NTR septum and septum complex for bacteria

[gocentral]

Hi,

I'm creating a set of complexes (FtsQBL complex & FtsBL complex) that are found at the bacterial cell septum / mid cell during cell division (i.e. BP GO:0043093 FtsZ-dependent cytokinesis).

A) Is the existing term GO:0030428 cell septum applicable for prokaryotes? It doesn't seem to have a taxon restriction. If yes, then the part_of relationship is sorted.

B) I need a complex term for these complexes. They whole set of proteins that eventually assemble at the septum are referred to as the divisome. I'm surprised it's not in the GO already. I don't know if we can define the collection of individual complexes found there as the divisome or whether they will have to have part_of divisome relationships. They are definitively capable_of_part_of GO:0043093 FtsZ-dependent cytokinesis but I can't think of an activity. Suggestion: Name: cell septum complex (or divisome?) Def: A protein complex required for prokaryotic cell division (FtsZ-dependent cytokinesis). These complexes are assembled and recruited to the cell septum in a strictly controlled sequence and co-ordinate invagination of the cell membrane, inward growth of the peptidoglycan layer, constriction of the outer membrane and separation of daughter cells.

PMID: 15165235, 21784946, (22888013 review of bacterial cytokinesis)

DBxref: IntAct:EBI-9997581 & IntAct:EBI-9547109

I'm happy to create the term in TG but wanted to avoid creating something that was going to be obsoleted in case I got this wrong!

Thanks, Birgit

Reported by: bmeldal

Original Ticket: geneontology/ontology-requests/11399

[gocentral]

• assigned_to: David Hill

Original comment by: ukemi

[gocentral]

I think it's fine to use 'cell septum' for prokaryotes, although you may want to consider broadening its definition a bit anyway, David, as it looks too specific for its current children.

We didn't really do much for the bacterial cell cycle so I'm not surprised that the complex isn't there. I would call it 'divisome', Birigt, and make sure it has a bacterial taxon restriction.

Original comment by: jl242

[gocentral]

Thanks, Jane.

David, I can't set the taxon restriction in TG FF. Do you want me to do what I can and then let you know when it's done or do you want to do it yourselve from the details here?

Should FtsQBL complex & FtsBL complex be children of the divisome or narrow synonyms?

Birgit

Original comment by: bmeldal

[gocentral]

Hi Birgit,

I can set the taxon restriction after I commit the term. Just let me know exactly what you want. I think you might as well make the child complexes because the whole reason for the recent changes were that there are two mechanisms. FtsZ-dependent and Cdv-dependent. You might want to have a look at that sibling term and its associated reference and then decide.

-D

Original comment by: ukemi

[gocentral]

Hi David,

Terms in TG: GO:1990586 divisome complex GO:1990587 FtsQBL complex GO:1990588 FtsBL complex

missing relationships (as I created the terms in parallel): GO:1990588 FtsBL complex part_of GO:1990587 FtsQBL complex GO:1990588 FtsBL complex is_a GO:1990586 divisome complex

GO:1990587 FtsQBL complex is_a GO:1990586 divisome complex

Correction: As GO:1990587 FtsQBL complex and GO:1990588 FtsBL complex are assembled in the cytosol and then transported to the cell septum can they be both, part_of GO:0005829 cytosol AND part_of GO:0030428 cells septum? If yes, please add the respective missing relationships.

Taxon restrictions: All three complexes should be restricted to prokaryotes.

Thanks, Birgit

Original comment by: bmeldal

[gocentral]

• status: open --> closed-accepted

Original comment by: ukemi

[gocentral]

Hi Birgit,

I added all of the relations for the terms except the last part_ofs that you list. Since part_of has to be always a part_of, we would need to make specific cytosolic and cell septum terms as children of the generic terms to capture this information.

I made both subcomplexes types of divisome complex. That seemed a bit weird to me. Let me know if it is not right.

-David

Original comment by: ukemi

[gocentral]

Thanks David,

Maybe they should be part_of divisome as the divisome has many more components? And then all should be part_of cell septum as that's where they function.

Birgit

Original comment by: bmeldal