Summary New TO Terms- Spring 2012

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New children of anatomy and morphology trait (TO:0000017)

shoot system anatomy and morphology trait (TO:0000077) and new child terms:

• bud anatomy and mophology trait (TO:0000789):A shoot system anatomy and morphology trait (TO:0000077) which is associated with a bud (PO:0000055).
  • axillary bud anatomy and morphology trait (TO:0000790): A bud anatomy and morphology trait (TO:0000789) which is associated with an axillary bud (PO:0004709).
    • axillary bud size (TO:0000791): An axillary bud anatomy and morphology trait (TO:0000790) which is associated with the size of an axillary bud (PO:0004709). Refer to PATO:0000117
    • axillary bud number (TO:0000792): An axillary bud anatomy and morphology trait (TO:0000790) which is associated with the number of axillary buds (PO:0004709) on a stalk or stem. Refer to number PATO:0001056
    • axillary bud shape (TO:0000793): An axillary bud anatomy and morphology trait (TO:0000790) which is associated with the shape of an axillary bud (PO:0004709). Refer to shape PATO:0000052
    • axillary bud prominence (TO:0000794): An axillary bud anatomy and morphology trait (TO:0000790) which is associated with the prominence of an axillary bud (PO:0004709). Refer to prominent PATO:0014820
• reproductive shoot system anatomy and morphology trait (TO:0000786): A shoot system anatomy and morphology trait (TO:0000077) that is associated with an reproductive shoot system (PO:0025082).
  • inflorescence anatomy and morphology trait (TO:0000373): A reproductive shoot system anatomy and morphology trait (TO:0000786) that is associated with an inflorescence (PO:0009049).
    • inflorescence branching (TO:0000050): An inflorescence anatomy and morphology trait (TO:0000373) which is associated with the extent of branching usually sets the tone for shape and compactness of the inflorescence (PO:0009049).
      • inflorescence branch arrangement (TO:0002751): An inflorescence anatomy and morphology trait (TO:0000373) which is associated with the arrangement of inflorescence branches (PO:0009081).
    • inflorescence color (TO:0000581): An inflorescence anatomy and morphology trait (TO:0000373) which is associated with the color of an inflorescence (PO:0009049).
    • inflorescence exsertion (TO:0001002): An inflorescence anatomy and morphology trait (TO:0000373) which is associated with the exsertion of an inflorescence (PO:0009049).
    • inflorescence height (TO:0000682): An inflorescence anatomy and morphology trait (TO:0000373) which is associated with the height of an inflorescence (PO:0009049) measured from ground to the attachment point.
    • inflorescence number (TO:0000582): An inflorescence anatomy and morphology trait (TO:0000373) which is associated with the average number of inflorescence (PO:0009049) per plant in a study.
    • inflorescence shape (TO:0000268): An inflorescence anatomy and morphology trait (TO:0000373) which is associated with the shape of an inflorescence (PO:0009049).
    • inflorescence size (TO:0006031): An inflorescence anatomy and morphology trait (TO:0000373) which is associated with the variation in size of inflorescence (PO:0009049).
    • inflorescence type (TO:0000267): An inflorescence anatomy and morphology trait (TO:0000373) which is associated with the variation in the type of inflorescence, wither due to extent and number of branching, branch angles or modified form of the inflorescence (PO:0009049).
    • flower inflorescence anatomy and morphology trait (TO:0000499): An inflorescence anatomy and morphology trait (TO:0000373) which is associated with a flower (PO:0009046).
    • tassel inflorescence anatomy and morphology trait (TO:0000788): An inflorescence anatomy and morphology trait (TO:0000373) that is associated with a tassel inflorescence (PO:0020126).
      • tassel inflorescence color (TO:0000795): A tassel inflorescence anatomy and morphology trait (TO:0000788) which is associated with the color of a tassel inflorescence (PO:0020126). Refer to color PATO:0000014
      • tassel inflorescence circumference (TO:0000796): A tassel inflorescence anatomy and morphology trait (TO:0000788) which is associated with the circumference of a tassel inflorescence (PO:0020126). Refer to circumference PATO:0001684
      • tassel inflorescence height (TO:0000797): A tassel inflorescence anatomy and morphology trait (TO:0000788) which is associated with the height of a tassel inflorescence (PO:0020126). Refer to height PATO:0000119
      • tassel inflorescence length (TO:0000798): A tassel inflorescence anatomy and morphology trait (TO:0000788) which is associated with the length of a tassel inflorescence (PO:0020126). Refer to length PATO:0000122
      • tassel inflorescence diameter (TO:0000799): A tassel inflorescence anatomy and morphology trait (TO:0000788) which is associated with the diameter of a tassel inflorescence (PO:0020126). Refer to diameter PATO:0001334
      • tassel inflorescence type (TO:0000814): A tassel inflorescence anatomy and morphology trait (TO:0000788) which is associated with the type of tassel inflorescence (PO:0020126).

