@Leadfoot,
the article is from David Quammen newest book where he gets to play science reporter. He goes for something sensational ,ALWAYS. (His lil book on island bio geography had a few mis-statements of sources)
Woese is being given a lot of credit for stuff Lynn Margulis had done before him (about capturing entire genomes v the size of the bearers genome)
The phylogenetic tree using Margulis-Woese-Rosnfeld , to my observation, could help explain the genetic impetus to "more quickly" evolve so many entire phyla in the pre- Paleozoic to early Mesozoic (Ediacaran through the Triassic). However, we dont have any genetic material except for living species which may or may not even relate if Margulis and Woese are right .
Id like actual evidence that we see HGT in the higher organisms rather than speculate on epigenetic HGT in infected cattle.
Woese and Rosnfeld have taken the position that the Tree of life takes on Darwinian means, after the first Billion years when species were impossible to recognize ( Actually perceive cause evidence is only available from living archaea).
If this gives you some agreed upon vidence for ID, you need to explain it in the meanest of means.
Even the phylogenetic "trees" computed via Hi power computers based on full genetic components of sequenced genomes, seem to recreate a last common ancestor between and among the 5 kingdoms (as defined by Rosenfeld not Woese)