Phage call August 30th 2012

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CALL POSTPONED UNTIL NEXT WEEK


1/ NUCLEOID QUESTIONS:

Questions from Becky to Brenley:

  • Is the viral nucleoid the region WITHIN the viral particle, or the region within the host cell????
  • Presumably the nucleoid can contain either RNA or DNA? (the current definition is DNA-specific)
  • NB: to create a viral-specific term, will need to redefine and rehouse the current 'nucleoid' term, out from under 'intracellular non-membrane bound organelle'.


2/ VIRAL GENOME PACKAGING

Current structure:
viral DNA genome packaging ; GO:0019073 
--[isa]viral DNA genome packaging via site-specific sequence recognition ; GO:0098035
----[isa]viral DNA genome packaging, 3' extended cos packaging ; GO:0098036
----[isa]viral DNA genome packaging, 5' extended cos packaging ; GO:0098037
--[isa]viral DNA genome packaging, headful ; GO:0098006

Brenley is struggling to describe (CLEARLY) the ways dsDNA genomes are packaged because others have terminal proteins that are bound to ends of replicated genome (NOT produced as a concatamer like site-specific dudes) Linear vs Rotary motors???

Brenley: Can you suggest new terms that you're thinking of adding here?


3/ TRANSPOSITION, DNA-MEDIATED replicative, non-replicative ok according to email exchange with Ariane T. need term for class III -- BM

Brenley: Can you suggest new terms that you're thinking of adding here?