Plant organ anatomy and morphology trait (TO:0000736) and child terms

• plant organ anatomy and morphology trait (TO:0000736): An anatomy and morphology trait (TO:0000017) which is associated with a plant organ (PO:0009008).

• plant axis anatomy and morphology trait (TO:0000738): plant organ anatomy and morphology trait (TO:0000736) which is associated a plant axis (PO:0025004).

• • shoot axis anatomy and morphology trait (TO:0000739): A plant axis trait (TO:0000738) which is associated with a shoot axis (PO:0025029).

• • • inflorescence axis anatomy and morphology trait (TO:0000782):A shoot axis anatomy and morphology trait (TO:0000739) which is associated with an inflorescence axis (PO:0020122).

• • • • inflorescence axis size (TO:0000783):An inflorescence anatomy and morphology trait (TO:0000782) which is associated with the size of an inflorescence axis (PO:0020122). Refer to size (PATO:0000117)

• • • • inflorescence axis angle (TO:0000270): An inflorescence anatomy and morphology trait (TO:0000782) which is associated with the angle of the inflorescence axis (PO:0020122). Refer to angle (PATO:0002326)

• • • • inflorescence axis texture (TO:0002754): An inflorescence anatomy and morphology trait (TO:0000782) which is associated with the texture of the inflorescence axis (PO:0020122). Refer to texture (PATO:0000150)

• • • • inflorescence branch anatomy and morphology trait (TO:0000784):A inflorescence axis anatomy and morphology trait (TO:0000782) which is associated with an inflorescence branch (PO:0009081).

• • • • • tassel branch anatomy and morphology trait (TO:0000785): An inflorescence branch anatomy and morphology trait (TO:0000784) which is associated with a tassel branch (PO:0006323).

• • • • • • tassel branch number (TO:0000813): A tassel branch anatomy and morphology trait (TO:0000785) which is associated with the number of tassel branches (PO:0006323).

• • • • • • tassel branch dry weight (TO:0000812): A tassel branch anatomy and morphology trait (TO:0000785) which is associated with the dry weight of a tassel branch (PO:0006323) prior to pollen shed.

• • • peduncle anatomy and morphology trait (TO:0000776): A shoot axis anatomy and morphology trait (TO:0000739) which is associated with a peduncle (PO:0009053).

• • • • peduncle waxiness (TO:0000777): A peduncle anatomy and morphology trait (TO:0000776) which is associated with a visual observation of the presence of cuticular wax (PO:0025386).

• • • • peduncle length (TO:0002691): A peduncle anatomy and morphology trait (TO:0000776) which is associated with the length of a peduncle (PO:0009053). Refer to length (PATO:0000122)

• • • • peduncle width (TO:0000649): A peduncle anatomy and morphology trait (TO:0000776) which is associated with the width of a peduncle (PO:0025386). Refer to width (PATO:0000921)

• • • • peduncle top diameter (TO:0000546): A peduncle anatomy and morphology trait (TO:0000776) which is associated with the diameter at the tip of the peduncle (PO:0009053). Refer to diameter (PATO:0001334)

• • • • peduncle type (TO:0000778): A peduncle anatomy and morphology trait (TO:0000776) which is associate with the type of a peduncle (PO:0009053).

• • • • peduncle attachment (TO:0000780): A peduncle anatomy and morphology trait (TO:0000776) which is associated with the attachment quality of a peduncle (PO:0009053). Refer to attachment quality (PATO:0001435)

• • • • peduncle color (TO:0000779): A peduncle anatomy and morphology trait (TO:0000776) which is associated with the color of a peduncle (PO:0009053). Refer to color (PATO:0000014)

• • • branch anatomy and morphology trait (TO:0000740): A shoot axis anatomy and morphology trait (TO:0000739) which is associated with a branch (PO:0025073).

• • • • tuber anatomy and morphology trait (TO:0000741): A branch anatomy and morphology trait (TO:0000740) which is associated with a tuber (PO:0004543).

• • • • • • subterranean tuber anatomy and morphology trait (TO:0000742): A tuber anatomy and morphology trait (TO:0000741) which is associated with a subterranean tuber (PO:0004547).
            • subterranean tuber shape (TO:0000743): A subterranean tuber anatomy and morphology trait (TO:0000742) which is associated with the shape of a subterranean tuber (PO:0004547)
            • subterranean tuber size (TO:0000744): A subterranean tuber anatomy and morphology trait (TO:0000742) which is associated with the size of a subterranean tuber (PO:0004547).
            • subterranean tuber appearance (TO:0000745): A subterranean tuber anatomy and morphology trait (TO:0000742) which is associated with the appearance of a subterranean tuber (PO:0004547).
            • subterranean tuber mass (TO:0000746): A subterranean tuber anatomy and morphology trait (TO:0000742) which is associated with the mass of a subterranean tuber (PO:0004547).

