Goal 1. Anatomical Entities

Back to Wood_anatomy_ontology_meeting,_2012_at_NYBG,_agenda

1. Review existing anatomy/morphology terms and definitions

Cell types related to wood

tracheary elements

• tracheary element (PO:0000290)
• tracheid (PO:0000301)
• vessel member (PO:0002003)

fiber cells

• sclerenchyma cell (PO:0000077) - parent term
• fiber cell (PO:0025407)
• phloem fiber cell (PO:0004519)
• xylem fiber cell (PO:0000274)
• libriform fiber cell (PO:0004520)
• fiber tracheid (PO:0000355)
• gelatious fiber cell (PO:0025422)

sieve elements (PO:0025406)

• sieve cell (PO:0025415)
• sieve tube member (PO:0000289)

New terms for GO

These subcellular components have been added to GO:

• GO:0097217 sieve area
• GO:0097218 sieve plate
• GO:0097219 compound sieve plate
• GO:0097220 simple sieve plate
• perforation plate (requested)

initial cells (PO:0004011)

• cambial initial
• fusiform initial (PO:0000079) (syn.: xylem initial, xylem mother cell)
• ray initial (PO:0000082)
• phloem mother cell (PO:0000400)

wood parenchyma cells (PO:0004525)

• axial wood parenchyma cell (PO:0004526)
• ray wood parenchyma cell(PO:0004527)
• procumbent ray wood parenchyma cell (PO:0004529)
• upright ray wood parenchyma cell (PO:0004528)
• sheath cell (PO:0004531)
• tile cell (PO:0004530)

• companion cell (PO:0000071)
• albuminous cell (PO:0025412)

Tissue types related to wood

portion of vascular tissue (PO:0009015)

xylem (PO:0005352)

• vessel (PO:0025417)

• primary xylem (PO:0005849)
• protoxylem (PO:0000272)
• metaxylem (PO:0000372)

• secondary xylem (PO:0005848)
• heartwood (PO:0004512)
• sapwood (PO:0004513)
• growth ring (PO:0004514)
• early wood (PO:0004515)
• late wood (PO:0004516)

• growth ring boundary (PO:0004517)

phloem (PO:0005417)

• sieve tube (PO:0025416)

• primary phloem (PO:0006075)
• protophloem (PO:0006077)
• metaphloem (PO:0006076)
• internal phloem (PO:0006216)

• secondary phloem (PO:0005043)
• included phloem (PO:0004524)

wood parenchyma (PO:0004532)

• axial wood parenchyma (PO:0004533)
• ray wood parenchyma (PO:0004534)

lateral meristem (PO:0020145)

• cambium (PO:0005597)
• cork cambium (PO:0005599)
• vascular cambium (PO:0005598)

systems

• vascular system (PO:0000034) is_a plant structure
• axial system (PO:0025410)
• ray system (PO:0025411)

2. Develop list of anatomy/morphology terms that are missing

Do we need only wood-related terms, or other terms for woody plants?

wood related term suggestions

Terms for PO:

reaction wood

tension wood

compression wood

aggregate ray (also maybe homogenous, heterogenous, uniseriate, multiseriate, fusiform rays)

storied cambium

non-storied cambium and rays

oil cell

ray tracheid

traumatic resin

(apotracheal, paratracheal, marginal, aliform, confluent) axial parenchyma

read review of laticifer cells by Pickering

knot loose and tight

interfascicular cambium

vascular bundle types

inter- and intra-xylary phloem

successive cambium

epithelium cell

ray tracheid and subtypes

cambial zone

square cell

Terms for GO:

pit, pit types, torus, margo, simple, membrane types, tyloses etc.,

casparian strip

mineral inclusions: calcium oxalate, silica

3. Work on definitions of new terms

space for notes as we work

link to Google doc