[NTR] cloaca outside Vertebrata, or generalise UBERON:0000162

Preferred term label:

holothurian cloaca (only if you would rather not generalise the existing class, see below)

Synonyms

cloaca (broad)

Definition (free text, please give PubMed ID)

The posterior-most region of the holothurian digestive tract, attached to the body wall by
suspensor strands, from the dorsal wall of whose anterior part the respiratory trees arise and
from whose coelomic and luminal epithelia they regenerate after evisceration. (PMID:22160455,
doi:10.1007/s00441-011-1280-9: the cloaca is linked to the body wall through suspensor strands
and the respiratory trees arise as two outgrowths from the dorsal wall of its anterior part.
PMID:19238446, doi:10.1007/s00441-009-0761-6: repair of the respiratory trees involves cells of
the coelomic and luminal epithelia of the cloaca.)

Parent term (use https://www.ebi.ac.uk/ols/ontologies/uberon)

UBERON:0004921 subdivision of digestive tract. Note that UBERON:0000162 cloaca cannot be the
parent, since it is in_taxon Vertebrata and a Holothuroidea-restricted child would be
unsatisfiable.

Your nano-attribution (ORCID)

https://orcid.org/0000-0001-5025-5886

What I actually need, either way

UBERON:0000162 cloaca is in_taxon NCBITaxon:7742 and its definition is written for
vertebrates. Holothurians have a cloaca in the ordinary descriptive sense, and it is the
structure the respiratory tree arises from. I cannot assert that relation for the companion
request "[NTR] respiratory tree (Holothuroidea)" without violating a taxon constraint.

• Preferred if you are willing: relax the constraint on UBERON:0000162 and reword the definition, keeping the vertebrate wording as a taxon note. Then no new term is needed and this request can be closed.
• Otherwise: add the taxon-restricted class above, only_in_taxon NCBITaxon:7705.

One caution if you write developmental axioms: the germ layer of origin is unsettled. The
holothurian cloaca is traditionally held to be ectodermal and lined by cuticular epithelium,
but the anterior part has been shown to be lined by enterocytes and to lack a cuticle, which
the authors take to suggest an endodermal origin for that part (PMID:22160455).

Happy to write up whichever you pick. Filing on behalf of Lattice, Klein Lab, Department of Biomedical
Data Science, Stanford School of Medicine.

Review UBERON:0000162, UBERON:0004921, NCBITaxon:7742, and NCBITaxon:7705 in the OLS; first resolve whether the existing cloaca term can be generalized without violating taxon constraints. Done means either the existing definition and constraint are revised with vertebrate wording retained as a taxon note, or a Holothuroidea-restricted class is added with the supplied label, definition, synonym, citations, and ORCID attribution.