• phyllome anatomy and morphology trait (TO:0000747): A plant organ anatomy and morphology trait (TO:0000736) which is associated with a phyllome (PO:0006001).
  • leaf anatomy and morphology trait (TO:0000748): A phyllome anatomy and morphology trait (TO:0000747) which is associated with a leaf (PO:0025034).
    • vascular leaf anatomy and morphology trait (TO:0000419):A leaf anatomy and morphology trait (TO:0000748) which is associated with a vascular leaf (PO:0009025).
      • cotyledon anatomy and morphology trait (TO:0000749): A vascular leaf anatomy and morphology trait (TO:0000419) which is associated with a cotyledon (PO:0020030).
        • seedling cotyledon anatomy and morphology trait (TO:0000774): A cotyledon anatomy and morphology trait (TO:0000749) which is associated with a seedling cotyledon (PO:0025471).
          • seedling cotyledon color(TO:0000750): A seedling cotyledon anatomy and morphology trait (TO:0000774) which is associated with the color of a seedling cotyledon(PO:0025471).
          • seedling cotyledon number (TO:0000751): A seedling cotyledon anatomy and morphology trait (TO:0000774) which is associated with the number of seedling cotyledons (PO:0025471).
          • seedling cotyledon size (TO:0000752): A seedling cotyledon anatomy and morphology trait (TO:0000774) which is associated with the size of a seedling cotyledon(PO:0025471).
        • embryo cotyledon anatomy and morphology trait (TO:0000775): A cotyledon anatomy and morphology trait (TO:0000749) which is associated with an embryo cotyledon (PO:0025470).

• coleoptile anatomy and morphology trait (TO:0000753) : A plant organ anatomy and morphology trait (TO:0000736) which is associated with a coleoptile (PO:0020033).
  • coleoptile color (TO:0000244): A coleoptile anatomy and morphology trait (TO:0000753) which is associated with the color of a coleoptile (PO:0020033). refer to: color PATO:0000014
  • coleoptile length (TO:0001007): A coleoptile anatomy and morphology trait (TO:0000753) which is associated with the length of a coleoptile (PO:0020033). refer to: length PATO:0000122

cardinal organ part (TO:0000754) and new child terms:

• cardinal organ part anatomy and morphology trait (TO:0000754): An anatomy and morphology trait (TO:0000017) which is associated with a cardinal organ part (PO:0025001).
  • shoot internode anatomy and morphology trait (TO:0000755): A cardinal organ part anatomy and morphology trait (TO:0000754) which is associated with a shoot internode (PO:0005005).
    • stem internode anatomy and morphology trait (TO:0000756): A shoot internode anatomy and morphology trait (TO:0000755) which is associated with a stem internode (PO:0020142).
      • hypocotyl anatomy and morphology trait (TO:0000757): A stem internode anatomy and morphology trait (TO:0000756) which is associated with a hypocotyl (PO:0020100).
        • seedling hypocotyl anatomy and morphology trait (TO:0000769):A hypocotyl anatomy and morphology trait (TO:0000757) which is associated with a seedling hypocotyl (PO:0025291).
          • seedling hypocotyl size (TO:0000781): A seedling hypocotyl anatomy and morphology trait (TO:0000769) which is associated the size of a seedling hypocotyl (PO:0025291). Refer to size (PATO:0000117)
          • seedling hypocotyl length (TO:0006065): A hypocotyl anatomy and morphology trait (TO:0000757) which is associated with the length of a hypocotyl (PO:0020100). Refer to length PATO:0000122
          • seedling hypocotyl color (TO:0000759): A seedling hypocotyl anatomy and morphology trait (TO:0000769) which is associated with the color of a hypocotyl (PO:0020100). Refer to color PATO:0000014
            • seedling hypocotyl green (TO:0000760): A seedling hypocotyl color trait (TO:0000759) where a hypocotyl (PO:0020100) is observed to have the quality color green (PATO:0000320). Refer to: color (PATO:0000014); green (PATO:0000320)
            • seedling hypocotyl green with bronze band (TO:0000761): A seedling hypocotyl color trait (TO:0000759) where a hypocotyl (PO:0020100) is observed to have the quality color green (PATO:0000320) with a bronze (PATO:0002363) band.
            • seedling hypocotyl purple (TO:0000762): A seedling hypocotyl color trait (TO:0000759) where a hypocotyl (PO:0020100) is observed to have the quality color purple (PATO:0000951). Refer to: color (PATO:0000014); purple: PATO:0000951
            • seedling hypocotyl dark purple (TO:0000763): A seedling hypocotyl color trait (TO:0000759) where a hypocotyl (PO:0020100) is observed to have the quality color dark purple (PATO:0001259). Refer to: color (PATO:0000014); dark purple: PATO:0001259
        • embryo hypocotyl anatomy and morphology trait (TO:0000771): A hypocotyl anatomy and morphology trait (TO:0000757) which is associated with an embryo hypocotyl (PO:0025290).
      • mesocotyl anatomy and morphology trait (TO:0000758): A stem internode anatomy and morphology trait (TO:0000756) which is associated with a mesocotyl (PO:0020037).
        • seedling mesocotyl anatomy and morphology trait (TO:0000772):A mesocotyl anatomy and morphology trait (TO:0000758) which is associated with an seedling mesocotyl (PO:0025295).
        • embryo mesocotyl anatomy and morphology trait (TO:0000773): A mesocotyl anatomy and morphology trait (TO:0000758) which is associated with an embryo mesocotyl (PO:0025294).
        • mesocotyl length (TO:0000544): A mesocotyl anatomy and morphology trait (TO:0000758) which is associated with the length of a mesocotyl (PO:0020037). Refer to length PATO:0000122

