FoodMicroDB: A microbiome database for composition and time‐series research in food
Yahui Li,
Hujie Lyu,
Haifei Yang,
Zhicheng Ju,
Chuang Ma,
Huiyu Hou,
Yao Wang,
Yuanping Zhou,
Yunyun Gao,
Junbo Yang,
Shanshan Xu,
Defeng Bai,
Hao Luo,
Salsabeel Yousuf,
Tianyuan Zhang,
Jiani Xun,
Meiyin Zeng,
Heyuan Qi,
Tong Chen,
Yong‐Xin Liu
Affiliations
Yahui Li
Agricultural Genomics Institute at Shenzhen Chinese Academy of Agricultural Sciences Shenzhen China
Hujie Lyu
Department of Life Sciences Imperial College of London London UK
Haifei Yang
Agricultural Genomics Institute at Shenzhen Chinese Academy of Agricultural Sciences Shenzhen China
Zhicheng Ju
Department of Ocean Science The Hong Kong University of Science and Technology Hong Kong SAR China
Chuang Ma
Anhui Agricultural University Hefei China
Huiyu Hou
Agricultural Genomics Institute at Shenzhen Chinese Academy of Agricultural Sciences Shenzhen China
Yao Wang
Agricultural Genomics Institute at Shenzhen Chinese Academy of Agricultural Sciences Shenzhen China
Yuanping Zhou
Agricultural Genomics Institute at Shenzhen Chinese Academy of Agricultural Sciences Shenzhen China
Yunyun Gao
Agricultural Genomics Institute at Shenzhen Chinese Academy of Agricultural Sciences Shenzhen China
Junbo Yang
Agricultural Genomics Institute at Shenzhen Chinese Academy of Agricultural Sciences Shenzhen China
Shanshan Xu
School of Food and Biological Engineering Hefei University of Technology Hefei China
Defeng Bai
Agricultural Genomics Institute at Shenzhen Chinese Academy of Agricultural Sciences Shenzhen China
Hao Luo
Agricultural Genomics Institute at Shenzhen Chinese Academy of Agricultural Sciences Shenzhen China
Salsabeel Yousuf
Agricultural Genomics Institute at Shenzhen Chinese Academy of Agricultural Sciences Shenzhen China
Tianyuan Zhang
Agricultural Genomics Institute at Shenzhen Chinese Academy of Agricultural Sciences Shenzhen China
Jiani Xun
Agricultural Genomics Institute at Shenzhen Chinese Academy of Agricultural Sciences Shenzhen China
Meiyin Zeng
Agricultural Genomics Institute at Shenzhen Chinese Academy of Agricultural Sciences Shenzhen China
Heyuan Qi
Institute of Microbiology Chinese Academy of Sciences Beijing China
Tong Chen
State Key Laboratory for Quality Ensurance and Sustainable Use of Dao‐di Herbs, National Resource Center for Chinese Materia Medica China Academy of Chinese Medical Science Beijing China
Yong‐Xin Liu
Agricultural Genomics Institute at Shenzhen Chinese Academy of Agricultural Sciences Shenzhen China
Abstract Microorganisms are crucial for food fermentation, preservation, and safety, directly impacting human health. The number of studies on the food microbiome has surged recently, along with a substantial increase in data. However, there is a notable lack of databases specialized for this field. To address this gap, we developed Food Microbiome Database (FoodMicroDB), a platform aimed at enhancing the reusability and accessibility of food microbiome data through comprehensive data management and data visualization tools. FoodMicroDB aggregates 6358 amplicon data from 108 meta‐taxonomic projects covering 62 foods, and harbors 4710 taxa of bacteria, archaea, and fungi. The collected data were consistently analyzed and curated, then visualized using versatile utilities, including unique tools for visualizing microbial composition and time‐series microbiome data. It also includes advanced modules for microbial abundance analysis, cross‐host abundance comparison, and cross‐food analysis. FoodMicroDB will be a valuable resource platform for the food microbiome research field. The database is freely accessible at: https://www.bic.ac.cn/FoodMicro/.
