NTR: [pyroptotic cell death]

[sylvainpoux]

Hi GO,

I would like to create a new term for pyroptotic cell death and modify modify the hierarchy and definition of of GO:0070269 pyroptosis.

The current problem is the following.
It is well-known that gasdermins trigger pyroptosis, which is commonly defined as a form of cell death. However, gasdermins form large pore that mediate release of mature proteins, such as IL1B and IL18), and do not always trigger programed-cell death (PMID:33883744).
In some, but not all, cells types, pyroptosis is followed by pyroptotic cell death, which is caused by downstream activation of ninjurin-1 (NINJ1), which mediates membrane rupture (cytolysis).

In other words, if pyroptosis is frequently associated with programmed cell- death, it is not always the case.

I prefer to create a new term related to cell death and change the hierarchy of pyroptosis because most papers usually test cell death in conditions that do not reflect in vivo conditions, and it is therefore almost impossible to assess whether cell death is relevant or not. By changing the hierarchy of existing annotations, we will therefore be sure that annotations are correct.
I will of course annotate "[pyroptotic cell death", but only in publications where we are certain that it leads to cell death.

Thanks

Sylvain

Name:
pyroptotic cell death
Definition:
A inflammatory cell death process that is associated with the generation of pyrogenic mediators that results from the activation of gasdermins.
PMID:18846107 PMID:21760595 PMID:33883744

child of:
GO:0012501 programmed cell death

FROM:
GO:0070269 pyroptosis
TO:
GO:0070269 pyroptotic inflammatory response

Definition
FROM:
A caspase-1-dependent cell death subroutine that is associated with the generation of pyrogenic mediators such as IL-1beta and IL-18.
TO:
A gasdermin-dependent inflammatory response that is associated with the generation of pyrogenic mediators such as IL-1beta and IL-18. In some, but not all cells, it can lead to pyroptotic programmed cell death.
Child of
GO:0006954 inflammatory response
ADD PMID:33883744 as reference

FROM:
GO:0140639 positive regulation of pyroptosis
TO:
GO:0140639 positive regulation of pyroptotic inflammatory response

FROM:
Any process that increases the frequency, rate or extent of pyroptosis.
TO:
Any process that increases the frequency, rate or extent of pyroptotic inflammatory response.

FROM:
GO:0160028 negative regulation of pyroptosis
TO:
GO:0160028 negative regulation of pyroptotic inflammatory response

FROM:
Any process that decreases the frequency, rate or extent of pyroptosis.
TO:
Any process that decreases the frequency, pyroptotic inflammatory response.

GO:1902483 cytotoxic T cell pyroptotic process
Only change the hierarchy, since it is a form of programmed-cell death
Child of GO:XXXXXX pyroptotic cell death

[pgaudet]

Hello @sylvainpoux

We have a child term 'cytotoxic T cell pyroptotic process'; should this be inflammatory response or death?

[pgaudet]

+[Term]
+id: GO:0141201
+name: pyroptotic cell death
+namespace: biological_process
+def: "A inflammatory cell death process associated with the generation of pyrogenic mediators that result from the activation of gasdermins." [PMID:18846107, PMID:21760595, PMID:33883744]
+synonym: "pyroptosis" BROAD []
+is_a: GO:0012501 ! programmed cell death
+is_a: GO:0070269 ! pyroptotic inflammatory response
+property_value: term_tracker_item "#27753" xsd:anyURI
+created_by: pg
+creation_date: 2024-04-30T09:39:12Z

[pgaudet]

For cytotoxic T cell pyroptotic process';

Changed definition to : A pyroptotic cell death process that occurs in a cytotoxic T cell.