diff --git a/clang/lib/Lex/Pragma.cpp b/clang/lib/Lex/Pragma.cpp
index 0c180918dc26..a1c4498a94dc 100644
--- a/clang/lib/Lex/Pragma.cpp
+++ b/clang/lib/Lex/Pragma.cpp
@@ -330,16 +330,16 @@ void Preprocessor::HandlePragmaSystemHeader(Token &SysHeaderTok) {
   unsigned FilenameID = SourceMgr.getLineTableFilenameID(PLoc.getFilename(),
                                                          FilenameLen);
 
+  // Notify the client, if desired, that we are in a new source file.
+  if (Callbacks)
+    Callbacks->FileChanged(SysHeaderTok.getLocation(),
+                           PPCallbacks::SystemHeaderPragma, SrcMgr::C_System);
+
   // Emit a line marker.  This will change any source locations from this point
   // forward to realize they are in a system header.
   // Create a line note with this information.
   SourceMgr.AddLineNote(SysHeaderTok.getLocation(), PLoc.getLine(), FilenameID,
                         false, false, true, false);
-
-  // Notify the client, if desired, that we are in a new source file.
-  if (Callbacks)
-    Callbacks->FileChanged(SysHeaderTok.getLocation(),
-                           PPCallbacks::SystemHeaderPragma, SrcMgr::C_System);
 }
 
 /// HandlePragmaDependency - Handle #pragma GCC dependency "foo" blah.
diff --git a/clang/test/Preprocessor/pragma_sysheader.c b/clang/test/Preprocessor/pragma_sysheader.c
index cf2843bffdea..763e968f7ab0 100644
--- a/clang/test/Preprocessor/pragma_sysheader.c
+++ b/clang/test/Preprocessor/pragma_sysheader.c
@@ -1,3 +1,12 @@
 // RUN: %clang -verify -pedantic %s -fsyntax-only
+// RUN: %clang -E %s | FileCheck %s
 // rdar://6899937
 #include "pragma_sysheader.h"
+
+
+// PR9861: Verify that line markers are not messed up in -E mode.
+// CHECK: # 1 "{{.*}}pragma_sysheader.h" 1
+// CHECK-NEXT: # 1 "{{.*}}pragma_sysheader.h" 3
+// CHECK-NEXT: typedef int x;
+// CHECK-NEXT: typedef int x;
+// CHECK-NEXT: # 5 "{{.*}}pragma_sysheader.c" 2