Evaluation of the accuracy and sensitivity of high‑throughput sequencing technology using known microbiota

  • Authors:
    • Fanjing Meng
    • Tingtao Chen
    • Xin Wang
    • Xiaolei Wang
    • Hua Wei
    • Puyuan Tian
    • Huan Wang
    • Xiaoxiao Zhao
    • Liang Shen
    • Hongbo Xin
  • View Affiliations

  • Published online on: October 20, 2017     https://doi.org/10.3892/mmr.2017.7849
  • Pages:408-413
0

Abstract

Next generation sequencing provides an excellent platform to explore microbiota in any given environment, and little work is required to evaluate the accuracy and sensitivity of high‑throughput sequencing technology. In the present study, a known microbiota containing Escherichia coli, Lactobacillus plantarum, Streptococcus thermophilus, Bifidobacterium bifidum, Bacillus subtilis, Enterococcus faecalis and Salmonella typhimurium was used to evaluate the high‑throughput sequencing technology. The results suggested that there were 122.7 operational taxonomic units (OTUs) in all groups, which is 17.5‑fold (the whole OTU number/the actual bacterial number) greater compared with the actual microbial number in each group, and the Venn method indicated that only 46.38% (64/138), 58.70% (81/138), 86.13% (118/137), 83.57% (117/140) and 89.29% (125/140) of the common OTUs were identified in groups A, B, C, D and E, of which the majority of OTUs did not belong to known bacteria. In addition, the DNA extraction and amplification efficiency failed to identify bacteria at the phylum, class, order, family, genus and species levels, which may further increase false information of microbial analysis. In conclusion, the present study provided basic datato investigate the potential drawbacks of high‑throughput sequencing technology, which will help researchers to avoid exaggerating the bacterial number when this technology is applied to study microbiota in particular environments.

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January 2018
Volume 17 Issue 1

Print ISSN: 1791-2997
Online ISSN:1791-3004

2016 Impact Factor: 1.692
Ranked #19/128 Medicine Research and Experimental
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APA
Meng, F., Chen, T., Wang, X., Wang, X., Wei, H., Tian, P. ... Xin, H. (2018). Evaluation of the accuracy and sensitivity of high‑throughput sequencing technology using known microbiota. Molecular Medicine Reports, 17, 408-413. https://doi.org/10.3892/mmr.2017.7849
MLA
Meng, F., Chen, T., Wang, X., Wang, X., Wei, H., Tian, P., Wang, H., Zhao, X., Shen, L., Xin, H."Evaluation of the accuracy and sensitivity of high‑throughput sequencing technology using known microbiota". Molecular Medicine Reports 17.1 (2018): 408-413.
Chicago
Meng, F., Chen, T., Wang, X., Wang, X., Wei, H., Tian, P., Wang, H., Zhao, X., Shen, L., Xin, H."Evaluation of the accuracy and sensitivity of high‑throughput sequencing technology using known microbiota". Molecular Medicine Reports 17, no. 1 (2018): 408-413. https://doi.org/10.3892/mmr.2017.7849