planteome-user
commented
14 years ago See my comments below for each term. We will probably need to add some new terms to accomodate these requests.
Taproot – maybe a synonym of primary root (PO:0020127)? We will need to discuss root classifications re. Rich Zobel and the ISSR’s terminology (http://sourceforge.net/tracker/index.php?func=detail&aid=2899934&group\_id=76834&atid=835555) before we can decide where to put tap root.
Stem Hair (Esau's Anatomy of Seed Plants gives "hair" as a sub-category of "trichome") -- Should be synonym of stem trichome (PO:0005003)
Prickle -- Need a new term prickle or emergence: a sharp, usually woody structure that develops from a combination of the epidermis of an organ plus sub-epidermal tissue. An emergence does not develop in the expected location of a leaf or shoot primordium and therefore does not represent an organ. (Bell and Bryan 2008, ISBN-13:978-0-88192-850-1). Child of cardinal organ part. Children: stem emergence and leaf emergence. Synonym: prickle
Fascicle -- see individual comment for this term.
Bristle (used in key as "Stipules spinose or bristles"; might be thought of as a quality, rather than a structure) -- Yes, in this case, the structure you want to annotate is the stipule (PO:0020041), and you would have to find the appropriate PATO terms to describe spinose or bristled
Phyllode -- This should probably be a synonym of vascular leaf (PO:0009025)
Banner (as in a legume flower) - synonym of petal (PO:0009032) – use in conjunction with PATO descriptors like upright, lobed
Wing (as in a legume flower) - synonym of petal (PO:0009032) – use in conjunction with PATO descriptors like lateral, unlobed
Keel (as in a legume flower) - synonym of petal (PO:0009032) – use in conjunction with PATO descriptors like fused. The problem here is that the keel is composed of two petals. Might be better to add the term “keel petal” as a synonym of petal, with a note that there are usually two fused keel petals. Then a search for “keel” would still turn up “keel petal”. If we want to add the term "keel," it will be a child of collective plant structure, part_of perianth.
Anther pore and anther slit: Do these terms refer to the stomium (PO:0020101): A fissure or pore in the anther lobe through which the pollen is released. If so, they can be synonyms of stomium.
Locule – the space within the ovary. We don’t have a term for this at the moment. Before we add it, we will need to decide how to treat no-material entities. For now, it could be added as part_of ovary.
Original comment by: rlwalls2008
I'm copying and pasting content from an email that I sent to Ramona Walls yesterday. Ramona recommended that I submit the terms via this interface.
I'm trying to annotate legacy keys with ontology terms, and my focus at the moment is the USDA PLANTS Legumes Key.
I have the Plant Ontology Advanced Search, Plant Trait Ontology v. 1.0, and PATO v. 1.2 open at the moment, and I can't find the following terms in them. Some of these terms would not naturally go into the Plant Ontology, but I'm not going to presume that this is necessarily the case. Perhaps you could make a note re those that should go into PO, and I'll take the others to the PTO or the PATO curators?
Taproot Stem Hair (Esau's Anatomy of Seed Plants gives "hair" as a sub-category of "trichome") Prickles Fascicle Bristle (used in key as "Stipules spinose or bristles"; might be thought of as a quality, rather than a structure) Phyllode Banner (as in a legume flower) Wing (as in a legume flower) Keel (as in a legume flower) Anther pore and anther slit Locule
Thanks for considering this request!
Austin Mast
Reported by: austinmast
Original Ticket: obo/plant-ontology-po-term-requests/159