This is the lowest level usually reported by uBiome. At the Family level we had 52 families in the results. At the Genus level we have 128 Genus. Below the Genus level is the Species level. Below the Species level is the Strain level. A Strain level report will likely have over 2000 strains (if it was possible to identify all of the strains).

As with the prior post, I use some thumbnail algorithms to group items into groups. The complete data is available at the bottom for people to do their own analysis.

Genus being skipped

Criteria: 5 or more (or 50+%) in mid range (60%-160%) OR a middle value inside of this range (60%-160%) with at least 10 results. Some are not on Wikipedia

• Akkermansia [ Verrucomicrobia / Verrucomicrobiae / Verrucomicrobiales / Verrucomicrobiaceae]
• Alistipes [Bacteroidetes / Bacteroidetes / Bacteroidales / Rikenellaceae]
• Anaerostipes  [Firmicutes/ Clostridia / Clostridiales/ Lachnospiraceae]
• Bacteroides [Bacteroidetes / Bacteroidetes / Bacteroidales / Bacteroidaceae ]
  • “Bacteroides are normally mutualistic, making up the most substantial portion of the mammalian gastrointestinal flora,^[2] where they play a fundamental role in processing of complex molecules to simpler ones in the host intestine… those who eat plenty of protein and animal fats have predominantly Bacteroides bacteria, while for those who consume more carbohydrates the Prevotella species dominate.^[“
• Blautia  [Firmicutes/ Clostridia / Clostridiales/ Lachnospiraceae]
  • “play an important role both in the recovery process from V. cholerae infection and microbiota maturation in children.”
• Clostridium  [ Firmicutes/ Clostridia / Clostridiales/ Clostridiaceae]
• Collinsella [Actinobacteria / Actinobacteria/ Coriobacteriales / Coriobacteriaceae]
• Dorea
• Erysipelatoclostridium
• Faecalibacterium [ Firmicutes/ Clostridia / Clostridiales/ Clostridiaceae]
• Hespellia [Firmicutes/ Clostridia / Clostridiales/ Lachnospiraceae]
• Intestinibacter
• Intestinimonas
• Lachnospira
• Odoribacter
• Parabacteroides
• Phascolarctobacterium
• Pseudobutyrivibrio [Firmicutes/ Clostridia / Clostridiales/ Lachnospiraceae]
• Roseburia [ Firmicutes/ Clostridia / Clostridiales/ Lachnospiraceae]
• Sarcina
• Subdoligranulum [ Firmicutes/ Clostridia / Clostridiales/ Ruminococcaceae ]- (related to Faecalibacterium prausnitzii[2004])

Major Shift Genus

Criteria: Middle Value below 40% And less than 4 in the middle range with at least 9 results (i.e. < 40%)

• Bifidobacterium [Actinobacteria / Actinobacteria / Bifidobacteriales/ Bifidobacteriaceae] – 17%
  • “Bifidobacteria are one of the major genera of bacteria that make up the colon flora in mammals.”
• Candidatus Soleaferrea [ Firmicutes/ Clostridia / Clostridiales/ Ruminococcaceae] – 3%
• Candidatus Soleaferrea [ Firmicutes/ Clostridia / Clostridiales/ Ruminococcaceae] – -2%
  • ” widely distributed in nature in the microbiota of animals (including the human microbiota) and are mostly innocuous.“
• Dielma [Firmicutes / Mollicutes / Anaeroplasmatales /Erysipelotrichaceae] – 7%
• Eggerthella  [Actinobacteria / Actinobacteria / Coriobacteriales / Coriobacteriaceae] – 35%
  • “found in the human colon and feces and have been implicated as a cause of ulcerative colitis, liver and anal abscesses and systemic bacteremia.”
• Finegoldia  [ Firmicutes/ Clostridia / Clostridiales/ Peptoniphilaceae ]- 4%
• Kluyvera [Proteobacteria  / Gammaproteobacteria / Enterobacteriales / Enterobacteriaceae] – 18%
  • “[some strains] can cause opportunistic infections in immunocompromised patients.”
• Lactobacillus  [Firmicutes / Bacilli / Lactobacillales/ Lactobacillaceae ]- 3%
• Marvinbryantia [ Firmicutes/ Clostridia / Clostridiales/ Lachnospiraceae] – 36%
• Megasphaera [ Firmicutes / Negativicutes / Selenomonadales / Veillonellaceae ]- 1%
• Oscillibacter [ Firmicutes/ Clostridia / Clostridiales/ Oscillospiraceae] -12%
• Oscillospira [ Firmicutes/ Clostridia / Clostridiales/ Ruminococcaceae] – 33%
  • “an enigmatic bacterial genus that has never been cultured, but is constantly detected by 16S rRNA gene surveys of the human microbiome. Here we summarize recent evidence that Oscillospira is positively associated with leanness and health, speculate about its physiology, and argue its potential importance for human health.”
• Parasutterella [Proteobacteria / Betaproteobacteria / Burkholderiales/Sutterellaceae] – 5%
• Peptococcus [ Firmicutes/ Clostridia / Clostridiales/ Peptococcaceae] – 16%
  • “Mezlocillin is an antibiotic that is effective against Peptococcus species.” – AVOID
• Prevotella [ Bacteroidetes/ Bacteroidetes/ Bacteroidales / Prevotellaceae ]- 8%
• Shuttleworthia [Firmicutes/ Clostridia / Clostridiales/ Lachnospiraceae] – 13%
• Streptococcus [Firmicutes / Bacilli / Lactobacillales/ Streptococcaceae] -21%
  • “over 50 species are recognised in this genus.”
• Turicibacter [Firmicutes / Bacilli /  Erysipelotrichia] – 6%

The Noisy Genus

The rest of the Genus are difficult to  interpret. As before, I ascribed them as meaningless or connected with specific symptoms (but we do not have enough samples to dig into that).

Analysis

We have 20 Genus of 128 reported with severely low numbers for what appear to be common Genus. What is actually surprising is that there are no consistent pattern of high values for any Genus, just low or normal. 

The treatment issue is how to increase these 20 Genus when most are not available as probiotics.

Downloads

PDF: genus

Excel:genus