Design of 16S rRNA gene primers for 454 pyrosequencing of the human foregut microbiome

doi:10.3748/wjg.v16.i33.4135

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World Journal of Gastroenterology

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1007-9327

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Baishideng Publishing Group Inc, 7041 Koll Center Parkway, Suite 160, Pleasanton, CA 94566, USA

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World J Gastroenterol. Sep 7, 2010; 16(33): 4135-4144
Published online Sep 7, 2010. doi: 10.3748/wjg.v16.i33.4135

Table 1 Primers used in the study

Primer	# bases	Sequence (5’ to 3’)	Species with identical match (%)
Forward primers
8F	20	AGAGTTTGATCCTGGCTCAG	n/a¹
343F	15	TACGGRAGGCAGCAG	99.1
517F	17	GCCAGCAGCCGCGGTAA	93.2
784F	15	AGGATTAGATACCCT	90.0
917F	16	GAATTGACGGGGRCCC	84.0
1099F	16	GYAACGAGCGCAACCC	73.1
Reverse primers
534R	18	ATTACCGCGGCTGCTGGC	91.8
798R	15	AGGGTATCTAATCCT	90.0
926R	20	CCGTCAATTYYTTTRAGTTT	83.0
1114R	16	GGGTTGCGCTCGTTRC	74.9
1407R	16	GACGGGCGGTGTGTRC	91.3
1541R	20	AAGGAGGTGATCCAGCCGCA	n/a¹

¹Sequences near the ends of the 16S rRNA genes are often designed for primer binding and are not included in sequences deposited in GenBank. n/a: Not available. R = A, G; Y = C, T.

Citation: Nossa CW, Oberdorf WE, Yang L, Aas JA, Paster BJ, DeSantis TZ, Brodie EL, Malamud D, Poles MA, Pei Z. Design of 16S rRNA gene primers for 454 pyrosequencing of the human foregut microbiome. World J Gastroenterol 2010; 16(33): 4135-4144
URL: https://www.wjgnet.com/1007-9327/full/v16/i33/4135.htm
DOI: https://dx.doi.org/10.3748/wjg.v16.i33.4135