Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2013 Sep 20:13:437.
doi: 10.1186/1471-2334-13-437.

An easy operating pathogen microarray (EOPM) platform for rapid screening of vertebrate pathogens

Weiwei Huang  1 , Yinhui Yang, Xinlei Zhang, Changan Zhao, Aihua Yin, Xiaozhuang Zhang, Zhengxin He, Yongqiang Jiang, Liang Zhang
Affiliations

An easy operating pathogen microarray (EOPM) platform for rapid screening of vertebrate pathogens

Weiwei Huang et al. BMC Infect Dis. .

Abstract

Background: Infectious diseases emerge frequently in China, partly because of its large and highly mobile population. Therefore, a rapid and cost-effective pathogen screening method with broad coverage is required for prevention and control of infectious diseases. The availability of a large number of microbial genome sequences generated by conventional Sanger sequencing and next generation sequencing has enabled the development of a high-throughput high-density microarray platform for rapid large-scale screening of vertebrate pathogens.

Methods: An easy operating pathogen microarray (EOPM) was designed to detect almost all known pathogens and related species based on their genomic sequences. For effective identification of pathogens from EOPM data, a statistical enrichment algorithm has been proposed, and further implemented in a user-friendly web-based interface.

Results: Using multiple probes designed to specifically detect a microbial genus or species, EOPM can correctly identify known pathogens at the species or genus level in blinded testing. Despite a lower sensitivity than PCR, EOPM is sufficiently sensitive to detect the predominant pathogens causing clinical symptoms. During application in two recent clinical infectious disease outbreaks in China, EOPM successfully identified the responsible pathogens.

Conclusions: EOPM is an effective surveillance platform for infectious diseases, and can play an important role in infectious disease control.

PubMed Disclaimer

Figures

Figure 1
Figure 1
Hybridization picture of EOPM in the adenovirus outbreak case. RNA/DNA from patients was labeled with red cy5 fluorescent dye, and nucleic acid from normal control serum was labeled with green cy3 dye.
Figure 2
Figure 2
User interface of the EOPM software. Users will generally only need to input raw microarray data for pathogen identification.
See this image and copyright information in PMC

Similar articles

See all similar articles

Cited by

References

    1. Cook IG, Dummer TJ. Changing health in China: re-evaluating the epidemiological transition model. Health Policy. 2004;67(3):329–343. doi: 10.1016/j.healthpol.2003.07.005. - DOI - PMC - PubMed
    1. Guan Y, Zheng BJ, He YQ, Liu XL, Zhuang ZX, Cheung CL, Luo SW, Li PH, Zhang LJ, Guan YJ. et al.Isolation and characterization of viruses related to the SARS coronavirus from animals in southern China. Science. 2003;302(5643):276–278. doi: 10.1126/science.1087139. - DOI - PubMed
    1. Zhang Y, Tan XJ, Wang HY, Yan DM, Zhu SL, Wang DY, Ji F, Wang XJ, Gao YJ, Chen L. et al.An outbreak of hand, foot, and mouth disease associated with subgenotype C4 of human enterovirus 71 in Shandong, China. J Clin Virol. 2009;44(4):262–267. doi: 10.1016/j.jcv.2009.02.002. - DOI - PubMed
    1. Zhou J, Sun W, Wang J, Guo J, Yin W, Wu N, Li L, Yan Y, Liao M, Huang Y. et al.Characterization of the H5N1 highly pathogenic avian influenza virus derived from wild pikas in China. J Virol. 2009;83(17):8957–8964. doi: 10.1128/JVI.00793-09. - DOI - PMC - PubMed
    1. Liu D, Wang X, Pan F, Xu Y, Yang P, Rao K. Web-based infectious disease reporting using XML forms. Int J Med Inform. 2008;77(9):630–640. doi: 10.1016/j.ijmedinf.2007.10.011. - DOI - PubMed

Publication types