Table 1. Primers used in this study.

Name	Sequence (5′-3′)	Specificity	Reference
4Fa	TCCGGTTGATCCTGCCRG	Archaea	Giovannoni et al., 1988
27Fa	AGAGTTTGATCMTGGCTCAG	Bacteria	Lane, 1990
T7-1492Ra,b	TCTAATACGACTCACTATAGGGGGYTACCTTGTTACGACTT	Universal
MitoFa	TACTACCAGACAACCTTAGC	Mitochondrial 16S	Kasashima et al., 2008
T7-MitoRa,b	TCTAATACGACTCACTATAGGGGTTTCGGGGGTCTTAGCTTT
StrF	CGACGATACATAGCCGACCTGAG	streptococci	Chalmers et al., 2008
StrR	TCCATTGCCGAAGATTCCCTACTG
F-Ent	ATGGCTGTCGTCAGCTCGT	enterobacteria	Leser et al., 2002
R-Ent	CCTACTTCTTTTGCAACCCACTC		Sghir et al., 2000
EcocF	CCCTTATTGTTAGTTGCCATCATT	enterococci	Rinttila et al., 2004
EcocR	ACTCGTTGTACTTCCCATTGT
BacF	CGGCAACGAGCGCAACCC	Bacteria	Denman and McSweeney, 2006
BacR	CCATTGTAGCACGTGTGTAGCC
Fprau420R	CCGAAGACCTTCTTCCTCC	F. prausnitzii	Wang et al., 1996
Fprau223F	GATGGCCTCGCGTCCGATTAG		Ahmed et al., 2007

^aPrimers used for preparation of target RNA for array hybridization.

^bModified by Kang et al. (2010) to include the T7 promoter (italicized) for subsequent cRNA synthesis.