Friday, November 5th

UNDER CONSTRUCTION

Back to POC_Meeting_and_Workshop_Nov_4th_to_6th,_NYBG,_Bronx,_NY

Pankaj and Barry will both arrive between 9 and 10am

9am-11am-Focus on PGDSO

Revise upper level structure of PGDSO (high priority items from 10-13-10

-Barbara Ambrose (fern evo-devo) from the New York Botanic Garden will join this part of the meeting.

• 1. gametophytic phase and sporophytic phase

These were moved to be children of whole plant growth stage (PO:0007033) and the term "plant life cycle phase (PO:0028001) was obsoleted for now till we have further discussion on it.

• 2. Also, the top class in the ontology is 'plant growth and developmental stage(s)', def'n = The succession of changes leading from the zygote to the mature plant- that is only the sporophytic phase.

• 3. Reorganization of entire upper level structure of the PGDSO, so we can incorporate all plants

11AM-12PM TraitNet

Dan Bunker (New Jersey Technical University) and Farshid Ahrestani (Columbia University) will present a brief overview of TraitNet and how they might interact with the PO.

1PM to 3PM - continue work on PGSDO from morning session

• 4. plant structure development stage

-gametophytic and sporophytic structures?

-add categories for non-seed plants (e.g., thallus development, capsule development)?

• 5. old Source Forge item: tuber growth and development stages

-open on SF since 6/2009

3PM to 6PM-Focus on PSO

Open Source forge tracker items, user requests

• embryo: We have a proposed definition of embryo from 7/2010. We need to finalize this and close the tracker.

• reorganization of shoot system: We started working on this during the last round of revisions (with bud, and terms like reproductive shoot system), but it still needs some tweaking. Need to discuss vegetative shoot system.

• egg cell and sperm cell: we need to finalize the definitions for these terms, and make sure they work for all plants.

is_a completeness

List_of_terms_without_is_a_parents in numerical order

Categorized list of terms without parents

• 1. Primordium

PO:0004725 abaxial side of leaf primordium and PO:0004726 adaxial side of leaf primordium have no is parents.

PO:0004725 abaxial side of leaf primordium def: "The abaxial/outer side of the leaf primordium that becomes the abaxial/lower leaf blade." [TAIR:ki]

PO:0004726 adaxial side of leaf primordium def: "The adaxial/inner side of the leaf primordium that becomes adaxial/upper leaf blade." [TAIR:ki]

Need a class primordium, and need to make one definition for it. Also need to organize primordium terms

We may also want to link primordia to stages in the PGDSO, where appropriate.

For example, ovule primordium (PO:0000018) participates in ovule primordium visible (PO:0007620) or ovule primordium visible (PO:0007620) has_participant ovule primordium (PO:0000018).

• 2. Parentage of pores/stomata

3. Parentage of trichomes and hairs

6:30 PM - 8:30PM - Dinner

Dinner at a restaurant on Arthur Ave in the Bronx