This is mean a readable timeout - your disk is too slow to respond.
I guess you use a VM, so it’s kind of expected to have a slower respond because of virtualization on a foreign OS (you likely use Linux as a host, right?).
You need to speed up a disk.
Stop the node
Check and fix issues with the disk
Perform a defragmentation
Enable an automatic defragmentation, if you disabled it (it’s enabled by default)
Start the node
If you still see similar errors, then you may perform this adjustment too:
It should help a lot.
If you could still have this error, I would like to suggest either convert it to a docker node running directly on your host, or disable a lazy filewalker:
Perhaps you have a duplicate key. Search for the same option across the config.