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Plant Ontology Updates

Laurel Cooper edited this page Aug 15, 2023 · 14 revisions

Updates to PO in Planteome V5 July 2023 Release:

New terms added:

  • endodermis cell (PO:0025624): A ground tissue cell (PO:0025030) that is part of a portion of endodermis (PO:0000252).
  • Moved new term endodermis cell to be is_a ground tissue cell, part of the endodermis and develops from root cortex-endodermis initial cell.
  • cortex-endodermis initial cell (PO:0025625): An initial cell (PO:0004011) that produces cortex (PO:0005708) and endodermis (PO:0000252).
  • Fixed a few root initial cells, removed part_of quiescent center

Other Edits to PO

  • Added narrow synonym 'peg' to gynaphore PO:0006330

  • Added "plant" to the name of 'epidermis' terms to prevent confusion with animal epidermis, etc. Updated definitions

  • plant epidermis PO:0005679
  • plant epidermal cell PO:0004013
  • plant epidermal initial cell PO:0000349

Updated the definitions of plant epidermis child terms:

  • leaf lamina epidermis
  • leaf lamina abaxial epidermis
  • leaf lamina adaxial epidermis
  • leaf adaxial epidermis
  • leaf abaxial epidermis
  • plant epidermis
  • petiole epidermis
  • stomatal initial cell
  • plant epidermal initial cell
  • hypocotyl epidermis
  • plant ovary outer epidermis
  • plant ovary inner epidermis
  • shoot system epidermis
  • root epidermis
  • integument epidermis
  • seed coat epidermis
  • petal abaxial epidermis
  • petal adaxial epidermis
  • sepal adaxial epidermis
  • sepal abaxial epidermis
  • cotyledon epidermis
  • cotyledon abaxial epidermis
  • cotyledon adaxial epidermis
  • filament epidermis
  • plant ovary epidermis
  • nucellar epidermis
  • petiole adaxial epidermis
  • petiole abaxial epidermis
  • anther wall exothecium
  • aerial tuber epidermis
  • subterranean tuber epidermis
  • cigar leaf lamina abaxial epidermis
  • peduncle epidermis
  • bract abaxial epidermis
  • bract adaxial epidermis
  • tepal abaxial epidermis
  • tepal adaxial epidermis
  • leaf sheath epidermis
  • leaf sheath abaxial epidermis
  • leaf sheath adaxial epidermis
  • microsporangium exothecium
  • megasporangium exothecium
  • sepal epidermis giant cell
  • epidermal rhizoid initial cell
  • paraphyllium
  • exothecium

Other Edits:

  • Made BFO compliant to test with browser
  • Changed the obo namespace from 'plant anatomy' to 'anatomical entity' which is a BFO term
  • Replaced Caro:0000000 'anatomical entity' with BFO:0000040 'material entity'
  • Fixed issues from OBO Dashboard- and added missing property values
    • Added 'OBSOLETE' to label and def'n of deprecated terms
    • Fixed duplicate synonyms
  • Fixed dbxrefs to old SF trackers #433 phloem terms
  • Fixed typos in xrefs to old SF trackers, updated to new GH trackers
  • Fixed definition dbxref, added curator names, fixed broken xrefs, fixed ones with commas
  • Converted Agricola xrefs to DOIs
  • Updated the the dbx ref from GO Cell to CL Cell on plant cell
  • Updated the terms + def'ns for the plant ovule integument PO:0020021