more harderian edits based on PMID:7559104. #614

uberon_edit.obo

@@ -56750,6 +56750,7 @@ relationship: has_part UBERON:0002553 ! anatomical cavity
 id: UBERON:0005908 ! conjunctival sac
 name: conjunctival sac
 def: "Serous sac, which has as parts the conjunctiva and the cavity of conjunctiva. Examples: There are only two conjunctival sacs, the right and the left.[FMA]" [FMA:20291]
+synonym: "subbrillar sac" NARROW [NCBITaxon:8570]
 xref: FMA:20291 ! conjunctival sac
 xref: EMAPA:18233 ! conjunctival sac
 is_a: UBERON:0005906 {source="FMA"} ! serous sac
@@ -59066,6 +59067,7 @@ relationship: connects UBERON:0010284 ! lacrimal punctum
 relationship: connects UBERON:0001707 ! nasal cavity
 relationship: channel_for UBERON:0001827 ! lacrimal gland secretion
 relationship: only_in_taxon NCBITaxon:32523 {source="ISBN:9780674021839"} ! Tetrapoda
+relationship: never_in_taxon NCBITaxon:8459 {source="PMID:7559104"} ! Testudines
 
 [Term]
 id: UBERON:0002392
@@ -111683,6 +111685,9 @@ xref: CALOHA:TS-1268
 id: UBERON:0015152 ! gland of ocular region
 name: gland of ocular region
 property_value: taxon_notes "the only orbital gland found in anuran amphibians is the Harderian[PMID:8843648]" xsd:string
+property_value: taxon_notes "the only orbital gland found in anuran amphibians is either the Harderian or the lacrimal; if it is a lacrimal, then a progressive lateral migration of the lacrimal glands must occur through the amniotes[PMID:7559104]" xsd:string
+synonym: "ocular gland" EXACT []
+synonym: "orbital gland" RELATED []
 intersection_of: UBERON:0002530 ! gland
 intersection_of: part_of UBERON:0004088 ! ocular region
 def: "A gland that is part of a orbital region." [OBOL:automatic]
@@ -111724,6 +111729,7 @@ xref: ncithesaurus:Gland_of_the_Third_Eyelid ! gland of the third eyelid
 id: UBERON:0004187
 name: Harderian gland
 def: "The Harderian gland is an anterior orbital gland usually associated with the nictitating membrane, and produces and secretes a variety of substances to the eye, depending upon the species[GO]." [GO:0070384, Wikipedia:Harderian_gland]
+comment: Taxon notes: In the limbless, burrowing amphibian Apoda (Caecilians) the harderian gland is very large, filling much of the orbit and lubricating a retractile sensory tentacle rather than the eye (Walls, 1942; Wolff, 1948).
 property_value: taxon_notes " In mouse the HG appears in the posterior part of eye region, in the form of nonluminated tubules between the sixteenth and eighteenth days of gestation. At birth it is still not differentiated histologically. In birds the HG originates from the conjunctival epithelium at a late embryonic stage. In the English sparrow, Passer domesticus (incubation period of about 13 days), it appears between the seventh and the eighth days of incubation. In the chick embryo (incubation period of about 21 days) it originates between the eleventh and the twelfth days.[PMID:9156609]" xsd:string
 property_value: function_notes "In mammals, the gland excretes an oily substance used to preen the fur[WP]" xsd:string
 property_value: function_notes "In some animals it acts as an accessory to the lacrimal gland, secreting fluid that eases movement of the nictitating membrane[WP]" xsd:string
@@ -111743,12 +111749,16 @@ xref: MESH:A13.445 ! harderian gland
 disjoint_from: UBERON:0001817 ! lacrimal gland
 intersection_of: UBERON:0015153 ! medial gland of ocular region
 intersection_of: produces UBERON:0022286 ! secretion of Harderian gland
-relationship: part_of UBERON:0002330 ! exocrine system
+relationship: part_of UBERON:0002330 {notes="some evidence suggests also endocrine", source="PMID:7559104"} ! exocrine system
 relationship: innervated_by UBERON:0015161 ! inferior branch of oculomotor nerve
 relationship: part_of UBERON:0000019 ! camera-type eye
 relationship: connected_to UBERON:0010207 {gci_relation="part_of", gci_filler="NCBITaxon:40674"} ! nictitating membrane
 relationship: only_in_taxon NCBITaxon:32523 {source="PMID:7559104"} ! Tetrapoda
 relationship: never_in_taxon NCBITaxon:9606 {source="PMID:7559104", notes="may be transient in embryos"} ! Homo sapiens
+relationship: never_in_taxon NCBITaxon:9443 {source="PMID:7559104"} ! Primates
+relationship: never_in_taxon NCBITaxon:33554 {source="PMID:7559104"} ! Carnivora
+relationship: never_in_taxon NCBITaxon:9787 {source="PMID:7559104"} ! Perissodactyla
+relationship: never_in_taxon NCBITaxon:9397 {source="PMID:7559104"} ! Chiroptera
 relationship: present_in_taxon NCBITaxon:8342 {source="https://sourceforge.net/p/geneontology/ontology-requests/10639"} ! Anura
 relationship: present_in_taxon NCBITaxon:9263 {source="https://sourceforge.net/p/geneontology/ontology-requests/10639"} ! Metatheria
 relationship: present_in_taxon NCBITaxon:8293 {source="https://sourceforge.net/p/geneontology/ontology-requests/10639"} ! Caudata
@@ -111765,16 +111775,24 @@ xref: UMLS:C0018597 {source="ncithesaurus:Harderian_Gland"}
 id: UBERON:0022286 ! secretion of Harderian gland
 name: secretion of Harderian gland
 def: "A merocrine secretion that is produced by a Harderian gland, containing lipids" [doi:10.1007/978-3-642-76685-5_2]
+synonym: "Harderian gland secretion" EXACT []
+synonym: "Harderian gland fluid" EXACT []
+property_value: taxon_notes "in amphibians, chiefly seromucoid with some lipids[PMID:7559104]" xsd:string
+property_value: taxon_notes "in birds, mucoid and lipid[PMID:7559104]" xsd:string
+property_value: taxon_notes "in mammals, predominantly lipid; mucoid secretion restricted to extraglandular duct tissue[PMID:7559104]" xsd:string
 property_value: taxon_notes "in the armadillo and opossum, mucous or serous acini may be present[PMID:7559104]" xsd:string
 intersection_of: UBERON:0000456 ! bodily secretion
 intersection_of: produced_by UBERON:0015153 ! medial gland of ocular region
 intersection_of: composed_primarily_of CHEBI:18059 ! lipid
+relationship: has_part CHEBI:8337 {gci_relation="part_of", gci_filler="NCBITaxon:9989", source="PMID:7559104"} ! porphyrin
 relationship: produced_by UBERON:0004187 ! Harderian gland
 
