new taxon constraints, never in yeast

ValWood commented 3 years ago

It is a joy to be able to see all of the nuclear descendants easily now the complexes are grouped.

Please add the following taxon restrictions:

Never in yeast, nucleus descendants

[ ] GO:0046808 assemblon - obsolete ? #20746
[x] GO:0031039 macronucleus (+ only in protozoa?)
[x] GO:0031040 micronucleus (+ only in protozoa?)
[x] GO:0045120 pronucleus (+ only in metazoa?)
[ ] GO:0098537 lobed nucleus (seems to be immune cells so only in multicellular organisms with immune system)

also

[x] GO:0060418 yolk plasma (+ only in metazoa?)
[x] GO:0045180 basal cortex -> only in metazoa
[x] GO:0090652 basolateral cytoplasm -> only in metazoa term says "Used in reference to animal polarized epithelial cells." but has no annotation
[x] GO:0016323 basolateral plasma membrane
[x] GO:0009925 basal plasma membrane -> see below https://github.com/geneontology/go-ontology/issues/20643#issuecomment-767454911
[x] GO:0044297 cell body
[x] GO:0033012 porosome
[x] GO:0046868 mesosome (+ only in bacteria?) -> artifact, see https://en.wikipedia.org/wiki/Mesosome, but a few papers exist, see PMID:33309146, PMID:33327493
[x] GO:0031911 cytoproct (+ only in tetrahymena?) -> also found in other unicellulars, such as Euglenozoa, so I will add 'never in metazoa'

pgaudet commented 3 years ago

GO:0009925 basal plasma membrane is also found in plants. I dont know what's the taxonomic range @AndreaAuchincloss is it found in bacteria?

AndreaAuchincloss commented 3 years ago

Nope, nor in archaea.

pgaudet commented 3 years ago

Not sure where to put porosome. PMC4580239 states "Discovery of the universal secretory machinery in cells –the porosome, came as no surprise since porosome-like ‘canaliculi’ structures for secretion from human platelets, the secretory machinery in single-cell organisms like the secretion apparatus in bacteria and Toxoplasma gondii, and the contractile vacuole in paramecium, have been demonstrated."

Maybe 'only in Eumetazoa '? There are no annotations; the papers I find talk about mammalian systems (pancreatic and neuronal cells).

geneontology / go-ontology

new taxon constraints, never in yeast #20643