Taxonomic Profiling of Microbial Communities

Using the gene catalog for comparison in the MicroNR library to obtain species annotation information for each gene (Unigene), and combined with the gene abundance tables to obtain species abundance tables for different taxonomic levels. The genes were compared with each functional database using the DIAMOND software (Buchfink et al., 2015 (link)). Unigenes were compared (blastp, evalue <= 1e-5) with Bacteria, Fungi, Archaea and Virus sequences extracted from the NCBI NR (Version: 2018.01) database (Karlsson et al., 2013 (link)).

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Hu B., Wang J., Li Y., Ge J., Pan J., Li G., He Y., Zhong H., Wang B., Huang Y., Han S., Xing Y, & He H. (2023). Gut microbiota facilitates adaptation of the plateau zokor (Myospalax baileyi) to the plateau living environment. Frontiers in Microbiology, 14, 1136845.

Publication 2023

Archaea Bacteria Diamond Fungi Gene annotation Genes Library Virus

Corresponding Organization : Chinese Academy of Sciences

Other organizations : University of Chinese Academy of Sciences, Qinghai University, Anhui University of Science and Technology

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Variable analysis

independent variables

Using the gene catalog for comparison in the MicroNR library to obtain species annotation information for each gene (Unigene)
Comparing the genes with each functional database using the DIAMOND software

dependent variables

Species abundance tables for different taxonomic levels

control variables

Comparing Unigenes (blastp, evalue <= 1e-5) with Bacteria, Fungi, Archaea and Virus sequences extracted from the NCBI NR (Version: 2018.01) database

Annotations

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