What should be in the ideal microbiome test for CFS

This morning I got an email from Cort Johnson(health rising) putting me in contact with someone working with some microbiome testing firms for  microbiome testing with CFS. The issue was discussing what to test for. I thought in addition to an email response, a public post would be wise — in case I have missed any studies that readers may know about.

This is based on current knowledge and studies on PubMed. Additional items may be discovered in time. Low or High is relative to healthy controls in some patient populations. A recent 2016 studies that associated bacteria to symptoms found that gender was a significant factor in the response[2016]. This may be a factor in why CFS impacts females more than males.

This list may bring home to many people that we are not dealing with a single bacteria (infection) but a shift of an entire population, a challenging scenario to treat!

Items Found to be Low

Items Found to be High

As a graphic from this article


 Additional Suspect Bacteria

Gluten Sensitivity is common with a large subset of CFS patients. My earlier post, listed the observed shifts there. I  have reproduce the table below:

With Glutten /Celiac Issues
Increase Decrease
Bacteroides Akkermansia muciniphila
Actinobacteria Bacteroides-Prevotella
Atopobium Bifidobacterium
bacterial diversity Bifidobacterium adolescentis
Bacteroides-Prevotella Bifidobacterium bifidum 
Bifidobacterium Bifidobacterium catenulatum
Bifidobacterium adolescentis Bifidobacterium lactis
Bifidobacterium Bifidum Bifidobacterium diversity
Bifidobacterium breve Clostridium coccoides
Bifidobacterium dentium Deinicoccus-Thermus
Clostridium Haemophilus spp.
Clostridium histolyticum Lactobacillus casei
Clostridium lituseburense Lactobacillus paracasei
Enterococcus, Lactobacillus Rhamnosus
Escherichia coli Lactobacillus sakei
Eubacterium rectale-Clostridium coccoides Lactobacillus zeae
Faecalibacterium prausnitzii Lactobacillus 
Firmicutes Lactobacillus-Bifidobacterium/Bacteroides-Prevotellaratio RATIO
Fusobacteria Neisseria spp.
Lactobacillus Porphyromonas
Lactobacillus Brevis Proteobacteria
Lactobacillus curvatus Proteobacteria
Lactobacillus delbrueckii bulgaricus Staphylococcus 
Lactobacillus frementum Staphylococcus-Micrococcus
Lactobacillus gasseri
Lactobacillus paracasei
Lactobacillus plantarium
Lactobacillus Rhamnosus
Lactobacillus Rossiae
Lactobacillus and Bifidobacterium groups greater diversity
Leuconostoc carnosum
Leuconostoc mesenteroides
Methylobacterium spp.
Mycobacterium spp.
sulfate-reducing bacteria