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DNA sequencing

  • Open Access
    Analysis of Serial Multidrug-Resistant Tuberculosis Strains Causing Treatment Failure and Within-Host Evolution by Whole-Genome Sequencing
    Research Article | Molecular Biology and Physiology
    Analysis of Serial Multidrug-Resistant Tuberculosis Strains Causing Treatment Failure and Within-Host Evolution by Whole-Genome Sequencing

    Few studies have focused on the reasons for the low cure rate of multidrug-resistant tuberculosis in China and within-host evolution during treatment, which is of great significance for improving clinical treatment regimens. Acquired resistance events were common during the ineffective treatment, among which resistance to amikacin and high-level moxifloxacin were the most common.

    Xinchang Chen, Guiqing He, Siran Lin, Shiyong Wang, Feng Sun, Jiazhen Chen, Wenhong Zhang
  • Open Access
    Impact of DNA Sequencing and Analysis Methods on 16S rRNA Gene Bacterial Community Analysis of Dairy Products
    Research Article | Applied and Environmental Science
    Impact of DNA Sequencing and Analysis Methods on 16S rRNA Gene Bacterial Community Analysis of Dairy Products

    Validated methods are urgently needed to improve DNA sequence-based assessments of complex bacterial communities. In this study, we used 16S rRNA PCR amplicon and gDNA mock community standards, consisting of nine, dairy-associated bacterial species, to evaluate the most commonly applied 16S rRNA marker gene DNA sequencing and analysis platforms used in evaluating dairy and other bacterial habitats. Our results show that bacterial...

    Zhengyao Xue, Mary E. Kable, Maria L. Marco
  • Open Access
    Deep Sequencing of H7N9 Influenza A Viruses from 16 Infected Patients from 2013 to 2015 in Shanghai Reveals Genetic Diversity and Antigenic Drift
    Research Article | Clinical Science and Epidemiology
    Deep Sequencing of H7N9 Influenza A Viruses from 16 Infected Patients from 2013 to 2015 in Shanghai Reveals Genetic Diversity and Antigenic Drift

    H7N9 subtype avian influenza viruses caused infections in over 1,400 humans from 2013 to 2017 and resulted in almost 600 deaths. It is important to understand how avian influenza viruses infect and cause disease in humans and to assess their potential for efficient person-to-person transmission. In this study, we used deep sequencing of primary clinical material to assess the evolution and potential for human adaptation of H7N9...

    Yong-Li Xiao, Lili Ren, Xi Zhang, Li Qi, John C. Kash, Yan Xiao, Fan Wu, Jianwei Wang, Jeffery K. Taubenberger
  • Open Access
    The Gut Microbiota of Healthy Aged Chinese Is Similar to That of the Healthy Young
    Research Article | Host-Microbe Biology
    The Gut Microbiota of Healthy Aged Chinese Is Similar to That of the Healthy Young

    We report the large-scale use of compositional data analysis to establish a baseline microbiota composition in an extremely healthy cohort of the Chinese population. This baseline will serve for comparison for future cohorts with chronic or acute disease. In addition to the expected difference in the microbiota of children and adults, we found that the microbiota of the elderly in this population was similar in almost all respects to...

    Gaorui Bian, Gregory B. Gloor, Aihua Gong, Changsheng Jia, Wei Zhang, Jun Hu, Hong Zhang, Yumei Zhang, Zhenqing Zhou, Jiangao Zhang, Jeremy P. Burton, Gregor Reid, Yongliang Xiao, Qiang Zeng, Kaiping Yang, Jiangang Li
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