To analyze the data, ~1 × 105 reads not aligned to the human genome were randomly selected from all reads with an average length of ~100 base pairs, and similar sequences were searched for in the NCBI nt (National Center for Biotechnology Information nucleotide) database using BLASTn (Basic Local Alignment Search Tool nucleotide database) with a threshold e-value of 5 × 10−5. The full-length reference genome was used for complete genome analysis. Sequences were aligned using the CLUSTAL W software included in MEGA v. 5.0 (http://mega.software.informer.com/5.0/ ) and the bootstrap was plotted for a window of 300 bp, moving in increments of 10 bp along the alignment, using Simplot software (http://sray.med.som.jhmi.edu/SCRoftware/simplot/ ). All reference sequences used in this study were obtained from GenBank (http://www.ncbi.nlm.nih.gov/genbank/ ). The fecal microbiota composition was characterized compared to microbiota across body sites in the Human Microbiome Project (HMP) database (https://commonfund.nih.gov/hmp/index ).
Continuous clinical data were analyzed using Student’s t-tests and expressed as means ± standard deviation (SD). Binary data were analyzed using the χ2 test. A value of P < 0.05 was considered to indicate statistical significance. All tests were performed using SAS software v. 8 for Windows (SAS Institute Inc., Cary, NC, USA).
Continuous clinical data were analyzed using Student’s t-tests and expressed as means ± standard deviation (SD). Binary data were analyzed using the χ2 test. A value of P < 0.05 was considered to indicate statistical significance. All tests were performed using SAS software v. 8 for Windows (SAS Institute Inc., Cary, NC, USA).