TABLE 1.

Oligonucleotides used for amplification of bacterial and archaeal 16S rRNA, ciliate protozoal 18S rRNA, and anaerobic fungal ITS1 genes^a

Primer name	Target group	Sequence (5′-3′)	Adapterb
Illumina-Ba9F	Bacteria	GAGTTTGATCMTGGCTCAG	A
Illumina-Ba515Rmod1	Bacteria	CCGCGGCKGCTGGCAC	B
Illumina-Ar915aF	Archaea	AGGAATTGGCGGGGGAGCAC	B
Illumina-Ar1386R	Archaea	GCGGTGTGTGCAAGGAGC	A
Illumina-RP841F	Rumen ciliates	GACTAGGGATTGGARTGG	B
Illumina-Reg1302R	Rumen ciliates	AATTGCAAAGATCTATCCC	A
Illumina-MN100F	Anaerobic fungi	TCCTACCCTTTGTGAATTTG	B
Illumina-MNGM2	Anaerobic fungi	CTGCGTTCTTCATCGTTGCG	A

^aAccording to the work of Kittelmann et al. (22).

^bPrimers had Illumina adapter A (5′-TCG TCG GCA GCG TCA GAT GTG AT AAG AGA CAG-3′) or B (5′-GTC TCG TGG GCT CGG AGA TGT GTA TAA GAG ACA G-3′) attached to the 5′ end.