Evaluation of The Global Genome Transcription Profiling of Probiotic Bacteria in Murine Gut

Probiotics are temporarily colonized in human intestinal mucosa in a highly individualized manner, resulting in different effects on the indigenous microbiota and host gene expression profiles, which can be predicted from baseline host and microbiome characteristics by global genome transcription profiling sequencing technology.

Background of The Global Genome Transcription Profiling

For hundreds of millions of years, animals and bacteria have coevolved and coadapted to the selective pressure of the environment. Probiotics can not only restore the composition of the intestinal microbiome, but also introduce beneficial functions into the intestinal microbiome, thereby improving or preventing intestinal inflammation and other intestinal or systemic diseases. The omics revolution in sequencing and analysis pipelines has aroused interest in how the gut microbiome affects physiology and disease predisposition. Relying on the global genome transcription profiling technology to deeply understand the symbiotic relationship between hosts and bacteria is the core of unraveling the complex interactions of environmental biology, genetics, and microbiota in human health and disease.

Example: candidate probiotic E. coli evolution in murine gut. Fig.1 Example: candidate probiotic E. coli evolution in murine gut. (Crook, 2019)

Advantages of Global Genome Transcription Profiling

Among the commonly used analysis methods for bacteria, global microbial community composition analysis and 16S rRNA-based methods do not allow the study of microbiota or probiotics in situ activity, so it is impossible to understand the mode of action of probiotics related to hosting functions. In contrast, genomics-based methods allow for functional assessment of host-microbe interactions at the molecular level. Such molecular studies can reveal the molecules involved in these interactions, which will help develop molecular models that serve as the basis for host-microbe interactions. This mechanism of insight into the health effects of probiotics will not only help to develop new and improved live biotherapeutic products but also supports their health claims, which are likely to be subject to more and more scientific scrutiny in the future.


In the past few years, the genome sequencing of gastrointestinal commensal and symbionts and food-grade bacteria has received extensive attention. At the same time, with the publication of the genome sequences of several other species that can be classified as (potential) probiotics, the knowledge base in this field is expected to expand rapidly. The availability of these bacterial genome sequences and their annotation functions provide valuable clues to their survival strategies in the human gastrointestinal tract.

Creative Biolabs actively seizes this opportunity and combines our technical advantages and experience in transcriptomics and animal models to propose a global genome transcription profiling service based on murine gut models, which can not only reveal the probiotics of host-microbe interaction but also conduct host response analysis. The combination of these knowledge data sets will enable researchers to reveal the potential mechanism of the gut and probiotic effects on host physiology and will provide new and more scientific consumer health benefits for probiotics.

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  1. Crook, N., et al. Adaptive Strategies of the Candidate Probiotic E. coli Nissle in the Mammalian Gut. Cell Host & Microbe. 2019, 25(4).

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