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Open Access Highly Accessed Research article

Coverage evaluation of universal bacterial primers using the metagenomic datasets

Dan-Ping Mao, Quan Zhou, Chong-Yu Chen and Zhe-Xue Quan*

Author Affiliations

Department of Microbiology and Microbial Engineering, School of Life Sciences, Fudan University, Shanghai, 200433, China

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BMC Microbiology 2012, 12:66  doi:10.1186/1471-2180-12-66

Published: 3 May 2012

Additional files

Additional file 1 :

Figure S1. Normalized non-coverage rates. A Normalized domain non-coverage rates in the RDP dataset for Figure 1A; B Normalized domain non-coverage rates for Figure 2.

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Additional file 2 :

Figure S2. Non-coverage rates at the phylum level. The figures show the non-coverage rates of different primers at the phylum level: A Primer 27F; B Primer 338F; C Primer 338R; D Primer 519F; E Primer 519R; F Primer 907R; G Primer 1390R; and H Primer 1492R.

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Additional file 3 :

Table S1; Table S2; Table S3; Table S4; Table S5. Primer binding-site sequence variants. Frequently observed sequence variants at different primer binding sites are listed in different tables: Table S1 Primer 27F; Table S2 Primer 338F; Table S3 Primer 338R; Table S4 Primer 519F; and Table S5 Primer 907R.

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Additional file 4 :

Figure S3. Elimination of primer contamination. The figure shows the elimination of sequences that are thought to lack correct primer trimming in the RDP dataset.

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