POC Conf. Call 7-21-10

POC meeting, Webex Conference Call; Date: July 21st, 2010 10am (PDT)

In attendance:

POC members:

Absent:

Collaborators:

Acceptance of the minutes from the 7-14-10 meeting? All in favor?

Review of changes discussed last week

1. gametophyte and sporophyte were made obsolete. Added 'consider whole plant' relation to both, and comments to add participates_in gametophytic or sporophytic stage.

New terms for gametophytic and sporophytic phases were created in the PGDSO.

2. We rejected the new top level term plant structure system (PO:0025024): An anatomical system in a plant.

- root system (PO:0025025) and shoot system (PO:0009006) were made children of collective plant structure.

Vascular system (PO:0000034) is now a child of portion of vascular tissue.

We discussed having the terms 'vegetative shoot system' and 'reproductive shoot system', but this could cause problems of multiple parentage. For example, a term like axillary reproductive bud is_a bud, and therefore is_a shoot system. It would logically also be is_a reproductive shoot system if we had that term.

3. New term plant axis (PO:0025004) was accepted.

-is_a plant organ.

-Children are:

-root (PO:0009005) and the new term shoot axis (PO:0025029).

Last week's minutes say that a stem has parts nodes and internodes, but any shoot axis could have nodes and internodes, therefore, that should perhaps go here, instead of under stem. Also, should it be what a comment rather than part of definition, if we want to include moss or liverwort stems?

4. stem was made a child of shoot axis.

Because stem is only the primary axis, and does not include branches or secondary axes, we will need to change all of it's part_of children (like stem cortex, interfascicular region, stem epidermis, etc.) to be part_of shoot axis and rename them accordingly.

Stem term was accepted. Need to make necessary edits to part_of children.

5. New term branch (PO:0025073) was accepted.

6. We decided that tuber (PO:0004543) is a secondary axis by definition, which equals branch (PO:0025073).

Proposed definition:A swollen storage branch. Comment: May bear scale leaves and subtending axillary buds. Found in potatoes.

Also:

Stolon (PO:0003024): A branch that is slender, prostrate or trailing and above-ground and produces roots and sometimes erect shoots at its nodes. (AP web)

rhizome (PO:0004542): A shoot axis that grows horizontally at or below the substrate surface and produces shoots above and roots or rhizoids below. Comment: In ferns and many monocots, a rhizome is a primary axis (stem), while in other species, it is a branch. Usually produces scale-like leaves.

Agreed that both tubers and rhizomes could be both determinate or indeterminate, so that should not be part of the definition.

7. Add terms vascular leaf and non-vascular leaf, as children of leaf. Current term leaf=vascular leaf, so change its name to vascular leaf, and make new parent term leaf.

phyllome (PO:0006001): A lateral plant organ produced by a shoot apical meristem.

>leaf (PO:0025034): A phyllome that is not part of a flower.

>>non-vascluar leaf (PO:0025075): a leaf in a non-vascular plant. Comment: includes moss and liverwort leaves.

>>bract (PO:0009055): A leaf, usually different from foliage leaves, subtending a reproductive structure.

>>vascular leaf (PO:0009025): A leaf in a vascular plant. Comment: Commonly thought of as one of the three basic parts of the seed plant body, a structure usually of determinate growth, without secondary thickening, and of superficial origin, often flattened and photosynthetic in part, and in the axil of which is found a bud.

>>>cotyledon (PO:0020030): A leaf formed at the first node of a sporophyte.

Older terms that need work

1. stalk (PO:0025066)

(See SF Tracker: stalk)

This was added as a new term at the Ithaca meeting on 12/2009, to cover a number of the terms lacking is_a parents.

current def'n: An 
elongated, sub-cylindrical to cylindrical structure that supports another 
organ or regional part of an organ.

Proposed def'n: A cardinal organ part that is elongated and
 sub-cylindrical to cylindrical and supports an 
organ or another cardinal organ part.

-made it a child of cardinal organ part (as per its definition) rather than an organ.

Proposed children of stalk: (Test: do all of these fit the definition?)

• filament: A stalk that is part of a stamen.(stamen:organ)

• petiole: A stalk that is the basal part of a leaf. Supports the lamina. (leaf:organ)

• petiolule: A stalk that is the basal part of a leaflet. Supports the leaflet lamina. (leaflet:cardinal organ part)

• funicle: A stalk that attaches the ovule to the
 placenta.(ovule: cardinal organ part)

• gynophore: A stalk at the base of the ovary. 

(ovary: cardinal organ part)

• leaf rachis: (See SF Tracker: leaf rachis)

current def'n: That part of the main axis of a pinnate or more highly compound leaf, that bears leaflets or divisions of the axis.(leaf:organ). Proposed def.: A stalk that is the main axis of a pinnate compound leaf, that bears leaflets or divisions of the axis.

• peduncle: (peduncle)

current def'n: The stalk of an inflorescence; that part of
 the inflorescence below the first flower or inflorescence branch and above 
the last foliage leaf/pair of foliage leaves.

>>This should probably be is_a branch (secondary or higher order shoot axis)

proposed def'n: A branch of an inflorescence or an individual flower (R, E, E 4th edition).

• pedicel: (See SF Tracker: pedicel)

current def'n: Basal part of the ultimate branch of the inflorescence. [source: APWeb:Glossary]

>>This should probably be is_a branch (secondary or higher order shoot axis)

proposed def'n: A branch that supports an individual flower in an inflorescence that contains more than one flower (LC revised from R,E,E4th edition).

2. New is_a children of cardinal organ part (See SF Tracker: new is_a children of cardinal organ part)

• receptacle: (See SF Tracker: receptacle)

Current def'n: The region at end of pedicel or axis to which parts of flower are attached. [source: APWeb:Glossary, POC:curators].

proposed def'n: A cardinal organ part that is the region at the top of either a peduncle or a pedicel where the floral appendages (for example, sepals, petals, stamens, and pistils) are attached.(Brooklyn Botanic Garden http://www.bbg.org/gar2/topics/botany/parts_flowers.html)

• hypanthium(See SF Tracker: hypanthium)

Current def'n: A cup- or tube-like structure bearing perianth and stamens on its rim, so these arise above the base, and often above the top, of the ovary of a flower.

proposed def'n: A cup- or tube-like cardinal organ part, bearing perianth and stamens on its rim, so these arise above the base, and often above the top, of the ovary.

made part_of receptacle instead of part_of flower

• pulvinus: (See SF Tracker: pulvinus)

Current def'n: A more or less abrupt swelling, especially at the apex or base of a petiole or leaf sheath, often glandular and/or being the place where a plant responds to touch, gravity or light, in panicoid grasses a swollen region in the stem above the intercalary meristem - such a definition would also include stems of Chloranthaceae, Acanthaceae, Caryophyllaceae, Amaranthaceae, etc., cf. articulation. [source: APWeb:Glossary]

-currently is_a (an) organ, should be cardinal organ part.

Proposed def: A cardinal organ part that consists of a swelling at the apex or base of a petiole, petiolule, leaf sheath, or branch.

Comments: Often glandular. Often in movement of a plant structure in response to touch, gravity or light. In panicoid grasses a swollen region in the stem above the intercalary meristem - such a definition would also include stems of Chloranthaceae, Acanthaceae, Caryophyllaceae, Amaranthaceae, etc., cf. articulation. [source: APWeb:Glossary]