The following are bacteria that have very unusual statistical behaviors in uploaded samples. This hints that they may be connected to some disease or symptom state.
The common pattern seen with most bacteria is shown below. You can view each bacteria pattern by clicking on the chart icon after searching for a bacteria on https://microbiomeprescription.com/Library/Lookup
Preliminary evaluations have shown strong and accurate forecasting ability. I am working with a Ph.D. in Molecular Genetics and processing his microbiome sample the top forecasts were correct:
He was a male
He had no Health Issues
He was blood type O-positive
He snored
He woke up early
This was not from a blood sample, but from a stool sample. The methodology is described in my earlier posts.
The methodology is computing intensive. Unlike many contemporary artificial intelligence engines, it is easy to understand:
In the entire population(n:10,000), a bacteria like unclassified Clostridiales has 10% of samples reported this bacteria with a mean of 0.3%.
In the condition / sample population(n:1000) we find that 30% of the samples reported this bacteria with a mean of 4.8%
I used Chi2 to determine significance because significance using means assumes a normal distribution which is a false assumption.
With this methodology it is good to get some indication of what sample sizes for conditions / symptoms is needed (assuming the control is at least the same size). A quick plot informs us that 200 looks like a minimum size with 300+ being desired.
One of the labs that I work with reports percentile ranking on their reports. This makes doing an exploration economical (i.e. cheap). Testing of the symptom/condition group is only needed because the control numbers are gifted you.
This also illustrates that the symptom is not with just one taxa, but the influence of many taxa working in unison to influence the symptom (or be influenced by the condition).
Samples of Symptoms / Conditions
The ones with the most predictors are below.
Neurocognitive: Absent-mindedness or forgetfulness
Neurological: Impairment of concentration
Neurocognitive: Difficulty paying attention for a long period of time
Only two were significant and we have the importance of sample size apparent.
Symptom Name
Sample N
Forecast Variables
Blood Type: O Positive
284
295
Blood Type: A Positive
126
3
For Age:
Symptom Name
Sample N
Forecast Variables
Age: 60-70
206
143
Age: 0-10
98
42
Age: 50-60
164
33
Age: 20-30
152
12
Age: 30-40
369
11
Age: 40-50
244
8
For Gender
Symptom Name
Sample N
Forecast Variable
Gender: Female
415
214
Gender: Male
554
200
Bottom Line
From the individual forecast variables, we can compute odds of a match. Consider a simplistic example of three factors
Factor A uses 5%ile
Factor B uses 10%ile
Factor C uses 20%ile
With A,B,C all being true has a 99% chance of being a taxa match (1 – .05 * .1 * .2). This does not mean the person has it, it indicate a significant risk of having it (depending on other factors, DNA, age, gender etc).
Of course, the more forecasting variables, the better the estimate becomes and also the more tolerant the forecast is to variations in the microbiome.
Fungi and the microbiome finally got on my radar. Apologies to some, but there is a lot of different items on the microbiome radar screen.
“Small intestinal fungal overgrowth (SIFO)… Two recent studies showed that 26 % (24/94) and 25.3 % (38/150) of a series of patients with unexplained GI symptoms had SIFO. …. but evidence for eradication is lacking.”Small intestinal fungal overgrowth [2015]
As I did with taxa years ago, I will be writing a blog on each one reviewing the literature. If there is sufficient data at the end, I may add it as a feature to Microbiome Prescription.
One of my reader’s results motivated this choice. The data from a Thorne Microbiome Test. Almost 9 out of 10 people have less of it. The person also has a Crohn’s diagnosis.
Preventive for Fungi
The following are suggestions:
Reduce and keep your living space humidity at 50% or lower (typically done by dehumidifiers). EPA recommends 30-50% [EPA]; we set our dehumidifiers for 35%.
Fungi and the microbiome finally got on my radar. Apologies to some, but there is a lot of different items on the microbiome radar screen.
“Small intestinal fungal overgrowth (SIFO)… Two recent studies showed that 26 % (24/94) and 25.3 % (38/150) of a series of patients with unexplained GI symptoms had SIFO. …. but evidence for eradication is lacking.”
As I did with taxa years ago, I will be writing a blog on each one reviewing the literature. If there is sufficient data at the end, I may add it as a feature to Microbiome Prescription.
One of my reader’s results motivated this choice. The data from a Thorne Microbiome Test. 9 out of 10 has less of it. The person also has a Crohn’s diagnosis.
Reduce and keep your living space humidity at 50% or lower (typically done by dehumidifiers). EPA recommends 30-50% [EPA]; we set our dehumidifiers for 35%.
Fungi and the microbiome finally got on my radar. Apologies to some, but there is a lot of different items on the microbiome radar screen.
“Small intestinal fungal overgrowth (SIFO)… Two recent studies showed that 26 % (24/94) and 25.3 % (38/150) of a series of patients with unexplained GI symptoms had SIFO. …. but evidence for eradication is lacking.”Small intestinal fungal overgrowth [2015]
As I did with taxa years ago, I will be writing a blog on each one reviewing the literature. If there is sufficient data at the end, I may add it as a feature to Microbiome Prescription.
One of my reader’s results motivated this choice. The data from a Thorne Microbiome Test. Almost 9 out of 10 people have less of it. The person also has a Crohn’s diagnosis.
Preventive for Fungi
The following are suggestions:
Reduce and keep your living space humidity at 50% or lower (typically done by dehumidifiers). EPA recommends 30-50% [EPA]; we set our dehumidifiers for 35%.
