diff --git a/spring-batch-core/src/main/java/org/springframework/batch/core/repository/dao/MongoSequenceIncrementer.java b/spring-batch-core/src/main/java/org/springframework/batch/core/repository/dao/MongoSequenceIncrementer.java
index 683d2ad69..db78dc343 100644
--- a/spring-batch-core/src/main/java/org/springframework/batch/core/repository/dao/MongoSequenceIncrementer.java
+++ b/spring-batch-core/src/main/java/org/springframework/batch/core/repository/dao/MongoSequenceIncrementer.java
@@ -15,20 +15,20 @@
  */
 package org.springframework.batch.core.repository.dao;
 
+import com.mongodb.client.model.FindOneAndUpdateOptions;
+import com.mongodb.client.model.ReturnDocument;
+import org.bson.Document;
+
 import org.springframework.dao.DataAccessException;
 import org.springframework.data.mongodb.core.MongoOperations;
-import org.springframework.data.mongodb.core.query.Query;
-import org.springframework.data.mongodb.core.query.Update;
 import org.springframework.jdbc.support.incrementer.DataFieldMaxValueIncrementer;
 
-import static org.springframework.data.mongodb.core.query.Criteria.where;
-import static org.springframework.data.mongodb.core.query.Query.query;
-
 // Based on https://www.mongodb.com/blog/post/generating-globally-unique-identifiers-for-use-with-mongodb
 // Section: Use a single counter document to generate unique identifiers one at a time
 
 /**
  * @author Mahmoud Ben Hassine
+ * @author Christoph Strobl
  * @since 5.2.0
  */
 public class MongoSequenceIncrementer implements DataFieldMaxValueIncrementer {
@@ -44,13 +44,11 @@ public class MongoSequenceIncrementer implements DataFieldMaxValueIncrementer {
 
 	@Override
 	public long nextLongValue() throws DataAccessException {
-		// TODO optimize
-		MongoSequence sequence = mongoTemplate.findOne(new Query(), MongoSequence.class, sequenceName);
-		Query query = query(where("_id").is(sequence.getId()));
-		Update update = new Update().inc("count", 1);
-		// The following does not return the modified document
-		mongoTemplate.findAndModify(query, update, MongoSequence.class, sequenceName);
-		return mongoTemplate.findOne(new Query(), MongoSequence.class, sequenceName).getCount();
+		return mongoTemplate.execute("BATCH_SEQUENCES",
+				collection -> collection
+					.findOneAndUpdate(new Document("_id", sequenceName), new Document("$inc", new Document("count", 1)),
+							new FindOneAndUpdateOptions().returnDocument(ReturnDocument.AFTER))
+					.getLong("count"));
 	}
 
 	@Override
@@ -63,33 +61,4 @@ public class MongoSequenceIncrementer implements DataFieldMaxValueIncrementer {
 		throw new UnsupportedOperationException();
 	}
 
