problem introduced by sensu revamp/cellularization

[gocentral]

cellularization has the synonym cellularization (sensu Metazoa)

but it had the child

prospore membrane formation

which is a fungal term

(it is both a multicellualr organismal process and a cellular process, is that allowed?)

The simplest solution might be to deltes the parent cellularization from prospore membrane formation (this looks wrong anyway). Everything else maight be OK.

Val

Reported by: ValWood

Original Ticket: "geneontology/ontology-requests/3951":https://sourceforge.net/p/geneontology/ontology-requests/3951

[gocentral]

Logged In: YES user_id=451873 Originator: NO

Hi Val - it's part_of a multicellular organismal process and is_a cellular process, so that's okay (it's only is_a of both that's not allowed).

Do you mean the problem is that bacteria have prospores too, so prospore membrane formation is not fungal-specific without the sensu parent?

Jane

Original comment by: jl242

[gocentral]

Logged In: YES user_id=516865 Originator: YES

well more that pombe has prospore membrane formation but isnt a multicellular organism :)

I have never come across the term cellularization before (that parentage only just appeared) so i think that could be removed?

Although in other respects it would be good to have a parent which links some aspects of sporulation/cellularization in order for people to identify genes which may be common to both.....

Original comment by: ValWood

[gocentral]

Logged In: YES user_id=451873 Originator: NO

Of course - durr!

And actually, I was even looking at the wrong term, and I see what you mean about the parentage now.

The easy thing would be to delete the cellularization parentage, but if you felt it was useful to keep it, we could make two children 'cellularization of a single-celled organism' and 'cellularization within a multicellular organism' to sort the paths out.

What d'you reckon?

Original comment by: jl242

[gocentral]

Logged In: YES user_id=436423 Originator: NO

I think I see why prospore membrane formation got placed under cellularization -- at least in budding yeast, it is a case of membranes forming around nuclei that shared one lot of cytoplasm prior to membrane formation, so it could be thought of as matching the text definition of cellularization. It certainly doesn't match the definition inherent in the parentage (cellularization part_of multicellular organismal development), though, and I don't think we'd be losing much if we removed the relationship prospore membrane formation is_a cellularization.

m

Original comment by: mah11

[gocentral]

• summary: problem introduced by sensu revamp/cellualrization --> problem introduced by sensu revamp/cellularization

Original comment by: mah11

[gocentral]

Logged In: YES user_id=516865 Originator: YES

Actually this has no relation to prospore membrane formation it is

The separation of a multi-nucleate cell or syncytium into individual cells.

I thought it must be something to do with gamet formation but it looks as though it is just a mistake....remove it I think....

Original comment by: ValWood

[gocentral]

Logged In: YES user_id=631592 Originator: NO

Attempt at a summary:

If it is decided that 'prospore membrane formation' is indeed an is_a 'cellularization' then, 'cellularization' is not a part_of 'multicellular organismal development' because an instance of 'prospore formation' is not a part_of an instance of 'multicellular organismal development'. Instances of 'cellularization of endosperm','cellularization of megagametophyte','pole cell formation'and 'sperm individualization' are always part_of instances of 'multicellular organismal development', so they should have a part_of relationship to 'multicellular organismal development' through some path.

So if 'prospore membrane formation' is not a 'cellularization' then remove the is_a link between these two. If 'prospore membrane formation' is_a 'cellularization' then remove the part_of relationship between 'cellularization' and 'multicellular organismal development'. Also be sure that 'cellularization of endosperm','cellularization of megagametophyte','pole cell formation'and 'sperm individualization' have some part_of path to 'multicellular organismal development'.

David

Original comment by: ukemi

[gocentral]

Logged In: YES user_id=451873 Originator: NO

I think Val was saying that 'prospore membrane formation' doesn't actually fit the definition of 'cellularization' which is "The separation of a multi-nucleate cell or syncytium into individual cells.", so we should just delete the relationship between 'prospore membrane formation' and 'cellularization'.

Is that right Val?

Original comment by: jl242

[gocentral]

Logged In: YES user_id=516865 Originator: YES

yes, sorry the confusion was because I didn't reilise that until after I had submitted the original request. I was queying the def. When I read the def of cellularization I reilised it wasn't correct anyway.

Original comment by: ValWood

[gocentral]

Logged In: YES user_id=451873 Originator: NO

Okay - deleted prospore membrane formation (GO:0032120) from cellularization (GO:0007349) with OBO_REL:is_a

Jane

Original comment by: jl242

[gocentral]

• milestone: --> 224410
• assigned_to: nobody --> jl242
• labels: --> Other term-related request
• status: open --> closed-fixed

Original comment by: jl242

[gocentral]

• milestone: 224410 --> PomBase

Original comment by: mah11