Microbiome Diagnostic Services

Charles River offers microbiome diagnostic services in support of your microbiome research and germ-free colony health monitoring needs.

Next Generation Sequencing (NGS)

Next generation sequencing (NGS) analysis of your samples makes it easy for you to assess the biodiversity of bacterial composition of your animal colony and research experiments. Our laboratory will extract genetic material from submitted samples, confirm the presence of 16S ribosomal RNA sequence, and use NGS technology to collect, sequence, and conduct bioinformatics microbiome analysis.

C57BL/6 Germ-Free Mouse is Now Available for Your Research
C57BL/6-Germ-Free Mouse

Bred in an axenic environment to ensure strict exclusion of all microorganisms, this mouse is an indispensable model for research into the host-microbiome interaction, including type 1 diabetes, inflammatory bowel disease, obesity, and autism. Learn More

Germ-Free Mouse Colony Health Screening

Anaerobic agents are the most difficult to detect from oxygen-containing environments and, therefore, it is critical that anaerobic collection culture media, anaerobic chambers, and powerful microbial identification technologies be utilized to ensure accurate results. Charles River offers comprehensive, accurate, and sensitive detection of infectious agents using both aerobic and anaerobic cultures of samples obtained from the isolator environment, individual cages, and directly from colony animals.

Our microbial cultures can confirm the absence of bacteria in samples from germ-free animals. If bacterial growth is detected, we will work to identify the bacteria and assist in preventing the same agent form showing up in the future. Our health monitoring experts are available to provide guidance on establishing a germ-free assessment program specific to your colony and research, and custom test panels can be developed to suit your specific needs.

Program Type Components
Whole Animal Monitoring: Axenic Mouse HM Plus with Anaerobic Cultures and PRIA® PCR Rodent Infectious Agent (PRIA®) testing of feces for viral, bacterial, and fungal/parasitic agents
Aerobic culture of upper respiratory and gastrointestinal tracts with identification via MALDI-TOF mass spectrometry
Anaerobic culture of cecal contents with identification via MALDI-TOF mass spectrometry
Necropsy (with histology of gross lesions upon requests)
Serological viral antibody detection
Environmental Monitoring: Surveillance Plus PRIA® PCR Rodent Infectious Agent (PRIA®) testing of cage/isolator swab for viral, bacterial, and fungal/parasitic agents
Next Generation Sequencing (NGS) 16S next generation sequencing
16S bioanalysis
Direct Submission of Samples Anaerobic (germ-free) fecal acreening