obsolete "host reproductive phenotype induced by pathogen"

PHI-base / phipo

Pathogen-Host Interaction Phenotype Ontology

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obsolete "host reproductive phenotype induced by pathogen" #347

Closed ValWood closed 2 years ago

ValWood commented 3 years ago

label "host reproductive phenotype induced by pathogen"

is not very clear. And I think it may only be present as a parent for

label "abnormal host reproductive structure development induced by pathogen

@jseager7 are either of these terms used?

ValWood commented 3 years ago

we should definitely lose this grouping term.

label "pathogen host interaction reproductive phenotype" definition "A pathogen host interaction phenotype which affects either the pathogen or host reproductive process. The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms (GO:0000003)."

It doesn't really make sense as a superclass to group pathogen and host reproductive terms together.

jseager7 commented 3 years ago

@ValWood neither of the terms 'host reproductive phenotype induced by pathogen' or 'abnormal host reproductive structure development induced by pathogen' appear in the export (as of 14 July 2021), so they're not used in any session.

ValWood commented 3 years ago

Right, for these I suggest obsoletion.

CuzickA commented 2 years ago

The branch currently looks like this

I remember using 'absence of host seed development induced by pathogen' in https://canto.phi-base.org/curs/d7b3170ded99924f/ro/

Is the suggestion here to obsolete the following terms 'pathogen host interaction reproductive phenotype' 'host reproductive phenotype induced by pathogen' 'abnormal host reproductive structure development induced by pathogen' (possibly 'abnormal host seed development induced by pathogen' not sure if this is used)

If we do this will these terms have parent "pathogen host interaction organism level phenotype"? ''absence of host seed development induced by pathogen'' "pathogen reproductive phenotype within host"

ValWood commented 2 years ago

Q: is the "pathogen host interaction reproductive phenotype" under pathogen host interaction organism level phenotype"? They look like siblings.

The suggestion is to obsolete: 'pathogen host interaction reproductive phenotype' 'host reproductive phenotype induced by pathogen' 'abnormal host reproductive structure development induced by pathogen'

Is here a high level term for "abnormal host structure induced by pathogen"? Taht might be a better grouping. At this stage we probably don't need to instantiate other groupings (we would only need to do this if it became useful because we accumulated a lot of different reproductive phenotypes)

CuzickA commented 2 years ago

Q: is the "pathogen host interaction reproductive phenotype" under pathogen host interaction organism level phenotype"? They look like siblings.

Yes, you are right they are siblings

CuzickA commented 2 years ago

Move

PHIPO:0000439 pathogen reproductive phenotype within host

under 'pathogen host interaction phenotype'

85f208b

CuzickA commented 2 years ago

NTR: abnormal host structure induced by pathogen 61e73fb under 'pathogen host interaction phenotype' Definition: A pathogen host interaction phenotype where the development of a host structure is abnormal during pathogen infection.

@ValWood This def may need some work ;-)

CuzickA commented 2 years ago

Move c014889 PHIPO:0001165 'abnormal host seed development induced by pathogen' under 'abnormal host structure induced by pathogen'

CuzickA commented 2 years ago

obsolete PHIPO: 0001163 'pathogen host interaction reproductive phenotype' 453f03c PHIPO: 0001162 'host reproductive phenotype induced by pathogen' 6c1fdcc PHIPO: 0001164 'abnormal host reproductive structure development induced by pathogen' 4b4abbf

ValWood commented 2 years ago

Sounds OK!