 [Term]
 id: UBERON:0022286 ! secretion of nictitans gland
 name: secretion of nictitans gland
 def: "A secretion that is produced by a nictitans gland, containing glycoprotein" [doi:10.1007/978-3-642-76685-5_2]
+synonym: "nictitans gland secretion" EXACT []
+synonym: "nictitans gland fluid" EXACT []
 intersection_of: UBERON:0000456 ! bodily secretion
 intersection_of: produced_by UBERON:0015153 ! medial gland of ocular region
 intersection_of: composed_primarily_of CHEBI:17089 ! glycoprotein
@@ -111794,6 +111812,7 @@ intersection_of: part_of UBERON:0004187 ! Harderian gland
 id: UBERON:0015151
 name: Harderian gland duct
 def: "A duct that is part of a Harderian gland. opens into the conjunctival sac at the base of the nictitating membrane." [PMID:7559104]
+comment: Taxon notes: Typically a single duct per gland, but Harderian glands can have more than 1 duct, e.g. in lizards, amphisbaenids and primitive snakes (Bellairs & Boyd, 1947) and possibly some avian species (Burns, 1992)
 synonym: "duct of Harderian gland" EXACT []
 synonym: "duct of Harder's gland" EXACT []
 synonym: "Harderian duct" RELATED []
@@ -123707,6 +123726,7 @@ synonym: "palperbra tertia" EXACT LATIN [PMID:7559104]
 is_a: UBERON:0001711 ! eyelid
 relationship: part_of UBERON:0001811 ! conjunctiva
 relationship: never_in_taxon NCBITaxon:9606 {source="Wikipedia"} ! Homo sapiens
+relationship: never_in_taxon NCBITaxon:8570 ! Serpentes
 xref: MESH:A13.660 ! nictitating membrane
 xref: http://en.wikipedia.org/wiki/File:Chickenblinking.jpg
 xref: ncithesaurus:Nictitating_Membrane ! nictitating membrane
@@ -123716,11 +123736,14 @@ xref: UMLS:C0028058 {source="ncithesaurus:Nictitating_Membrane"}
 [Term]
 id: UBERON:0010310
 name: nictitating membrane lamina
+def: "thin cartilage element that stiffens the nictitating membrane." [PMID:16496288]
+comment: Morphology notes: Generally, the cartilage consists of a long narrow appendix which is followed by a variable crossbar[PMID:11325064]
+synonym: "nictitating membrane cartilage" EXACT [PMID:11325064]
 synonym: "cartilago intercipiens" EXACT [PMID:16496288]
 property_value: taxon_notes "these laminae may consist of purely hyaline cartilage (cats and horses) or may be heavily invested with elastic fibers (dogs, pigs, and cows; Schlegel et al., 2001)" xsd:string
-def: "thin cartilage element that stiffens the nictitating membrane." [PMID:16496288]
 intersection_of: UBERON:0007844 ! cartilage element
 intersection_of: part_of UBERON:0010207 ! nictitating membrane
+relationship: present_in_taxon NCBITaxon:40674 ! Mammalia
 
 [Term]
 id: UBERON:0010209