Journal of Data Mining in Genomics & Proteomics

Mary Reed

Publications

• Research Article
  Identification of Host-Specific Genetic Markers within 16S rDNA Intervening Sequences of 73 Genera of Fecal Bacteria
  Author(s): Zhenyu Shen, Ning Zhang, Azlin Mustapha, Mengshi Lin, Dong Xu, Daiyong Deng, Mary Reed and Guolu ZhengZhenyu Shen, Ning Zhang, Azlin Mustapha, Mengshi Lin, Dong Xu, Daiyong Deng, Mary Reed and Guolu Zheng
  
  Ribosomal intervening sequences (IVSs) were recently proposed as genetic markers for microbial source tracking (MST). This study comprehensively investigated host specificities of IVSs within the 16S rDNA of 73 genera of dominant fecal bacteria using the approaches of bioinformatics and next generation sequencing (NGS). Thirteen types of IVSs were identified in silico to be associated with particular host species; they were found within bacteria of the genera Anaerovibrio, Bacteroides, Faecalibacterium, Mitsuokella, Peptostreptococcus, Phascolarctobacterium, and Subdoligranulum. Based on the DNA sequences of the thirteen types of IVSs, polymerase chain reaction (PCR) assays were developed. PCR amplifications using fecal DNA samples of target and non-target host species demonstrated that eight out of the 13 IVSs were highly associated with human, chicken/turkey, beef cattle/pig, or hor.. View More»
  DOI: 10.4172/2153-0602.1000186

  Abstract PDF