java b/processing/src/test/java/io/druid/query/groupby/GroupByQueryRunnerTest.java
index bacd6a1a31d0..d52e35e2f6b1 100644
--- a/processing/src/test/java/io/druid/query/groupby/GroupByQueryRunnerTest.java
+++ b/processing/src/test/java/io/druid/query/groupby/GroupByQueryRunnerTest.java
@@ -2398,6 +2398,72 @@ public void testIdenticalSubquery()
     TestHelper.assertExpectedObjects(expectedResults, results, "");
   }
 
+  @Test
+  public void testSubqueryWithMultipleIntervalsInOuterQuery()
+  {
+    GroupByQuery subquery = GroupByQuery
+        .builder()
+        .setDataSource(QueryRunnerTestHelper.dataSource)
+        .setQuerySegmentSpec(QueryRunnerTestHelper.firstToThird)
+        .setDimensions(Lists.<DimensionSpec>newArrayList(new DefaultDimensionSpec("quality", "alias")))
+        .setDimFilter(new JavaScriptDimFilter("quality", "function(dim){ return true; }"))
+        .setAggregatorSpecs(
+            Arrays.asList(
+                QueryRunnerTestHelper.rowsCount,
+                new LongSumAggregatorFactory("idx", "index")
+            )
+        )
+        .setGranularity(QueryRunnerTestHelper.dayGran)
+        .build();
+
+    GroupByQuery query = GroupByQuery
+        .builder()
+        .setDataSource(subquery)
+        .setQuerySegmentSpec(
+            new MultipleIntervalSegmentSpec(
+                ImmutableList.of(
+                    new Interval("2011-04-01T00:00:00.000Z/2011-04-01T23:58:00.000Z"),
+                    new Interval("2011-04-02T00:00:00.000Z/2011-04-03T00:00:00.000Z")
+                )
+            )
+        )
+        .setDimensions(Lists.<DimensionSpec>newArrayList(new DefaultDimensionSpec("alias", "alias")))
+        .setAggregatorSpecs(
+            Arrays.<AggregatorFactory>asList(
+                new LongSumAggregatorFactory("rows", "rows"),
+                new LongSumAggregatorFactory("idx", "idx")
+            )
+        )
+        .setGranularity(QueryRunnerTestHelper.dayGran)
+        .build();
+
+    List<Row> expectedResults = Arrays.asList(
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-01", "alias", "automotive", "rows", 1L, "idx", 135L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-01", "alias", "business", "rows", 1L, "idx", 118L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-01", "alias", "entertainment", "rows", 1L, "idx", 158L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-01", "alias", "health", "rows", 1L, "idx", 120L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-01", "alias", "mezzanine", "rows", 3L, "idx", 2870L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-01", "alias", "news", "rows", 1L, "idx", 121L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-01", "alias", "premium", "rows", 3L, "idx", 2900L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-01", "alias", "technology", "rows", 1L, "idx", 78L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-01", "alias", "travel", "rows", 1L, "idx", 119L),
+
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-02", "alias", "automotive", "rows", 1L, "idx", 147L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-02", "alias", "business", "rows", 1L, "idx", 112L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-02", "alias", "entertainment", "rows", 1L, "idx", 166L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-02", "alias", "health", "rows", 1L, "idx", 113L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-02", "alias", "mezzanine", "rows", 3L, "idx", 2447L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-02", "alias", "news", "rows", 1L, "idx", 114L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-02", "alias", "premium", "rows", 3L, "idx", 2505L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-02", "alias", "technology", "rows", 1L, "idx", 97L),
+        GroupByQueryRunnerTestHelper.createExpectedRow("2011-04-02", "alias", "travel", "rows", 1L, "idx", 126L)
+    );
+
+    // Subqueries are handled by the ToolChest
+    Iterable<Row> results = GroupByQueryRunnerTestHelper.runQuery(factory, runner, query);
+    TestHelper.assertExpectedObjects(expectedResults, results, "");
+  }
+
   @Test
   public void testDifferentGroupingSubquery()
   {