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Back to [[POC_Meeting_and_Workshop_Nov_4th_to_6th,_NYBG,_Bronx,_NY]] Priority rankings next to each item by RW on 11/1/2010. May change. ===(MP) Parts of the root tip=== We discussed most of these at last week's meeting, and folks have commented on SF. Can move through them quickly or save for phone meeting. '''Proposed new parent term: root parenchyma''' (PO:0025095): A portion of parenchyma tissue that is part of a root. Original data: id: PO:0020123 name: root cap def: "A group of cells that covers the apical meristem of the root." [APWeb:Glossary] subset: reference Suggest: is_a root parenchyma Proposed definition: A portion of root parenchyma tissue that is part of the root tip and covers the root apical meristem. Comment: Often composed of living and dead parenchyma cells. Protects the root apical meristem. Original data: id: PO:0020130 name: central root cap def: "The central part of a root cap in which the cells are arranged in longitudinal files." [GR:pj] synonym: "columella cells" RELATED [] plus columella root cap relationship: part_of PO:0020123 ! root cap Suggest: is_a root parenchyma Proposed definition: A portion of root parenchyma tissue that is the central part of a root cap in which the cells are arranged in longitudinal files. Original data: id: PO:0020131 name: lateral root cap def: "The part of the root cap that is parallel to the sides of the axis." [ISBN:0122151704] synonym: "peripheral cells" RELATED [] relationship: part_of PO:0020123 ! root cap Suggest: is_a root parenchyma Proposed definition: A portion of parenchyma tissue that is part of a root cap and is parallel to the sides of a root axis. Original data: id: PO:0020149 name: quiescent center def: "Hemispherically shaped aggregation of mitotically and metabolically inactive cells positioned behind the root cap." [ISBN:0122151704] Suggest: is_a meristem, part_of root apical meristem Proposed definition: A hemispherically shaped portion of meristem tissue consisting of mitotically and metabolically inactive cells that is part of the root apical meristem and is positioned behind the root cap. Original data: id: PO:0020135 name: differentiation zone alt_id: PO:0003002 def: "The portion of the root located behind the elongation zone containing cells that are differentiating into their final form and function." [GR:pj] subset: reference synonym: "maturation zone" RELATED [] synonym: "specialization zone" RELATED [] Suggest: is_a cardinal organ part, part_of root Proposed new name: root differentiation zone; Proposed definition: A cardinal organ part that is the part of a root and is located behind the elongation zone and contains cells that are differentiating into their final form and function. Comment: Most of the primary tissues of a root mature in the differentiation zone. This zone is where root hairs are produced. Could add new parent term "shoot axis differentiation zone" to be parent to this term and to stem internode differentiation zone (PO:0008042) Original data: id: PO:0020125 name: elongation zone def: "The portion of the root that includes small, densely cytoplasmic cells that are dividing and expanding in size." [GR:pj] subset: reference synonym: "region of cell elongation" RELATED [] synonym: "region of radial enlargement" RELATED [] Suggest: obsoleting this term, because the definition is wrong, and making a new term, root elongation zone; is_a cardinal organ part, part_of root tip Proposed definition: A cardinal organ part that is part of a root that is located directly behind a root apical meristem, in which the cells are undergoing longitudinal expansion. Comment: The elongation zone is only a few millimeters in length and is the only portion of the root in which cell elongation generally occurs. Root hairs are not yet produced in this region. Primary root tissue begin to differentiate in the root elongation zone. Could add new parent term "shoot axis elongation zone" to be parent to this term and to stem internode elongation zone (PO:0008041) ===(HP) Pores/stomata=== [Term] id: PO:0002000 name: stomatal complex def: "An opening pore on the epidermis of leaves and stems bordered by two guard cells and serving in gas exchange." [ISBN:0471245208] synonym: "stoma" RELATED [] synonym: "stomata" RELATED [] [Term] id: PO:0006334 name: seed micropyle def: "A pore on the seed coat which is a remnant of the ovular micropyle." [GR:pj] relationship: develops_from PO:0020025 ! micropyle [Term] id: PO:0008032 name: stomatal pore def: "The space of variable size controlled by stomatal guard cells in response to environmental clues." [GR:cwt] synonym: "stomatal aperture" RELATED [] relationship: part_of PO:0002000 ! stomatal complex [Term] id: PO:0008044 name: floral stomatal complex def: "An opening pore on the epidermis of floral organs bordered by two guard cells and serving in gas exchange." [GR:cwt] Term] id: PO:0008046 name: floral stomatal pore def: "The space of variable size controlled by floral stomatal guard cells in response to environmental clues." [GR:cwt] relationship: part_of PO:0008044 ! floral stomatal complex [Term] id: PO:0020025 name: micropyle def: "A small canal or opening through the integument(s) at the apex of an ovule." [APWeb:Glossary] comment: In a mature seed the micropyle may remain visible as an occluded pore or may be obliterated. The micropyle originates as an opening in the integuments of an ovule through which the pollen tube usually enters the embryo sac. subset: reference [Term] id: PO:0020101 name: stomium def: "A fissure or pore in the anther