After reviewing this thread, I changed the way I describe PDF's.
For now I have decided to use the UDFR identifier for the PDF mime-type.
Here are the relevant sections for the Cougar (Puma concolor) RDF representation 
The description of the PDF file.
    <rdfs:label>PDF of the Original Description of Puma concolor (Linnaeus 1771)</rdfs:label>
  </bibo:Document>
Each species should have an original published description. 
In the absence of complete information about these, I create a URI so I can make statements about what I do know about these publications.
The original description for the Cougar is out of copyright and available as a PDF, so I link to it in the RDF section describing the orignal species description
  
    <rdfs:label>Original Description of Puma concolor se:v6n7p</rdfs:label>
    <!-- Ideally, this should link to a resource in Citebank -->
    <dcterms:description>LOD metadata about the original species description relating to Species Concept Puma concolor se:v6n7p</dcterms:description>
    <txn:originalName>Felis concolor Linnaeus 1771</txn:originalName>
    <!-- There should be a type specimen. Add link to GBIF via 'txn:sodHasTypeSpecimen' if they know about it. -->
  </txn:SpeciesOriginalDescription>
I hope to have a matching updated RDF dump with the changes in the next few days.
It will have 118,850 species, better linking to related entities and 99% of the matching EoL.org pages.
* There are currently ~280 species that have non-unique EoL ID's because of differences in the EoL, USDA Plants, and eBird data sets.
Thank you for the comments and suggestions,
Respectfully,
-- Pete
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Pete DeVries
Department of Entomology
University of Wisconsin - Madison
445 Russell Laboratories
1630 Linden Drive
Madison, WI 53706
Email: 
pdev...@wisc.eduTaxonConcept  &  
GeoSpecies Knowledge Bases
A Semantic Web, 
Linked Open Data  Project
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