Table 1 Oligonucleotides used for the group specific clone libraries.

Bacterial group	Primer	Direction	Position	Sequence (5′‐3′)	Reference
Lactobacillus	Lac1	Forward	352–370*	AGCAGTAGGGAATCTTCCA	Walter31
	Lac2	Reverse	679–680*	ATTYCACCGCTACACATG	Walter31
Bifidobacterium	Bif_164	Forward	164–181*	GGGTGGTAATGCCGGATG	Langendijk23
	Bif_662	Reverse	679–662*	TTCCACCGTTACACCGGGAA	Langendijk23
Bacteroides/Prevotella	Bac‐32	Forward	32–50*	AACGCTAGCTACAGGCTT	Bernhard77
	Bac_303	Reverse	303–321*	CCAATGTGGGGGACCTTC	Manz63
γ‐Proteobacteria/Enterobacteriaceae	TPU5_F	Forward	906–26*	AAACTCAAATGAATTGACGG	von Wintzingerode78
	Enter1416	Reverse	1416–23*	CTTTTGCAACCCACTCC	Sghir79
Sequencing	M13 (21)	Forward	389–404†	TGTAAAACGACGGCCAGT	Guttman80
	M13 (24)	Reverse	208–25†	AACAGCTATGACCATG	Guttman80

*Position referring to the Esherichia coli reference sequence.

†M13 priming sites on pCR 2.1 plasmid vector.