lobe through which the pollen is released." [GR:pj] subset: reference relationship: part_of PO:0005011 ! anther dehiscence zone ===(HP) Trichomes and hairs=== [Term] id: PO:0002001 name: papillae def: "A soft protuberance on an epidermal cell of the stigma." [ISBN:0471245208] subset: reference [Term] id: PO:0000029 name: root hair tip def: "Tip portion of an outgrowth of a root epidermal cell." [TAIR:ki] [Term] id: PO:0008031 name: trichome branch def: "The branch on a trichome." [GR:cwt] [Term] id: PO:0020061 name: coma def: "A tuft of hairs at one end of a seed." [APWeb:Glossary] synonym: "brush" RELATED [] ===(LP) [https://sourceforge.net/tracker/?func=detail&aid=3007368&group_id=76834&atid=835555 axil]=== (also an open tracker item) Should the PO have a generic term 'axil' and, if so, how it should be defined. See also older tracker item [https://sourceforge.net/tracker/index.php?func=detail&aid=1681621&group_id=76834&atid=835555 leaf base vs. axil?] Original data: id: PO:0009023 name: leaf axil def: "The angle between the petiole of a leaf and the stem to which it is attached." [GR:cwt] relationship: part_of PO:0020040 ! leaf base xref: SF: 3007368 Suggest: is_a axil, part_of shoot system ===(HP) [https://sourceforge.net/tracker/?group_id=76834&atid=835555 Primordium]=== (also an open tracker item) Need a class primordium, and need to make one definition for it. Also need to organize primordium terms [Term] id: PO:0004725 name: abaxial side of leaf primordium def: "The abaxial/outer side of the leaf primordium that becomes the abaxial/lower leaf blade." [TAIR:ki] [Term] id: PO:0004726 name: adaxial side of leaf primordium def: "The adaxial/inner side of the leaf primordium that becomes adaxial/upper leaf blade." [TAIR:ki] ===(LP) easy ones (ha!)=== Can be dealt with at a phone meeting. [Term] id: PO:0000037 name: shoot apex def: "The topmost part of the shoot, situated at the distal extremity of the shoot axis, consists of apical meristem and the youngest leaf primordia." [TAIR:ki] subset: reference [Term] id: PO:0003023 name: root nodule def: "Enlargement or swelling on the roots of plants, particularly in the Fabaceae, inhabited by nitrogen-fixing bacteria." [ISBN:0471245208] ===parts of embryo=== [Term] id: PO:0000001 name: embryo proper def: "The body of the developing embryo attached to the maternal tissue in the ovule by filamentous suspensor." [TAIR:ki] [Term] id: PO:0020096 name: egg apparatus def: "The egg cell and two synergids located at the micropylar end of the embryo sac." [TAIR:lr] subset: reference [Term] id: PO:0020108 name: suspensor def: "A nearly always single file of cells at the base of the embryo derived from the basal cell." [GR:pj] comment: It anchors the embryo in the embryo sac and pushes it into the endosperm. [Term] id: PO:0020110 name: scutellum def: "A more or less shield-shaped and absorptive portion of an embryo of grasses, probably a modified cotyledon." [APWeb:Glossary] synonym: "haustorial cotyledon" RELATED [] ===(MP) miscellaneous=== [Term] id: PO:0000032 name: tetrad of microspores def: "A group of four haploid cells that remained joined together shortly after meiosis. Each cell will give rise to the male gametophyte." [TAIR:ki] subset: reference [Term] id: PO:0004540 name: fruit columella def: "Central axis of the fruit." [POC:curators] subset: Tomato [Term] id: PO:0004724 name: hypocotyl-root junction def: "Junction point of the embryonic root and hypocotyl." [TAIR:ki] subset: reference [Term] id: PO:0006000 name: hull (sensu Poaceae) def: "A leaf like structure often found enclosing the grass fruit, caryopsis. It is derived from the dried lemma (PO:0009037) and palea (PO:0009038) floral bracts found in the grass floret (PO:0006318)." [GR:pj] subset: Maize subset: Poaceae subset: Rice [Term] id: PO:0006345 name: pollen tube def: "A tubular cell extension formed by the germinating pollen grain; carries the male gametes into the ovule." [ISBN:0471245208] subset: reference [Term] id: PO:0009019 name: basal endosperm transfer layer def: "A cell layer found in basal endosperm transfer cell." [GR:cwt] [Term] id: PO:0009036 name: lodicule def: "In a grass floret, one of two or three tiny scales or flaps of tissue outside the stamens, possibly representing reduced perianth segments." [APWeb:Glossary] subset: reference [Term] id: PO:0009070 name: microsporangium def: "A sporangium producing microspores, usually many in number." [APWeb:Glossary] subset: reference synonym: "anther lobe" RELATED [] synonym: "pollen sac" RELATED [] [Term] id: PO:0009090 name: aril def: "A structure associated with and often partly or wholly covering a seed and developed from the funicle or raphe." [APWeb:Glossary] comment: Also used more generally to refer to a similar structure derived from any part of the ovule - there has been much and sometimes acrimonious debate over the correct definition of the term, so when used the origin of the aril should generally be given for clarity. subset: reference [Term] id: PO:0019022 name: arilloid def: "An outgrowth from parts of the seed other than from the funiculus or raphe." [ISBN:0080280293] [Term] id: PO:0020005 name: placentoid def: "An inpushing of the anther wall." [APWeb:Glossary] subset: reference [Term] id: PO:0020124 name: root stele alt_id: PO:0003012 def: "The central column of primary vascular tissue in the root and any tissue that it surrounds." [APWeb:Glossary] comment: Includes the pericycle as the outermost layer of the stele. subset: reference synonym: "root vascular cylinder" RELATED []

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