Bacterial species identification

See here for 16S rRNA alignment assistance.

For 16S rDNA species specific probes, see ProbeBase

Universal Bacterial Primers
Lane, D. J. (1991). 16S/23S rRNA sequencing. Nucleic acid techniques in bacterial systematics. E. Stackebrandt and M. Goodfellow, eds. New York, NY, John Wiley and Sons: 115-175.


 * 27f	5'AGAGTTTGATCMTGGCTCAG
 * 342r	5'CTGCTGCSYCCCGTAG
 * 357f	5'CTCCTACGGGAGGCAGCAG
 * 519r	5'GWATTACCGCGGCKGCTG
 * 530f	5'GTGCCAGCMGCCGCGG
 * 1100r	5'GGGTTGCGCTCGTTG
 * 1114f	5'GCAACGAGCGCAACCC
 * 1392r	5'ACGGGCGGTGTGTRC
 * 1406f	5'TGYACACACCTCCCGT
 * 1492r	5'TACGGYTACCTTGTTACGACTT
 * 1525r	5'AAGGAGGTGWTCCARCC

Universal primers from Leser02

 * Edited from Lane91, naming from Alm96, PMID 8837410


 * S-*-Univ-1492-a-A-19 GGTTACCTTGTTACGACTT-3
 * S-D-Bact-0008-a-S-20 AGAGTTTGATCMTGGCTCAG-3
 * S-D-Bact-0907-a-S-20 AAACTCAAAGGAATTGACGG-3
 * S-*-Univ-0519-a-A-18 GTATTACCGCGGCTGCTG-3
 * S-D-Bact-0786-a-A-20 GACTACCAGGGTATCTAATC-3
 * S-D-Bact-1054-a-A-20 ACGAGCTGACGACAGCCATG-3

Mycoplasma universal primers
Johansson K-E, Characterization of mycoplasmas by PCR and sequence analysis with universal 16S rDNA primers, Chapter 18, Mycoplasma Protocols, 1998.


 * U1F 12-27   ttg atc ctg gct cag gay daa cg
 * U2F  327-348  cca rac tcc tac ggr agg c
 * U3R 512-527  att acc gcg gck gct g
 * U4F 792-810  gta gtc cac gcc gta aac g
 * U5R 902-924  ctt gtg cgg gyy ccc gtc aa
 * U6F 1154-1172  gag gaa ggy grg gay gay g
 * U7R 1359-1374  aca agr ccc gag aac g
 * U8R 1502-1524  gaa agg agg trw tcc ayc csc ac