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"""Biome alone means ecosystem but Rob points out that it depends on whether you parse microbiome “micro-biome” or “microbi-ome.” The latter may suggest that it’s another “-ome, sensu genome, transcriptome, etc."""

A late comment, but may be useful for posterity. Although Rob did have a point regarding the parsing of the term "Microbiome", it should be mentioned that the term was originaly coined by Lederberg to mean "the ecological community of commensal, symbiotic, and pathogenic microorganisms that literally share our body space". He was referring to the *human* microbiome, but that's irrelevant. The relevant part is that the term was originally conceived as being based on the *biome* definition from Ecology. Therefore there is no doubt that the term means "all the microorganisms and their environment", and not a collection of genomes (that is the Metagenome of a Microbiome).

In my opinion, there is a lot of misuse of the term, and this should by no means be taken as meaning that the question "remains open".

Link to lederberg's article: http://www.the-scientist.com/?articles.view/articleNo/13313/title/-Ome-Sweet--Omics---A-Genealogical-Treasury-of-Words/

My 2 cents.

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