Open Access Highly Accessed Research article

Comparison of three next-generation sequencing platforms for metagenomic sequencing and identification of pathogens in blood

Kenneth G Frey12, Jesus Enrique Herrera-Galeano12, Cassie L Redden12, Truong V Luu12, Stephanie L Servetas3, Alfred J Mateczun1, Vishwesh P Mokashi1 and Kimberly A Bishop-Lilly12*

Author Affiliations

1 Naval Medical Research Center, NMRC-Frederick, 8400 Research Plaza, Fort Detrick, Frederick, MD 21702, USA

2 Henry M. Jackson Foundation, 6720-A Rockledge Drive, Suite 100, Bethesda, MD 20817, USA

3 Department of Microbiology and Immunology, Uniformed Services University, Bethesda, MD 20814, USA

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BMC Genomics 2014, 15:96  doi:10.1186/1471-2164-15-96

Published: 4 February 2014

Additional files

Additional file 1: Figure S1:

Read mapping against segment 5 of Influenza genome. Reads resulting from Ion Torrent 314 chip were mapped to the reference Influenza a H1NI segment 5 [NCBI accession: NC_002019], using CLC Genomics Workbench version 6.0 at default parameters. Coordinates of reference genome segment are displayed along the top and G/C content is graphed below reference in pink.

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Additional file 2: Table S1:

Mapped reads by Influenza A segment for MiSeq and PGM replicatesa. a: Statistics for one of two independent libraries at low stringency parameters.

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Additional file 3: Table S2:

Proportion of mapped reads as a function of Influenza A genome segment size for MiSeq and PGM replicatesa. a: Statistics for one of two independent libraries at low stringency parameters.

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Additional file 4: Figure S2:

Predicted free energy of individual Influenza genome segments. Using CLC Genomics Workbench version 6.0, Gibb's free energy was predicted for each genome segment of the NCBI reference strain Influenza A virus (A/Puerto Rico/8/34(H1N1)).

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Additional file 5: Table S3:

Sequences of primers used in this study.

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