[Go] sporulation rearrangement

[Jane Lomax]

Hi Pankaj - the reason I suggested changing the names of the existing 
sporulation terms to 'cellular ....' and creating new ids for the new, 
more general sporulation terms is because the existing terms have been 
used in the cellular sense and the definitions reflect this. I'll write 
the more general defs for the new terms and that way I won't need to 
change the definitions of existing terms.

I don't really see a problem using 'or' in the term names - we wanted to 
be clear that syncytial structures were not excluded - what do others think?

I'd be okay with changing 'cellular' to 'unicellular' I *think* - 
although we've used just 'cellular' elsewhere in the graph - perhaps I 
should add 'unicellular' synonyms?

Jane

Pankaj Jaiswal wrote:
> Looks good. Suggestions inserted.
>
> Pankaj
>
> David Hill wrote:
>> Jane,
>>
>> Based on your comments, this makes sense to me.
>>
>> David
>>
>> Jane Lomax wrote:
>>> Hi - the PAMGO group are currently working on some terms to annotate 
>>> higher fungi and have encountered some problems with the existing 
>>> placement of the term 'sporulation' and its children in the graph. 
>>> Essentially the problem is that sporulation is a child of 'cell 
>>> differentiation' but in higher fungi spores are often multicellular 
>>> or syncytial structures so this is a tpv. 
>
> Modify the definition  of sporulation ; GO:0030435 to suggest uni & 
> multicellular forms.
>
>
> So we'd like to propose some
>>> changes to the existing graph to remedy this:
>>>
>>> NOW:
>>>
>>> developmental process
>>> ---[i] cellular developmental process
>>> ------[i] cell differentiation
>>> ---------[i] sporulation ; GO:0030435
>>> ------------[i] asexual sporulation ; GO:0030436
>>> ------------[i] sexual sporulation ; GO:0034293
>>>
>>> PROPOSED:
>>>
>>> developmental process
>>> ---[i] sporulation ; GO:new
>
> Check this term its ID is not new but GO:0030435
>
>
>>> ------[i] cellular sporulation ; GO:0030435
>
> Should be a new term.
>
> My suggestion would be to make it exclusively
> 'unicellular sporulation', considering a following new term for 
> 'multicellular sporulation' is also suggested. This will introduce 
> consistency.
>
>
>>> ------[i] multicellular or syncytial sporulation ; GO:new
>
> use of OR must be avoided. Call the term 'multicellular sporulation' 
> and add synonym 'syncytial sporulation'. They are synonymous and not 
> single terms.
>
>
>>> ---------[i] multicellular or syncytial sexual sporulation ; GO:new
>>> ---------[i] multicellular or syncytial asexual sporulation ; GO:new
>>> ------[i] sexual sporulation ; GO:new
>>> ---------[i] cellular sexual sporulation ; GO:0034293
>
> ................^^^^^^^ unicellular
>
>
>>> ---------[i] multicellular or syncytial sexual sporulation ; GO:new
>>> ------[i] asexual sporulation ; GO:new
>>> ---------[i] cellular asexual sporulation ; GO:0030436
>>> ---------[i] multicellular or syncytial asexual sporulation ; GO:new
>>>
>>> developmental process
>>> ---[i] cellular developmental process
>>> ------[i] cell differentiation
>>> ---------[i] cellular sporulation ; GO:0030435
>>> ------------[i] cellular asexual sporulation ; GO:0030436
>
> ................^^^^^^^ unicellular
>
>>> ------------[i] cellular sexual sporulation ; GO:0034293
> ................^^^^^^^ unicellular
>>>
>>> how does that sound to you single-celled fungi people?
>>>
>>> cheers,
>>>
>>> Jane
>>>


-- 
Dr Jane Lomax                                                                                                          
GO Editorial Office                                                                                                    
EMBL-EBI                                                                                                               
Wellcome Trust Genome Campus                                                                                           
Hinxton                                                                                                                
Cambridgeshire, UK                                                                                                     
CB10 1SD                                                                                                               
                                                                                                                       
p: +44 1223 492516                                                                                                     
f: +44 1223 494468