POC Conf. Call 7-05-11
POC meeting, Webex Conference Call; Date: Tuesday June 14th, 2011 10am (PDT)
In attendance:
POC members:
Absent:
Collaborators:
Acceptance of the minutes from the POC_Conf._Call_6-28-11?
User requests still open on Source Forge; PGDSO
terms for seed trichome development stages
Open since 07-28-2010
Request
The following terms have been requested for cotton fiber development (their structure and defintions):
seed development stages PO: 0001170
---[part_of]Seed hair development stages
---[part_of]seed hair initiation stage: The earliest histological evidence of seed hair initiation, ie, a change in the orientation of cell division in the ovule epidermises occurs at or just before anthesis. (Ruan YL, 2003, Plant Cell 15:952-964) [Source:PMID: 12671090].
---[part_of]seed hair elongation stage: A period of rapid elongation of hair initials without cell division for 16-25 days. (Lee JJ, 2007, Annals of Botany 100:1391-1401 and Ruan YL, 2003, Plant Cell 15:952-964) [Sources:PMID: 17905721, PMID: 12671090].
---[part_of] seed hair secondary wall biosynthesis stage: A phase of the massive amounts of secondary cell wall cellulose synthesis. (Lee JJ, 2007, Annals of Botany 100:1391-1401 and Ruan YL, 2003, Plant Cell 15:952-964) [Sources: PMID:17905721, PMID:12671090].
---[part_of]seed hair maturation stage: A period of seed hair maturation from 50 to 60 days post-anthesis (DPA). (Lee JJ, 2007, Annals of Botany 100:1391-1401 and Ruan YL, 2003, Plant Cell 15:952-964) [Sources: PMID:17905721, PMID:12671090].
Suggested terms and definitions:
Do we want to use stage or phase throughout PGDSO?
seed development stages (PO:0001170)
Current definition: Stages of seed development, from fertilization to the dry or quiescent state. [source: TAIR:ki]
Proposed name and definition: seed development stage: A plant structure development stage that begins with fertilization and ends with seed maturation.
Comment: Only used for seed plants. Some seeds may enter a period of dormancy after seed development is complete.
is_a plant structure development stage; part_of sporophyte phase; subset for gymnosperms and angiosperms; add relation: seed participates_in seed development stage
New terms and proposed definitions:
seed trichome development stage: A plant structure development stage that is part of a seed development stage during which one or more seed trichomes develop.
is_a plant structure development stage; part_of seed development stage; add seed trichome participates_in seed trichome development stage
synonym: seed hair development stage
seed trichome initiation stage: The earliest histological
evidence of seed hair initiation, ie, a change in the orientation of cell
division in the ovule epidermises occurs at or just before anthesis. (Ruan
YL, 2003, Plant Cell 15:952-964) [Source:PMID: 12671090].
synonym: seed hair initiation stage
seed trichome elongation stage: A period of rapid elongation
of hair initials without cell division for 16-25 days. (Lee JJ, 2007,
Annals of Botany 100:1391-1401 and Ruan YL, 2003, Plant Cell 15:952-964)
[Sources:PMID: 17905721, PMID: 12671090].
synonym: seed hair elongation stage
seed trichome secondary wall biosynthesis stage: A phase of
the massive amounts of secondary cell wall cellulose synthesis. (Lee JJ,
2007, Annals of Botany 100:1391-1401 and Ruan YL, 2003, Plant Cell
15:952-964) [Sources: PMID:17905721, PMID:12671090].
synonym: seed hair secondary wall biosynthesis stage
seed trichome maturation stage: A period of seed hair
maturation from 50 to 60 days post-anthesis (DPA).
(Lee JJ, 2007, Annals of Botany 100:1391-1401 and Ruan YL, 2003, Plant
Cell 15:952-964) [Sources: PMID:17905721, PMID:12671090].
synonym: seed hair maturation stage
tuber growth and development stages
This item has been open on SF since 6/2009
I have a bunch of potato genes which are expressed in different tuber developmental stages (e.g. the potato pmt gene is expressed in small sprouts only (http://www.ncbi.nlm.nih.gov/pubmed/16088399).
Suggested stages:
-sprout development (does this correspond to tube axillary bud development? Should come after tuber maturation)
-tuber initiation
-tuber growth
-tuber maturation
How we work these in will depend on restructuring of PGDSO
l development in legumes (Plant Physiol, March 2003, Vol. 131, pp. 911-926
Upcoming meetings 2011:
Botany 2011 Meeting [Botany 2011] St. Louis, MO at the Chase Park Plaza, July 9-13.
Societies participating: Society for Economic Botany, the American Fern Society (AFS), the American Society of Plant Taxonomists (ASPT), and the Botanical Society of America (BSA).
Anybody going??
* ICBO 2011 Second International Conference on Biomedical Ontology
July 26-30, 2011
Buffalo, New York
LC is co-organizing the workshop "From Fins to Limbs to Leaves: Facilitating anatomy ontology interoperability" along with Melissa Haendel, Chris Mungall, Alan Ruttenberg, David Osumi-Sutherland.
Full-Day Workshops Schedule:
July 26 9am-6pm The Ontological Representation of Adverse Events: Working with Multiple Biomedical Ontologies
July 27 8.30am-4pm Facilitating Anatomy Ontology Interoperability
July 26 6.30pm-9pm Evening Workshop: Common Logic
July 27 4pm-8pm Evening Workshop: Doctoral and Post-Doctoral Consortium
- LC will attend and represent the PO. Invite other plant people?
*Plant Biology 2011, Aug 6-10th, Minneapolis, Minn
For inclusion on the program memory stick and in the program book, abstracts must be submitted by May 27.
Gramene will be putting together a workshop again, focusing on pathways. LC and PJ will present a PO poster.
TAIR (Kate Dreher) is organizing an Outreach Booth and we are invited to take part.
* International Botanical Congress (IBC2011)
July 23rd-30th 2011, Melbourne, Australia
Registration is open Important dates
Symposium 'Bio-Ontologies for the Plant Sciences' under the Genetics, Genomics and Bioinformatics theme, wiil be held on Thursday, 27 July, from 13:30 to 15:30.
Dennis, Alejandra, Pankaj and Ramona are planning to attend.
See IBC 2011 Bio-Ontologies Symposium wiki page for more details
