[enhancement] use `findOneAndUpdate`, `findOneAndDelete` to speed up `patch`, `update` and `remove`

[beeplin]

Currently patch, update and remove requires one find and one update/remove towards the DB. Actually for single-document-write(id !== null), we can use findOneAndUpdate, findOneAndDelete from the native mongodb api (https://mongodb.github.io/node-mongodb-native/3.0/tutorials/crud/#findoneandupdate-findoneanddelete-and-findoneandreplace) to do the modification and query with only one DB operation.