POC Conf. Call 11-8-11

POC meeting, Webex Conference Call; Date: Tuesday Nov 8th, 2011 10am (PDT)

In attendance:

POC members:

Absent:

Collaborators: none

Any changes or corrections (additions/deletions, etc) needed in the minutes from the POC_Conf._Call_11-1-11?

Back to POC Meetings Minutes

Old user requests on Source Forge

TraitNet requests

Get details from Items_for_future_meetings. This will finish the TraitNet request.

Collaborations and other items

Wood anatomy and Forest trees

Wood anatomy: PO will work with a group of scientists to develop ontology terms to describe wood anatomy.

From Jill Wegrzyn at UC Davis: The forest tree community (and in particular the conifers), are interested in collaborating with the Plant Ontology project to develop terms specific to our communities. I currently coordinate efforts on the TreeGenes database (http://dendrome.ucdavis.edu) and will be leading efforts to integrate ontologies into our existing database.

We should start by looking at wood anatomy books and online resources from the IAWA (International Association of Wood Anatomists).

FNA

See last week's minutes for details of the mappings (POC_Conf._Call_11-1-11#FNA).

Next steps:

• add 364 synonyms to existing terms
• fix several errors that were discovered while doing the mappings
• add 143 unique new terms, plus their synonyms

-FNA provides definitions, so this will be relatively easy

• work with FNA to create an official mapping file

-will need to get unique IDs for duplicate FNA terms

-will need to figure out how to handle FNA terms that map to >1 PO term

-discuss how to map terms that are too general for PO (101 character terms)

• begin work on phenotype/character terms, inlcuding the 101 from this list plus all of the FNA character terms

PGDSO revisions

Plant structure development stages (other than whole plant)

Need to get these in order so we can deal with user requests.

Need to look at seed and leaf dev stages, see where trichomes will fit in; add tuber dev stages (under plant organ dev stage).

sub-types of whole plant development stage: vegetative, reproductive, senescent, and dormant stages

Continued from POC_Conf._Call_11-1-11.

other sporophyte stages

proposed definition, sporophyte reproductive development stage: A sporophyte development stage that has as a participant a whole plant during the interval between the initiation of reproductive structures and something (onset of dormancy, senescence, or resumption of vegetative stage). Has as part a sporangium?

other gametophyte stages

proposed definition, gametophyte dormant development stage: A gametophyte development stage that has as a participant a whole plant during the interval between a suspension of physiological activity and the reactivation of physiological activity.

proposed definition, gametophyte vegetative development stage: A gametophyte development stage that succeeds spore germination and ends with the formation of gametangia.

proposed definition, gametophyte reproductive development stage: A gametophyte development stage that is initiated with the development of a gametangium and terminated with fertilization.

Comment: Some gametophytes may die before fertilization.