ADDAGMA: A database for domestic animal gut microbiome atlas

文献类型： 外文期刊

第一作者： Xu, Yueren

作者： Xu, Yueren;Lei, Bingbing;Lei, Yunjiao;Li, Xiaoyue;Yao, Rui;Hu, Ruirui;Liu, Kaiping;Wang, Yue;Cui, Yuying;Dai, Jihong;Li, Lei;Ni, Wei;Hu, Shengwei;Zhang, Qingfeng;Liu, Ze-Xian;Li, Cunyuan;Wang, Limin;Zhou, Ping

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关键词： Gut microbiota; Metagenomics; Domestic animals; Phenotypes; Database

期刊名称：COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL （ 影响因子：6.155； 五年影响因子：6.836 ）

ISSN： 2001-0370

年卷期： 2022 年 20 卷

页码：

收录情况： SCI

摘要： Animal gut microbiomes play important roles in the health, diseases, and production of animal hosts. The volume of animal gut metagenomic data, including both 16S amplicon and metagenomic sequencing data, has been increasing exponentially in recent years, making it increasingly difficult for researchers to query, retrieve, and reanalyze experimental data and explore new hypotheses. We designed a database called the domestic animal gut microbiome atlas (ADDAGMA) to house all publicly available, high-throughput sequencing data for the gut microbiome in domestic animals. ADDAGMA enhances the availability and accessibility of the rapidly growing body of metagenomic data. We annotated microbial and metadata from four domestic animals (cattle, horse, pig, and chicken) from 356 published papers to construct a comprehensive database that is equipped with browse and search functions, enabling users to make customized, complicated, biologically relevant queries. Users can quickly and accurately obtain experimental information on sample types, conditions, and sequencing platforms, and experimental results including microbial relative abundances, microbial taxon-associated host phenotype, and P-values for gut microbes of interest. The current version of ADDAGMA includes 290,422 quantification events (changes in abundance) for 3215 microbial taxa associated with 48 phenotypes. ADDAGMA presently covers gut microbiota sequencing data from pig, cattle, horse, and chicken, but will be expanded to include other domestic animals. ADDAGMA is freely available at (http://addagma.omicsbio.info/). (C) 2022 The Authors. Published by Elsevier B.V. on behalf of Research Network of Computational and Structural Biotechnology.

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