A catalog of the mouse gut metagenome

By L. Xiao, Q. Feng, Suisha Liang, S. B. Sonne, Z. Xia, Xinmin Qiu, Xiaoping Li, Hua Long, Jianfeng Zhang, Dongya Zhang and 27 more. 2015

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Metagenomic binning and association of plasmids with bacterial host genomes using DNA methylation (2017, unknown): “Bin-level fasta files for the 541 genomes identified in Xiao et al 36 were created from binned gene sequences using the script write_xiao_MGS_bin_fastas.py (Supplementary Code) after downloading the data files located at https://genome.jgi.doe.gov/pages/dynamicOrganismDownload.jsf?…”
A practical guide to amplicon and metagenomic analysis of microbiome data (2020, background): “…catalogs are available, including catalogs curated from the human gut (Li et al., 2014; Pasolli et al., 2019; Tierney et al., 2019), the mouse gut (Xiao et al., 2015), the chicken gut (Huang et al., 2018), the cow rumen (Stewart et al., 2018; Stewart et al., 2019), the ocean (Salazar et al.,…”
Extending and improving metagenomic taxonomic profiling with uncharacterized species using MetaPhlAn 4 (2023, background): “…to a heterogeneous public dataset of 184 mouse gut microbiomes spanning eight genetic backgrounds and six different vendors (Supplementary Table 17) 65 , MetaPhlAn 4 detected 632 different SGBs, 45.57% of them that would not be detected using only MAGs reconstructed from the same samples’ set…”
Antibiotic-Induced Changes in the Intestinal Microbiota and Disease. (2016, background): “, representation of Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways, which depict the overall metabolic potential of a community] [132].”