interactions with other organisms

1
interactions with other organisms

• Amelia Ireland and Jane Lomax

2
The Ontology
3
Lack of Counterpart Terms
4
The Non-host Problem
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The Non-host Problem II
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Solutions

• Remove non-host designation
• Add generic processes with the wording other
  organism
• Add existing host and new symbiont terms as
  children
• Append terms with during symbiotic interaction
  to clarify

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Solutions

• E.g. acquisition of nutrients from host
• acquisition of nutrients from other organism
  during symbiotic interaction
• acquisition of nutrients from host
• acquisition of nutrients from symbiont

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Solutions before
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Problems with Viruses
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Solutions viruses

• Generalize virus terms to apply to any organism
• Processes with specific viral variants can be
  renamed
• Reassess terms and annotations to see if they
  refer to host or virus processes add new terms
  as required
• Rehome terms under interaction with other
  organisms

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Solutions

• cell communication / signalling
• cell adhesion / fusion (e.g. membrane fusion)
• cell death
• response to biotic stimuli from other organisms
• behaviours involving other organisms, e.g. mating
• entry into / engulfing / incorporating another
  organism
• movement within another organism
• exit from another organism
• phagocytosis
• nodulation
• pollination

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Questions

• Is response to other organism equivalent to
  interaction with other organism?
• Is multi-organism biological process equivalent
  to interaction with other organism?