I have solved it now. I renamed the message field to msg.
solution below.
logback.xml (logback xml file in spring boot application)
<appender name="stash" class="ch.qos.logback.core.rolling.RollingFileAppender">
<filter class="ch.qos.logback.classic.filter.ThresholdFilter">
<level>info</level>
</filter>
<file>/home/rob/projects/scratch/log-tracing-demo/build/logs/tracing-A.log</file>
<rollingPolicy class="ch.qos.logback.core.rolling.TimeBasedRollingPolicy">
<fileNamePattern>/home/rob/projects/scratch/log-tracing-demo/build/logs/tracing-A.log.%d{yyyy-MM-dd}</fileNamePattern>
<maxHistory>30</maxHistory>
</rollingPolicy>
<encoder class="net.logstash.logback.encoder.LogstashEncoder" >
<includeContext>false</includeContext>
<fieldNames>
<message>msg</message>
</fieldNames>
</encoder>
</appender>
So now the json-file examples look like the following.
{"@timestamp":"2017-09-11T14:32:47.920+01:00","@version":1,"msg":"Unregistering JMX-exposed beans","logger_name":"org.springframework.jmx.export.annotation.AnnotationMBeanExporter","thread_name":"Thread-19","level":"INFO","level_value":20000}
Then in the logstash added the following filter
filter {
mutate {
rename => {"msg" => "message"}
}
}