Table 2. Microbial species selected as models for genera and co-abundance groups that differ between CRC and healthy patients.

Phylum	Species	Abbrv.	Bioproject	Refs.
Model species for genera significantly higher in healthy patientsa
Bacteroidetes	Bacteroides vulgatus ATCC 8482	Bvu	PRJNA13378	c
Bacteroidetes	Bacteroides uniformis ATCC 8492	Bun	PRJNA18195	c
Firmicutes	Roseburia intestinalis L1-82 (DSM 14610)	Rin	PRJNA30005	d
Bacteroidetes	Alistipes indistinctus YIT 12060	Ain	PRJNA46373	c
Firmicutes	Eubacterium rectale ATCC 33656	Ere	PRJNA29071	e
Proteobacteria	Parasutterella excrementihominis YIT 11859	Pex	PRJNA48497	f
Model species for genera significantly higher in CRC patientsa
Bacteroidetes	Porphyromonas gingivalis W83	Pgi	PRJNA48	g
Proteobacteria	Escherichia coli NC101	Eco	PRJNA47121	c,h
Firmicutes	Enterococcus faecalis V583	Efa	PRJNA57669	c
Firmicutes	Streptococcus infantarius ATCC BAA-102	Sin	PRJNA20527	i
Firmicutes	Peptostreptococcus stomatis DSM 17678	Pst	PRJNA34073	j
Bacteroidetes	Bacteroides fragilis YCH46	Bfr	PRJNA58195	g
Model species for protective co-abundance groupsb
Actinobacteria	Bifidobacterium longum NCC2705	Blo	PRJNA57939	g,k
Firmicutes	Faecalibacterium prausnitzii SL3/3	Fpr	PRJNA39151	e,l
Model species for pro-carcinogenic co-abundance groupsb
Fusobacteria	Fusobacterium nucleatum ATCC 23726	Fnu	PRJNA49043	m,n
Bacteroidetes	Prevotella copri DSM 18205	Pco	PRJNA30025	k,o
Firmicutes	Coprobacillus sp. D7	Csp	PRJNA32495	h

Notes.

^aGenus identification from Table 2 of Wang et al. (2012). Based on comments in Wang et al. (2012), Bacteroides is represented here by two species (B. vulgatus and B. uniformis) in healthy patients, and one species (B. fragilis) in CRC patients.

^bGenus-level definition of co-abundance groups from Candela et al. (2014).

^cWang et al. (2012); species closely related to 16S rRNA-derived operational taxonomic units (OTUs; Fig. 2 of Wang et al., 2012) or otherwise mentioned by those authors (E. faecalis).

^dDuncan et al. (2002).

^eLouis & Flint (2007).

^fNagai et al. (2009).

^gChen et al. (2012).

^hCandela et al. (2014).

ⁱBiarc et al. (2004).

^jZeller et al. (2014).

^kWeir et al. (2013).

^lSokol et al. (2008).

^mCastellarin et al. (2012).

ⁿKostic et al. (2012).

^ocf. Chen et al. (2012) and Candela et al. (2014) (more abundant in CRC patients); Weir et al. (2013) (more abundant in healthy subjects).