diff --git a/core/file_server/reader/LogFileReader.cpp b/core/file_server/reader/LogFileReader.cpp
index e3ea1d5e3e..dc492622eb 100644
--- a/core/file_server/reader/LogFileReader.cpp
+++ b/core/file_server/reader/LogFileReader.cpp
@@ -2526,7 +2526,23 @@ PipelineEventGroup LogFileReader::GenerateEventGroup(LogFileReaderPtr reader, Lo
     if (AppConfig::GetInstance()->EnableLogTimeAutoAdjust()) {
         logtime += GetTimeDelta();
     }
-    event->SetTimestamp(logtime);
+    // Check if nanosecond timestamp is enabled in global config
+    const GlobalConfig& globalConfig = reader->mReaderConfig.second->GetGlobalConfig();
+    if (globalConfig.mEnableTimestampNanosecond) {
+        // Use nanosecond precision timestamp
+        uint64_t currentTimeNs = GetCurrentTimeInNanoSeconds();
+        if (AppConfig::GetInstance()->EnableLogTimeAutoAdjust()) {
+            // When auto-adjusting, use the adjusted second timestamp with current nanosecond part
+            event->SetTimestamp(logtime, static_cast<uint32_t>(currentTimeNs % kNanoPerSeconds));
+        } else {
+            // When not auto-adjusting, use the full nanosecond timestamp
+            event->SetTimestamp(static_cast<time_t>(currentTimeNs / kNanoPerSeconds),
+                                static_cast<uint32_t>(currentTimeNs % kNanoPerSeconds));
+        }
+    } else {
+        // Use regular second timestamp
+        event->SetTimestamp(logtime);
+    }
     event->SetContentNoCopy(DEFAULT_CONTENT_KEY, logBuffer->rawBuffer);
     event->SetPosition(logBuffer->readOffset, logBuffer->readLength);
 
diff --git a/pkg/protocol/converter/converter_single_log_flatten.go b/pkg/protocol/converter/converter_single_log_flatten.go
index 9daf6000c5..3e6d0440d3 100644
--- a/pkg/protocol/converter/converter_single_log_flatten.go
+++ b/pkg/protocol/converter/converter_single_log_flatten.go
@@ -48,10 +48,22 @@ func (c *Converter) ConvertToSingleProtocolLogsFlatten(logGroup *protocol.LogGro
 			}
 		}
 
-		if newKey, ok := c.ProtocolKeyRenameMap[protocolKeyTime]; ok {
-			customSingleLog[newKey] = log.Time
+		// Set timestamp with nanosecond precision if enabled
+		timestamp := log.Time
+		if c.GlobalConfig != nil && c.GlobalConfig.EnableTimestampNanosecond {
+			// Combine seconds and nanoseconds
+			timestampNs := uint64(timestamp) * 1000000000 + uint64(log.GetTimeNs())
+			if newKey, ok := c.ProtocolKeyRenameMap[protocolKeyTime]; ok {
+				customSingleLog[newKey] = timestampNs
+			} else {
+				customSingleLog[protocolKeyTime] = timestampNs
+			}
 		} else {
-			customSingleLog[protocolKeyTime] = log.Time
+			if newKey, ok := c.ProtocolKeyRenameMap[protocolKeyTime]; ok {
+				customSingleLog[newKey] = timestamp
+			} else {
+				customSingleLog[protocolKeyTime] = timestamp
+			}
 		}
 
 		convertedLogs[i] = customSingleLog
diff --git a/pkg/protocol/converter/custom_single_log.go b/pkg/protocol/converter/custom_single_log.go
index b20df66e0e..3f377f4b16 100644
--- a/pkg/protocol/converter/custom_single_log.go
+++ b/pkg/protocol/converter/custom_single_log.go
@@ -41,10 +41,22 @@ func (c *Converter) ConvertToSingleProtocolLogs(logGroup *protocol.LogGroup, tar
 		desiredValues[i] = desiredValue
 
 		customSingleLog := make(map[string]interface{}, numProtocolKeys)
-		if newKey, ok := c.ProtocolKeyRenameMap[protocolKeyTime]; ok {
-			customSingleLog[newKey] = log.Time
+		// Set timestamp with nanosecond precision if enabled
+		timestamp := log.Time
+		if c.GlobalConfig != nil && c.GlobalConfig.EnableTimestampNanosecond {
+			// Combine seconds and nanoseconds
+			timestampNs := uint64(timestamp) * 1000000000 + uint64(log.GetTimeNs())
+			if newKey, ok := c.ProtocolKeyRenameMap[protocolKeyTime]; ok {
+				customSingleLog[newKey] = timestampNs
+			} else {
+				customSingleLog[protocolKeyTime] = timestampNs
+			}
 		} else {
-			customSingleLog[protocolKeyTime] = log.Time
+			if newKey, ok := c.ProtocolKeyRenameMap[protocolKeyTime]; ok {
+				customSingleLog[newKey] = timestamp
+			} else {
+				customSingleLog[protocolKeyTime] = timestamp
+			}
 		}
 		if newKey, ok := c.ProtocolKeyRenameMap[protocolKeyContent]; ok {
 			customSingleLog[newKey] = contents