diff --git a/src/datanode/src/datanode.rs b/src/datanode/src/datanode.rs
index fe9791ee60b4..927510408703 100644
--- a/src/datanode/src/datanode.rs
+++ b/src/datanode/src/datanode.rs
@@ -371,7 +371,7 @@ impl Default for DatanodeOptions {
             meta_client_options: None,
             wal: WalConfig::default(),
             storage: StorageConfig::default(),
-            region_engine: vec![],
+            region_engine: vec![RegionEngineConfig::Mito(MitoConfig::default())],
             logging: LoggingOptions::default(),
             heartbeat: HeartbeatOptions::default(),
             enable_telemetry: true,
@@ -497,6 +497,7 @@ impl Datanode {
                 .map_err(BoxedError::new)
                 .context(ShutdownInstanceSnafu)?;
         }
+        self.region_server.stop().await?;
         Ok(())
     }
 
diff --git a/src/datanode/src/error.rs b/src/datanode/src/error.rs
index fc2d3c447f29..d4b6865d923c 100644
--- a/src/datanode/src/error.rs
+++ b/src/datanode/src/error.rs
@@ -560,6 +560,18 @@ pub enum Error {
         location: Location,
         source: store_api::metadata::MetadataError,
     },
+
+    #[snafu(display(
+        "Failed to stop region engine {}, location:{}, source: {}",
+        name,
+        location,
+        source
+    ))]
+    StopRegionEngine {
+        name: String,
+        location: Location,
+        source: BoxedError,
+    },
 }
 
 pub type Result<T> = std::result::Result<T, Error>;
@@ -670,6 +682,7 @@ impl ErrorExt for Error {
                 source.status_code()
             }
             HandleRegionRequest { source, .. } => source.status_code(),
+            StopRegionEngine { source, .. } => source.status_code(),
         }
     }
 
diff --git a/src/datanode/src/region_server.rs b/src/datanode/src/region_server.rs
index 0aea68307d7b..7580a8307ffc 100644
--- a/src/datanode/src/region_server.rs
+++ b/src/datanode/src/region_server.rs
@@ -28,7 +28,7 @@ use common_query::physical_plan::DfPhysicalPlanAdapter;
 use common_query::{DfPhysicalPlan, Output};
 use common_recordbatch::SendableRecordBatchStream;
 use common_runtime::Runtime;
-use common_telemetry::info;
+use common_telemetry::{info, warn};
 use dashmap::DashMap;
 use datafusion::catalog::schema::SchemaProvider;
 use datafusion::catalog::{CatalogList, CatalogProvider};
@@ -48,7 +48,7 @@ use session::context::QueryContext;
 use snafu::{OptionExt, ResultExt};
 use store_api::metadata::RegionMetadataRef;
 use store_api::region_engine::RegionEngineRef;
-use store_api::region_request::RegionRequest;
+use store_api::region_request::{RegionCloseRequest, RegionRequest};
 use store_api::storage::{RegionId, ScanRequest};
 use substrait::{DFLogicalSubstraitConvertor, SubstraitPlan};
 use table::table::scan::StreamScanAdapter;
@@ -57,7 +57,7 @@ use tonic::{Request, Response, Result as TonicResult};
 use crate::error::{
     BuildRegionRequestsSnafu, DecodeLogicalPlanSnafu, ExecuteLogicalPlanSnafu,
     GetRegionMetadataSnafu, HandleRegionRequestSnafu, RegionEngineNotFoundSnafu,
-    RegionNotFoundSnafu, Result, UnsupportedOutputSnafu,
+    RegionNotFoundSnafu, Result, StopRegionEngineSnafu, UnsupportedOutputSnafu,
 };
 
 #[derive(Clone)]
@@ -95,6 +95,11 @@ impl RegionServer {
     pub fn runtime(&self) -> Arc<Runtime> {
         self.inner.runtime.clone()
     }
+
+    /// Stop the region server.
+    pub async fn stop(&self) -> Result<()> {
+        self.inner.stop().await
+    }
 }
 
 #[async_trait]
@@ -272,6 +277,32 @@ impl RegionServerInner {
             Output::Stream(stream) => Ok(stream),
         }
     }
+
+    async fn stop(&self) -> Result<()> {
+        for region in self.region_map.iter() {
+            let region_id = *region.key();
+            let engine = region.value();
+            let closed = engine
+                .handle_request(region_id, RegionRequest::Close(RegionCloseRequest {}))
+                .await;
+            match closed {
+                Ok(_) => info!("Region {region_id} is closed"),
+                Err(e) => warn!("Failed to close region {region_id}, err: {e}"),
+            }
+        }
+        self.region_map.clear();
+
+        let engines = self.engines.write().unwrap().drain().collect::<Vec<_>>();
+        for (engine_name, engine) in engines {
+            engine
+                .stop()
+                .await
+                .context(StopRegionEngineSnafu { name: &engine_name })?;
+            info!("Region engine {engine_name} is stopped");
+        }
+
+        Ok(())
+    }
 }
 
 enum RegionChange {
diff --git a/src/mito2/src/engine.rs b/src/mito2/src/engine.rs
index aed6f399a524..5a6100f64d8b 100644
--- a/src/mito2/src/engine.rs
+++ b/src/mito2/src/engine.rs
@@ -73,14 +73,6 @@ impl MitoEngine {
         }
     }
 
-    /// Stop the engine.
-    ///
-    /// Stopping the engine doesn't stop the underlying log store as other components might
-    /// still use it.
-    pub async fn stop(&self) -> Result<()> {
-        self.inner.stop().await
-    }
-
     /// Returns true if the specific region exists.
     pub fn is_region_exists(&self, region_id: RegionId) -> bool {
         self.inner.workers.is_region_exists(region_id)
@@ -190,6 +182,15 @@ impl RegionEngine for MitoEngine {
     ) -> std::result::Result<RegionMetadataRef, BoxedError> {
         self.inner.get_metadata(region_id).map_err(BoxedError::new)
     }
+
+    /// Stop the engine.
+    ///
+    /// Stopping the engine doesn't stop the underlying log store as other components might
+    /// still use it. (When no other components are referencing the log store, it will
+    /// automatically shutdown.)
+    async fn stop(&self) -> std::result::Result<(), BoxedError> {
+        self.inner.stop().await.map_err(BoxedError::new)
+    }
 }
 
 // Tests methods.
diff --git a/src/store-api/src/region_engine.rs b/src/store-api/src/region_engine.rs
index 4f2b54c0398b..c23282a13024 100644
--- a/src/store-api/src/region_engine.rs
+++ b/src/store-api/src/region_engine.rs
@@ -48,6 +48,9 @@ pub trait RegionEngine: Send + Sync {
 
     /// Retrieve region's metadata.
     async fn get_metadata(&self, region_id: RegionId) -> Result<RegionMetadataRef, BoxedError>;
+
+    /// Stop the engine
+    async fn stop(&self) -> Result<(), BoxedError>;
 }
 
 pub type RegionEngineRef = Arc<dyn RegionEngine>;