Index: library/Zend/Application/Resource/ResourceAbstract.php
===================================================================
--- library/Zend/Application/Resource/ResourceAbstract.php	(revision 23382)
+++ library/Zend/Application/Resource/ResourceAbstract.php	(working copy)
@@ -83,6 +83,11 @@
      */
     public function setOptions(array $options)
     {
+        if (array_key_exists('bootstrap', $options)) {
+            $this->setBootstrap($options['bootstrap']);
+            unset($options['bootstrap']);
+        }
+
         foreach ($options as $key => $value) {
             if (in_array(strtolower($key), $this->_skipOptions)) {
                 continue;
@@ -92,9 +97,6 @@
             if (method_exists($this, $method)) {
                 $this->$method($value);
             }
-            if ('bootstrap' === $key) {
-                unset($options[$key]);
-            }
         }
 
         $this->_options = $this->mergeOptions($this->_options, $options);
Index: tests/Zend/Application/Resource/DbTest.php
===================================================================
--- tests/Zend/Application/Resource/DbTest.php	(revision 23382)
+++ tests/Zend/Application/Resource/DbTest.php	(working copy)
@@ -223,6 +223,34 @@
         $db = $resource->init();
         $this->assertEquals($db->getFetchMode(), Zend_Db::FETCH_OBJ);
     }
+
+    /**
+     * @group ZF-10543
+     */
+    public function testSetDefaultMetadataCacheThroughBootstrap()
+    {
+        $options = array(
+            'resources' => array(
+                'db'    => array(
+                    'adapter'  => 'Pdo_Sqlite',
+                    'params'   => array(
+                        'dbname'   => ':memory:'
+                     ),
+                     'defaultMetadataCache' => 'default'
+                ),
+                'cachemanager' => array(
+                    'default'  => array(
+                        'backend' => array('name' => 'black-hole')
+                    )
+                )
+            )
+        );
+
+        $this->bootstrap->setOptions($options);
+        $this->bootstrap->bootstrap();
+        $resource = $this->bootstrap->getResource('cachemanager');
+        $this->assertEquals($resource->getCache('default'), Zend_Db_Table::getDefaultMetadataCache());
+    }
 }
 
 if (PHPUnit_MAIN_METHOD == 'Zend_Application_Resource_DbTest::main') {