Lyric discussion by sethk 

Much of this has already been commented on, but I'll add some specific clues/references as well:

The Title: Deuteronomy 2:10 concerns the Emites or Emim, a biblical race of giants that once inhabited the land of Ar or Moab but are implicitly extinct.

Verse 1: Thylacine (aka, Tasmanian Tiger/Wolf) The last thylacine died on September 7, 1936 in captivity at the Hobart Zoo in Tasmania, Australia. -"the concrete floor below", "chain-links", teeth-baring, circle-pacing, and stripes are all visible in the previously linked video of the last specimen (youtube.com/watch), which also explains the "so the camera will see".

Verse 2: Dodo, last sighted in either 1662 or 1688 (depending on source reliability) on its home island of Mauritius, east of Madagascar. -"while the sailors disembark": The decline and extinction of the Dodo happened during a period of European exploration in Africa and Asia. Mauritius was often a stopping point for ships full of weary--and hungry--sailors, who hunted dodos for food, deforested their habitat, and introduced foreign species that further threatened the dodo. "Scratch out a place to sit and rest"; "I am a flightless bird": the dodo, which was indeed flightless, nested on the ground. "I have no fear of anyone": Much of dodo's fate was sealed by the fact that, since Mauritius had no predators and few dangers, the dodo was unafraid of humans and foreign animals and therefor quite vulnerable.

Verse 3: Golden Toad (aka, Monteverde golden toad or Alajuela toad) The last golden toad sighting was of a solitary male on May 15th, 1989. -"in Costa Rica"; "the moon shone on me through the trees": The golden toad's only know habitat was a small area of tropical forest near the small town of Monteverde in Costa Rica. -"a burrow underground": It is believed that golden toads spent most of their time in underground burrows. "I sang all night": Toads croak (i.e. sing), usually at night, to attract a mate (which in this case no longer exists).

The song taps into the larger theme of the fragile and transitory nature of life and death that runs through the album, from it's title to the final song.

On a side note, the idea of death meaning the loss of something more than just the individual seems to resonate with "The Witness" by Jorges Louis Borges (web.mit.edu/allanmc/www/borges.thewitness.pdf).

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