New and updated MIBiG entries.

[mmzdouc]

Attention: the PR for the updated json schema should be merged first.

---

Dear all,

this is the pull request for MIBiG version 3.2. It includes 16 bugfixes and 23 new entries. All enties follow MIBiG JSON schema 2.12 (separate PR https://github.com/mibig-secmet/mibig-json/pull/316), have been validated against it and the check_valid.py script, and have been trimmed for empty trailing whitespace (@SJShaw). All entires have been reviewed by at least another reviewer.

Existing entries:

• BGC0000311.json
• BGC0000384.json (https://github.com/mibig-secmet/mibig-json/issues/282)
• BGC0000432.json (https://github.com/mibig-secmet/mibig-json/issues/289)
• BGC0000455.json
• BGC0000581.json (https://github.com/mibig-secmet/mibig-json/issues/312 https://github.com/mibig-secmet/mibig-json/issues/302 https://github.com/mibig-secmet/mibig-json/issues/171)
• BGC0000819.json
• BGC0001106.json (https://github.com/mibig-secmet/mibig-json/issues/261)
• BGC0001356.json
• BGC0001455.json (https://github.com/mibig-secmet/mibig-json/issues/296)
• BGC0001955.json (https://github.com/mibig-secmet/mibig-json/issues/188)
• BGC0002043.json (https://github.com/mibig-secmet/mibig-json/issues/310)
• BGC0002084.json (https://github.com/mibig-secmet/mibig-json/issues/307)
• BGC0002099.json (https://github.com/mibig-secmet/mibig-json/issues/308)
• BGC0002347.json (https://github.com/mibig-secmet/mibig-json/issues/288)
• BGC0002354.json (https://github.com/mibig-secmet/mibig-json/issues/306)
• BGC0002681.json (https://github.com/mibig-secmet/mibig-json/issues/290)

New entries:

• BGC0002077.json
• BGC0002750.json
• BGC0002751.json
• BGC0002752.json
• BGC0002754.json
• BGC0002755.json
• BGC0002757.json
• BGC0002759.json
• BGC0002760.json
• BGC0002765.json
• BGC0002768.json
• BGC0002788.json
• BGC0002789.json
• BGC0002804.json
• BGC0002805.json
• BGC0002808.json
• BGC0002810.json
• BGC0002812.json
• BGC0002813.json
• BGC0002814.json
• BGC0002815.json
• BGC0002816.json
• BGC0002825.json

Kind regards,

Mitja

[SJShaw]

The following entries use CDS identifiers that are missing in their matching genbank entries (in the annotations, NRP, PKS portions, other type sections weren't yet checked):

• BGC0002757: ['ADI58643.1', 'ADI58649.1', 'ADI58650.1', 'ADI58651.1', 'AKQ24644.1', 'AKQ24648.1', 'ALA99201.1', 'ALA99202.1', 'QCT05738.1', 'QCT05750.1', 'WP_012380461.1', 'WP_012380462.1']
• BGC0002808: ['scab79581', 'scab79591', 'scab79601', 'scab79611', 'scab79621', 'scab79631', 'scab79641', 'scab79651', 'scab79661', 'scab79671', 'scab79681', 'scab79691', 'scab79701', 'scab79721']

In the case of BGC0002757, the missing identifiers are also used in BGC0000187, which is a bit suspicious.

I've put the script I used to check up as a gist.

[mmzdouc]

The latest commits also add fixes to the following issue:

• BGC0002429 https://github.com/mibig-secmet/mibig-json/issues/305
• BGC0002353 https://github.com/mibig-secmet/mibig-json/issues/313

[mmzdouc]

New entries:

• BGC0002826.json

[mmzdouc]

Are we going to merge this before the MIBiG 4.0 annotathons?