-	public static final class MongoSequence {
-
-		private String id;
-
-		private long count;
-
-		public String getId() {
-			return id;
-		}
-
-		public void setId(String id) {
-			this.id = id;
-		}
-
-		public long getCount() {
-			return count;
-		}
-
-		public void setCount(long count) {
-			this.count = count;
-		}
-
-		@Override
-		public String toString() {
-			return "MongoSequence{" + "id='" + id + '\'' + ", count=" + count + '}';
-		}
-
-	}
-
 }
diff --git a/spring-batch-core/src/main/resources/org/springframework/batch/core/schema-drop-mongodb.js b/spring-batch-core/src/main/resources/org/springframework/batch/core/schema-drop-mongodb.js
index 6a4d05c67..0213a39df 100644
--- a/spring-batch-core/src/main/resources/org/springframework/batch/core/schema-drop-mongodb.js
+++ b/spring-batch-core/src/main/resources/org/springframework/batch/core/schema-drop-mongodb.js
@@ -2,6 +2,4 @@
 db.getCollection("BATCH_JOB_INSTANCE").drop();
 db.getCollection("BATCH_JOB_EXECUTION").drop();
 db.getCollection("BATCH_STEP_EXECUTION").drop();
-db.getCollection("BATCH_JOB_INSTANCE_SEQ").drop();
-db.getCollection("BATCH_JOB_EXECUTION_SEQ").drop();
-db.getCollection("BATCH_STEP_EXECUTION_SEQ").drop();
+db.getCollection("BATCH_SEQUENCES").drop();
diff --git a/spring-batch-core/src/main/resources/org/springframework/batch/core/schema-mongodb.js b/spring-batch-core/src/main/resources/org/springframework/batch/core/schema-mongodb.js
index d8a3d2571..e3a971ad8 100644
--- a/spring-batch-core/src/main/resources/org/springframework/batch/core/schema-mongodb.js
+++ b/spring-batch-core/src/main/resources/org/springframework/batch/core/schema-mongodb.js
@@ -2,9 +2,17 @@
 db.createCollection("BATCH_JOB_INSTANCE");
 db.createCollection("BATCH_JOB_EXECUTION");
 db.createCollection("BATCH_STEP_EXECUTION");
-db.createCollection("BATCH_JOB_INSTANCE_SEQ");
-db.createCollection("BATCH_JOB_EXECUTION_SEQ");
-db.createCollection("BATCH_STEP_EXECUTION_SEQ");
-db.getCollection("BATCH_JOB_INSTANCE_SEQ").insertOne({count : 0});
-db.getCollection("BATCH_JOB_EXECUTION_SEQ").insertOne({count : 0});
-db.getCollection("BATCH_STEP_EXECUTION_SEQ").insertOne({count : 0});
+
+// SEQUENCES
+db.createCollection("BATCH_SEQUENCES");
+db.getCollection("BATCH_SEQUENCES").insertOne({_id: "BATCH_JOB_INSTANCE_SEQ", count: Long(0)});
+db.getCollection("BATCH_SEQUENCES").insertOne({_id: "BATCH_JOB_EXECUTION_SEQ", count: Long(0)});
+db.getCollection("BATCH_SEQUENCES").insertOne({_id: "BATCH_STEP_EXECUTION_SEQ", count: Long(0)});
+
+// INDICES
+db.getCollection("BATCH_JOB_INSTANCE").createIndex("job_name_idx", {"jobName": 1}, {});
+db.getCollection("BATCH_JOB_INSTANCE").createIndex("job_name_key_idx", {"jobName": 1, "jobKey": 1}, {});
+db.getCollection("BATCH_JOB_INSTANCE").createIndex("job_instance_idx", {"jobInstanceId": -1}, {});
+db.getCollection("BATCH_JOB_EXECUTION").createIndex("job_instance_idx", {"jobInstanceId": 1}, {});
+db.getCollection("BATCH_JOB_EXECUTION").createIndex("job_instance_idx", {"jobInstanceId": 1, "status": 1}, {});
+db.getCollection("BATCH_STEP_EXECUTION").createIndex("step_execution_idx", {"stepExecutionId": 1}, {});
diff --git a/spring-batch-core/src/test/java/org/springframework/batch/core/repository/support/MongoDBJobRepositoryIntegrationTests.java b/spring-batch-core/src/test/java/org/springframework/batch/core/repository/support/MongoDBJobRepositoryIntegrationTests.java
index 3499b5193..6be400136 100644
--- a/spring-batch-core/src/test/java/org/springframework/batch/core/repository/support/MongoDBJobRepositoryIntegrationTests.java
+++ b/spring-batch-core/src/test/java/org/springframework/batch/core/repository/support/MongoDBJobRepositoryIntegrationTests.java
@@ -16,6 +16,7 @@
 package org.springframework.batch.core.repository.support;
 
 import java.time.LocalDateTime;
+import java.util.Map;
 
 import com.mongodb.client.MongoClient;
 import com.mongodb.client.MongoClients;
@@ -75,12 +76,13 @@ public class MongoDBJobRepositoryIntegrationTests {
 		mongoTemplate.createCollection("BATCH_JOB_INSTANCE");
 		mongoTemplate.createCollection("BATCH_JOB_EXECUTION");
 		mongoTemplate.createCollection("BATCH_STEP_EXECUTION");
-		mongoTemplate.createCollection("BATCH_JOB_INSTANCE_SEQ");
-		mongoTemplate.createCollection("BATCH_JOB_EXECUTION_SEQ");
-		mongoTemplate.createCollection("BATCH_STEP_EXECUTION_SEQ");
-		mongoTemplate.getCollection("BATCH_JOB_INSTANCE_SEQ").insertOne(new Document("count", 0));
-		mongoTemplate.getCollection("BATCH_JOB_EXECUTION_SEQ").insertOne(new Document("count", 0));
-		mongoTemplate.getCollection("BATCH_STEP_EXECUTION_SEQ").insertOne(new Document("count", 0));
+		mongoTemplate.createCollection("BATCH_SEQUENCES");
+		mongoTemplate.getCollection("BATCH_SEQUENCES")
+			.insertOne(new Document(Map.of("_id", "BATCH_JOB_INSTANCE_SEQ", "count", 0L)));
+		mongoTemplate.getCollection("BATCH_SEQUENCES")
+			.insertOne(new Document(Map.of("_id", "BATCH_JOB_EXECUTION_SEQ", "count", 0L)));
+		mongoTemplate.getCollection("BATCH_SEQUENCES")
+			.insertOne(new Document(Map.of("_id", "BATCH_STEP_EXECUTION_SEQ", "count", 0L)));
 	}
 
 	@Test