• stalk anatomy and morphology trait (TO:0000764): A cardinal organ part anatomy and morphology trait (TO:0000754) which is associated with a stalk (PO:0025066).
  • petiole anatomy and morphology trait (TO:0000765): A stalk anatomy and morphology trait (TO:0000764): which is associated with a petiole (PO:0020038).
    • petiole length (TO:0000766): A petiole anatomy and morphology trait (TO:0000765)that is associated with the length of a petiole (PO:0020038). Refer to length PATO:0000122
    • petiole shape(TO:0000767): A petiole anatomy and morphology trait (TO:0000765) that is associated with the shape of a petiole (PO:0020038). Refer to shape PATO:0000052
    • petiole size (TO:0000768): A petiole anatomy and morphology trait (TO:0000765) that is associated with the size of a petiole (PO:0020038). Refer to size PATO:0000117

plant cell anatomy and morphology traits:

• seed color (TO:0000486): A seed anatomy and morphology trait (TO:0000184) which is associated with the color of a seed (PO:0009010).
• seed shape (TO:0000484): A seed anatomy and morphology trait (TO:0000184) which is associated with the shape of a seed (PO:0009010).
• seed texture (TO:0020016): A seed anatomy and morphology trait (TO:0000184) which is associated with the texture of a seed (PO:0009010).

multi-tissue plant structure anatomy and morphology traits

• fruit anatomy and morphology trait (TO:0002629): A multi-tissue plant structure anatomy and morphology trait (TO:0000836) which is associated with a fruit (PO:0009001).
  • fruit abscission zone size (TO:0002632): A fruit anatomy and morphology trait (TO:0002632) which is associated with the variation in the size of the fruit abscission zone (PO:0006503).
  • fruit size (TO:0002625): A fruit anatomy and morphology trait (TO:0002629) which is associated with the variation in the size of a fruit (PO:0009001).
  • fruit shape (TO:0002628): A fruit anatomy and morphology trait (TO:0002629) which is associated with the variation in the shape of a fruit (PO:0009001).

New stature or vigor traits (TO:0000133) added:

• plant aspect- made is_a stature or vigor trait (TO:0000133):

plant aspect: A stature or vigor trait (TO:0000133) that is a qualitative score of the visual appeal (ideotype) of the whole plant (PO:0000003).

New stress trait (TO:0000164) terms added:

bacterial blight disease resistance (TO:0000770): A bacterial disease resistance (TO:0000315) that resists bacterial blight disease.

Renamed and redefined terms:

• root term: plant trait (TO:0000387)- removed "ontology from name, defined based on entities and "
• anatomy and morphology trait (TO:0000017)- removed "related" from name and redefined.
• shoot system anatomy and morphology trait (TO:0000077)- was shoot anatomy and morphology trait
• mesocotyl length (TO:0000544): was a child of embryo development, embryo related trait and mesocotyl anatomy and morphology trait. Now is only a child of mesocotyl anatomy and morphology trait.
• seedling hypocotyl anatomy and morphology trait (TO:0000769): new child of hypocotyl anatomy and morphology trait.

• blast disease resistance:

Redefined terms:

plant color (TO:0000708): new def: A stature and vigor trait (TO:0000133) which is associated with the color of a whole plant (PO:0000003). Refer to color PATO:0000014.

plant height (TO:0000207): new def: A stature and vigor trait (To:0000133) which is associated with the height of a whole plant (PO:0000003). Refer to height PATO:0000119.

These are ones that kept their original names