redefine striated muscle and add new terms for invertebrate muscle types

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We need very general classes for striated and smooth muscle that will cover 
both vertebrates and invertebrates.

This review is a very good source for how to do this:

http://digitum.um.es/xmlui/bitstream/10201/18816/1/Ultrastructure%20of%20inverte
brate%20muscle%20cell%20types.pdf

Draft class hierarchy  (taxonomic references may not make it into the final 
version):

striated muscle cell
     % transversely striated muscle cell
          % transversely striated muscle cell with continuous Z lines
               % arthropod somatic muscle cell (Poss to avoid taxonomic ref here? - or maybe belongs in arthro?)
               % skeletal muscle
               % cardiac muscle
          % transveresly striated muscle cell with discontinuous Z lines
               % gastropod heart muscle (?)
     % obliquely striated muscle
          % nemotode somatic muscle cell
% smooth muscle cell
    % vertebrate smooth muscle cell
    % invertebrate smooth muscle cell

Relevant PATO terms also need adding:
striated already exists, but should request 'obliquely striated' and 
'transversely striated'

Other important properties 
 - poly vs mono nucleated.
- striated muscle should have axiom 'has_part some sarcomere' - with a 
sufficiently broad def for sarcomere in GO CC.

Related ticket: https://code.google.com/p/cell-ontology/issues/detail?id=91

Original issue reported on code.google.com by dosu...@gmail.com on 9 Sep 2013 at 4:02

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Progress: Now using PATO to classify muscles according to striation type.  This 
brings myotube under striated muscle.  

Adding 'somatic muscle cell' will require the addition of a somatic muscle term 
to Uberon.  

Arthropod somatic muscles are similar to vertebrate skeletal muscles 
(multinucleate, transversely striated) and are often referred to as myotube 
(https://www.google.co.uk/search?q=arthropod+myotube&oq=arthropod+myotube).  
They also share a lot of GO annotations.   I suggest using myotube as  a 
general term covering multinucleate, transversely striated muscle cells, and 
using 'skeletal muscle fiber' for the myotubes of vertebrate muscles.   
Arthropod somatic muscles can be covered by a class 'somatic muscle myotube' 
that does explicitly mention taxa:

myotube
     % skeletal muscle fiber
     % somatic muscle myotube

somatic muscle
    % transversely striated somatic muscle
         % somatic muscle myotube
    % obliquely striated somatic muscle  # (examples include the somatic muscles of nematodes)

Any objections?

Original comment by dosu...@gmail.com on 27 Sep 2013 at 2:06

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More progress:

General class 'non-striated muscle'.  Smooth muscle is reserved for vertebrates.

Bitten the bullet - broadened myotube to include arthropod somatic muscle as 
described above.  Will now be important to look over myoblast fusion in GO - 
may need some more specific terms for myoblast fusion in skeletal muscle dev. 
See https://sourceforge.net/p/geneontology/ontology-requests/10400/

Also added striated visceral muscle classes.  Now closing ticket

Original comment by dosu...@gmail.com on 27 Sep 2013 at 4:11

• Changed state: Fixed