I have had a few emails asking if I am over-flagging these issues on MicrobiomePrescription.

I used Perplexity.AI to get some numbers…. here is what was reported (with references to sources). Given the typical reasons that people get microbiome samples, the rates appear reasonable.

1. The National Institute of Health (NIH) statistics indicate that biofilm formation is present in about 65% of all bacterial infections and approximately 80% of all chronic infections.
2. In the context of human health, biofilms are responsible for about 80% of bacterial infections

https://www.perplexity.ai/search/what-percentage-of-microbiome-fLRJ2SghTLCSWDdlo2AGKw#0

1. D-lactic acidosis is considered rare in humans overall, but it may be underdiagnosed. Some experts suggest it should be looked for more often in cases of unexplained metabolic acidosis.
2. It is most commonly associated with short bowel syndrome (SBS). The incidence of SBS is estimated at approximately 2 persons per million per year. While not all SBS patients develop D-lactic acidosis, they are at higher risk.
3. In patients with short bowel syndrome, D-lactic acidosis appears to be a relatively frequent complication. One study found that all 29 SBS patients examined had experienced neurologic symptoms associated with D-lactic acidosis at some point
   [NOTE: SBS have a very high incidence of SIBO [src], so SIBO likely have an increased risk of d-lactic].

https://www.perplexity.ai/search/what-percentage-of-microbiome-fLRJ2SghTLCSWDdlo2AGKw#1

• Histamine intolerance is estimated to affect approximately 1-3% of the general population. However, some experts suggest this number could be higher as the condition is often underdiagnosed.
• Among people with digestive symptoms or conditions like IBS, IBD, and Crohn’s disease, a surprisingly high 30-55% may have histamine intolerance.
• One study found that diamine oxidase (DAO) deficiency, which is associated with histamine intolerance, was present in up to 44% of the control population.
• A more dramatic estimate suggests that histamine intolerance may affect 50-60% of the population, according to one source. However, this figure seems significantly higher than other estimates and may need further verification.
• In people with digestive symptoms, one study showed that 30-55% also have histamine intolerance.
• https://www.perplexity.ai/search/what-percentage-of-microbiome-fLRJ2SghTLCSWDdlo2AGKw#2

A reader asked, Which genus should I give highest priority in general?

This is an easy answer using the Conditions populated from studies on the US National Library of Medicine on 127 different conditions. The results are below for those that are seen in at least 10% of conditions.

Below that is a table showing the direction of shifts.

Taxa Name	Percentage Of Conditions with Shifts
Bifidobacterium	55
Prevotella	54
Bacteroides	52
Faecalibacterium	51
Lactobacillus	47
Blautia	44
Ruminococcus	43
Streptococcus	41
Roseburia	40
Escherichia	40
Clostridium	38
Parabacteroides	37
Coprococcus	34
Alistipes	33
Eubacterium	31
Shigella	31
Veillonella	30
Akkermansia	29
Fusobacterium	27
Dorea	27
Enterococcus	27
Anaerostipes	26
Dialister	25
Collinsella	25
Haemophilus	25
Klebsiella	25
Odoribacter	25
Megamonas	23
Bilophila	22
Desulfovibrio	22
Subdoligranulum	22
Lachnospira	21
Turicibacter	21
Phascolarctobacterium	20
Eggerthella	20
Enterobacter	20
Butyricicoccus	18
Oscillibacter	18
Porphyromonas	18
Megasphaera	17
Lachnoclostridium	16
Sutterella	16
Staphylococcus	16
Butyricimonas	16
Actinomyces	16
Oscillospira	15
Romboutsia	14
Parasutterella	14
Barnesiella	14
Campylobacter	14
Anaerotruncus	14
Paraprevotella	14
Methanobrevibacter	14
Catenibacterium	13
Butyrivibrio	13
Flavonifractor	13
Citrobacter	13
Coprobacillus	12
Adlercreutzia	12
Parvimonas	12
Rothia	12
Pseudomonas	12
Acidaminococcus	11
Fusicatenibacter	11
Gemella	11
Corynebacterium	11
Agathobacter	11
Ruminiclostridium	11
Lactococcus	11
Weissella	11
Slackia	10
Alloprevotella	10
Eisenbergiella	10

Direction Of Shifts for each bacteria

For some it is balanced, for others only one direction is significant.

• “H” means that this genus for medical conditions are abnormally high for people with a condition
• “L” means that this genus for medical conditions are abnormally low for people with a condition
• NOTE: For some conditions, both High and Low are reported, i.e. the population of this genus becomes abnormal. For details see: https://microbiomeprescription.com/Library/PubMed
  

Taxa Name	Direction of shift	Percentage
Actinomyces	H	13
Agathobacter	L	8
Akkermansia	H	21
Akkermansia	L	15
Alistipes	H	20
Alistipes	L	21
Anaerostipes	H	11
Anaerostipes	L	17
Anaerotruncus	H	11
Bacteroides	H	37
Bacteroides	L	37
Barnesiella	L	9
Bifidobacterium	H	32
Bifidobacterium	L	43
Bilophila	H	14
Bilophila	L	9
Blautia	H	28
Blautia	L	27
Butyricicoccus	L	16
Butyricimonas	H	8
Butyricimonas	L	10
Butyrivibrio	L	11
Campylobacter	H	13
Catenibacterium	H	8
Citrobacter	H	10
Clostridium	H	25
Clostridium	L	20
Collinsella	H	18
Collinsella	L	12
Coprobacillus	H	10
Coprococcus	H	15
Coprococcus	L	28
Corynebacterium	H	8
Desulfovibrio	H	18
Dialister	H	11
Dialister	L	18
Dorea	H	18
Dorea	L	15
Eggerthella	H	17
Enterobacter	H	14
Enterococcus	H	21
Enterococcus	L	13
Escherichia	H	37
Eubacterium	H	12
Eubacterium	L	26
Faecalibacterium	H	18
Faecalibacterium	L	44
Flavonifractor	H	12
Fusobacterium	H	22
Gordonibacter	H	8
Haemophilus	H	13
Haemophilus	L	15
Klebsiella	H	23
Lachnoclostridium	H	12
Lachnospira	L	14
Lactobacillus	H	28
Lactobacillus	L	31
Megamonas	H	14
Megamonas	L	14
Megasphaera	H	13
Methanobrevibacter	H	13
Neisseria	H	8
Odoribacter	H	17
Odoribacter	L	12
Oscillibacter	H	14
Oscillospira	H	11
Parabacteroides	H	29
Parabacteroides	L	16
Paraprevotella	H	8
Paraprevotella	L	8
Parasutterella	L	11
Parvimonas	H	8
Phascolarctobacterium	H	13
Phascolarctobacterium	L	13
Porphyromonas	H	14
Prevotella	H	40
Prevotella	L	36
Pseudomonas	H	9
Romboutsia	L	11
Roseburia	H	13
Roseburia	L	34
Rothia	H	11
Ruminococcus	H	27
Ruminococcus	L	25
Shigella	H	30
Staphylococcus	H	14
Streptococcus	H	36
Streptococcus	L	14
Subdoligranulum	H	11
Subdoligranulum	L	15
Sutterella	H	11
Sutterella	L	8
Turicibacter	H	11
Turicibacter	L	14
Veillonella	H	21
Veillonella	L	12