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New Database Combines Data on Microbes, Their Metabolites, and Their Effects

An international team of researchers has developed a new resource to house data on the human microbiome and the chemicals it produces. The Human Microbial Metabolome Database (MiMeDB) includes multiomic data — genomic, proteomic, and metabolomic as well as exposome data — and incorporates data from other databases like VMH, HMDB, KEGG, GenBank, UniProt, BacMap, FooDB, and HMD in a web-friendly interface. That is, as the researchers note in their Nucleic Acids Research paper presenting the database, MiMeDB includes data on human microbes, their metabolites, and how those metabolites affect people that researchers can query to explore, visualize, and interpret their own data. "We believe that MiMeDB represents the kind of integrated, multiomic or systems biology database that is needed to enable comprehensive multiomic integration," the researchers write, adding that they plan to fill out its data on health effects and exposure sources in the future.

The Scan

Machine Learning Helps ID Molecular Mechanisms of Pancreatic Islet Beta Cell Subtypes in Type 2 Diabetes

The approach helps overcome limitations of previous studies that had investigated the molecular mechanisms of pancreatic islet beta cells, the authors write in their Nature Genetics paper.

Culture-Based Methods, Shotgun Sequencing Reveal Transmission of Bifidobacterium Strains From Mothers to Infants

In a Nature Communications study, culture-based approaches along with shotgun sequencing give a better picture of the microbial strains transmitted from mothers to infants.

Microbial Communities Can Help Trees Adapt to Changing Climates

Tree seedlings that were inoculated with microbes from dry, warm, or cold sites could better survive drought, heat, and cold stress, according to a study in Science.

A Combination of Genetics and Environment Causes Cleft Lip

In a study published in Nature Communications, researchers investigate what combination of genetic and environmental factors come into play to cause cleft lip/palate.