Minutes POC Conf Call 4-1-10

POC meeting,Webex Conference Call; Date: April 1, 2010 10am

New terms. Posted on SourceForge tracker for comments.

At the Ithaca meeting, we proposed having simple plant organ and compound plant organ as children of plant organ. We need to decide if it is necessary to retain these terms.

1. simple organ

Proposed def'n: A plant organ that does not contain any other plant organ as a part.

Examples: petal, root, simple leaf. [source: rw:test]

Comment: This term may not be necessary, since it is covered by our current definition of plant organ (RW)

2. compound organ

Proposed def'n: Compound organ: plant organ that has as its parts two or more simple plant organs.

Example: fern sorus composed of multiple sporangia or gyneocium composed of multiple carpels, also compound leaf.

Comment: This term may not be necessary, since it is covered by our current definition collective plant structure (RW).

3. spore:

This term is currently missing from the PO. We need to come up with a definition.

proposed def'n: A reproductive cell, usually unicellular, capable of developing into an adult without fusion with another cell. (Raven, Evert, Eichorn, 4th Ed)

alternative def'n: a haploid reproductive structure produced after meiosis marking the end of the sporophytic phase of the life cycle, germinating to produce the gametophyte, see megaspore and microspore/pollen (kinds of spores). (AP Web Glossary)

comments: the product of meiosis, is_a plant cell, parent of megaspore, microspore, develops into the gametophyte

Item from last week's agenda:

4. New is_a children of collective plant structure:

(collective plant structure def'n: A plant structure that is a proper part of a plant and is composed of two or more organs and any associated portions of plant tissue.)

We can deal with definitions and relationships of each term later, but for now we simply need to approve moving them to 'children of collective plant structure'. These terms had no is_a parents.

No definitions or part_of relationships have been changed.

Does everyone agree that these terms should be children of collective plant structure?

• andreocium- "Collectively, the stamens of one flower."

• calyx- "The sepals of one flower collectively."

• corolla- "The petals of a flower collectively."

• epicalyx-"A whorl of structures immediately outside the calyx whorl."

• flower- "A heterosporangiate strobilus, typically consisting of androecium, gynoecium, usually surrounded by a perianth and borne on an axis or receptacle."

• gynoecium- "Collectively the carpels of a flower."

• inflorescence-"That part of the axial system of plants above the uppermost foliage leaf/pair of foliage leaves that bears flowers."

• infructescence- "The grouping or arrangement in which fruits are borne on a plant."

• involucre- "A whorl of bracts at the base of a cluster of flowers as found in Asteraceae or Compositae."

• perianth- "Non-fertile parts of a flower surrounding the fertile organs, collectively the calyx and corolla of a flower, or only a single whorl."

• phyllome whorl (was is_a phyllome)- "A circular arrangement of phyllome."

• spikelet- "Ultimate and congested inflorescence branch of the grasses."

5. New is_a children of cardinal organ part

Several weeks ago, we created new children of cardinal organ part, from terms that had no is_a parent. We can deal with definitions and relationships of each term later, but for now we simply need to approve moving them to cardinal organ part

Some of them can be dealt with later, but the terms listed here are a higher priority and/or can be dealt with very quickly. Many of the definitions need to be worked on at a future meeting. See Source Forge item for additional comments.

• pulvinus: (currently is_a (an) organ)

• receptacle: Part_of pedicel (which is currently a stalk, see below)

• stalk (moved from is_a organ)- A cardinal organ part that is elongated and sub-cylindrical to cylindrical and supports another cardinal organ part.

• leaf rachis (is_a stalk)-

These two terms are pretty straight forward. Stalk was made a cardinal organ part (as per its definition) rather than an organ. Leaf rachis was made a child of stalk (it had not is_a parent).

• peduncle: Is currently child of stalk, but perhaps it should be a child of stem?

• pedicel: Is currently child of stalk, but does not fit the definition. Should be a stem?

• hypanthium (made part_of receptacle instead of part_of flower)

comment: LC: I think it is better to leave hypanthium as part_of flower.

6. Re-organization of existing terms

• floral bract and inflorescence bract

These two terms were children of both plant organ and bract (which is_a organ). Deleted is_a relationships to plant organ and kept under bract.

• fruit

Is a fruit an organ?

Current def'n: The seed-bearing structure in angiosperms, formed from the ovary after flowering. [source: APWeb:Glossary, POC:curators]

MAG: fruit fits our definition of a plant organ

7. Organ margin This term was discussed on last week's conference call.

Proposed def'n: The edge of an organ and the area immediately internally adjacent to it.

-Added new is_a children for all appropriate children of phyllome, that is, all laminar structures. These are new terms (except for sepal, leaflet and leaf margin)- do we need to create SF tracker items for these?

from Dev browser:

• PO:0025008: petal margin
• PO:0025011: bract margin
• PO:0025012: cotyledon margin
• PO:0025013: prophyll margin
• PO:0025014: scale leaf margin
• PO:0025016: sporophyll margin
• PO:0025015: tepal margin
• PO:0005021: sepal margin
• PO:0020128: leaf margin
• PO:0006034: leaflet margin (leaflet is_a cardinal organ part)

8. Leaf margin:

Proposed def'n: The margin of any flattened portion of a leaf.

- will have children 'leaf lamina margin' and 'leaf petiole margin' (see definitions on dev browser).

If everyone agrees with these changes, we can close this item.

9. Outreach page on PO wiki The outreach page on the PO wiki has been updated with abstracts. See http://wiki.plantontology.org:8080/index.php/POC_Outreach_Events. We will continue to keep this updated so people can have quick access to abstracts and outreach activities.

Question: There is a similar page on the POC website- http://www.plantontology.org/docs/otherdocs/poc_outreach.html

Maybe we could have both links go to the same place, so we don't have to keep two pages updated?

10. Upcoming Conferences and Meetings: Any updates??

• Botanical Society of America (BSA)- July 31-Aug 4th 2010. Providence, Rhode Island. Ramona presenting, Dennis attending, 15 minute oral presentation, Abstract submitted 3/26/10.

• International Botanical Congress (IBC2011). July 23rd-30th 2011, Melbourne, Australia. Important dates (http://www.ibc2011.com/Dates.htm): "Call of symposia closes" 3-31-10, Abstracts submission deadline: 12-1-10.

• Latin American Congress of Botany (http://www.botanica-alb.org/X_Congreso/index.php). La Serena, Chile, October 4-10; MAG: "I am not sure about due dates for this one due to the earthquake".

• Annotation workshop/POC meeting to be held in Corvallis. Ramona will be in Portland June 26-29. Could have meeting one of those days (depending on when her talk is scheduled) or on June 30th.

• Annotation workshops to be held at NYBG in fall 2010. Date TBD.

11. Next meeting scheduled for 04-xx-2010 at xx time