“Basidiomycota is the second most species‐rich phylum of Fungi with nearly 32,000 described species” [2019]
Members of the Trichosporonaceae show a global distribution and have been recovered from a wide range of environments. Cutaneotrichosporon spp. are most frequently associated with a human host, and may represent opportunistic human pathogens. Trichosporon spp. form part of the natural microflora on human and animal skin and result in a non-serious mycosis of hair termed white piedra3. However, they have also been implicated in trichosporonosis, a collection of opportunistic infections caused by a number of species, including Trichosporon asahii, T. asteroides and T. ovoide
“Invasive Trichosporon infections are common in immunosuppressed patients, such as those with hematological malignancies. Unfortunately, invasive trichosporonosis can be difficult to diagnose and treat, and the global incidence is increasing”
“In cases of central nervous system infection, the predominant symptoms are headache, nausea, vomiting, and fever.”
“Trichosporonosis has also been documented to cause peritonitis, pacemaker lead endocarditis, and pneumonia. Other rare manifestations include sinusitis in an immunocompetent patient, fungemia, and urinary tract infection in patients with diabetes mellitus, and nosocomial infection in patients with severe burns”
Fungi and the microbiome finally got on my radar. Apologies to some, but there is a lot of different items on the microbiome radar screen.
“Small intestinal fungal overgrowth (SIFO)… Two recent studies showed that 26 % (24/94) and 25.3 % (38/150) of a series of patients with unexplained GI symptoms had SIFO. …. but evidence for eradication is lacking.”Small intestinal fungal overgrowth [2015]
As I did with taxa years ago, I will be writing a blog on each one reviewing the literature. If there is sufficient data at the end, I may add it as a feature to Microbiome Prescription.
One of my reader’s results motivated this choice. The data from a Thorne Microbiome Test. Almost 9 out of 10 people have less of it. The person also has a Crohn’s diagnosis.
Preventive for Fungi
The following are suggestions:
Reduce and keep your living space humidity at 50% or lower (typically done by dehumidifiers). EPA recommends 30-50% [EPA]; we set our dehumidifiers for 35%.
No information on disease in humans or other vertebrates could be located. One site implies it “few [Chytridiomycota] have any noticeable impact on humans, with the exception of a few that parasitize algae, cause potato wart (Synchytrium endoboticum), and those used in experimental research (e.g. Allomyces).” [Berkelely Univ] — unclear if this is the impact on food supply (potatoes) or humans.
Fungi and the microbiome finally got on my radar. Apologies to some, but there is a lot of different items on the microbiome radar screen.
“Small intestinal fungal overgrowth (SIFO)… Two recent studies showed that 26 % (24/94) and 25.3 % (38/150) of a series of patients with unexplained GI symptoms had SIFO. …. but evidence for eradication is lacking.”Small intestinal fungal overgrowth [2015]
As I did with taxa years ago, I will be writing a blog on each one reviewing the literature. If there is sufficient data at the end, I may add it as a feature to Microbiome Prescription.
One of my reader’s results motivated this choice. The data from a Thorne Microbiome Test. Unlike other fungi, no ranges are provided — implies that it is a rare fungi. The person also has a Crohn’s diagnosis.
Preventive for Fungi
The following are suggestions:
Reduce and keep your living space humidity at 50% or lower (typically done by dehumidifiers). EPA recommends 30-50% [EPA]; we set our dehumidifiers for 35%.
“This genus is also frequently involved in vertebrate infection.6,7 Although the conditions in host tissues of plants and animals are very different, nearly all 24 taxa that have been described to occur in human infections as real cases” [2019]
“Fusarium, a well-known plant pathogen, has emerged as an important cause of invasive or disseminated infection in immunocompromised patients. Fusarium species, which are considered as the second most frequent mold in fungal infection, cause a broad spectrum of infections including keratitis, onychomycosis, endophthalmitis, and skin infection….In the last few decades, as the number of people with diabetes increases, the case report of Fusarium infection associated with a diabetic patient is also increasing.” [2019]
Treatment
Garlic does not work for this fungi. It causes Fusarium Basal Rot on garlic (i.e. feeds off garlic)
Also seen on Tomato and lemon basis [src], potato, melons, sweet corn [src]
“Resistance has been observed for amphotericin B, itraconazole, fluconazole and echinocandins, but variable MIC results are recorded with the newer triazoles (posaconazole, voriconazole, and isavuconazole).”
Fungi and the microbiome finally got on my radar. Apologies to some, but there is a lot of different items on the microbiome radar screen.
“Small intestinal fungal overgrowth (SIFO)… Two recent studies showed that 26 % (24/94) and 25.3 % (38/150) of a series of patients with unexplained GI symptoms had SIFO. …. but evidence for eradication is lacking.”Small intestinal fungal overgrowth [2015]
As I did with taxa years ago, I will be writing a blog on each one reviewing the literature. If there is sufficient data at the end, I may add it as a feature to Microbiome Prescription.
One of my reader’s results motivated this choice. The data from a Thorne Microbiome Test. About 8 out of 10 people have less of it. The person also has a Crohn’s diagnosis (with SIBO and IBS earlier).
Preventive for Fungi
The following are suggestions:
Reduce and keep your living space humidity at 50% or lower (typically done by dehumidifiers). EPA recommends 30-50% [EPA]; we set our dehumidifiers for 35%.
Aspergillus is available as a supplement, wakamoto (jp) / strong wakamoto w, containing aspergillus oryzae. So care need to be taken to avoid this supplement for at least one week before testing. It also implies that some species may be beneficial.
Aspergillosis is an infection caused by Aspergillus, a common mold (a type of fungus) that lives indoors and outdoors. Most people breathe in Aspergillus spores every day without getting sick. However, people with weakened immune systems or lung diseases are at a higher risk of developing health problems due to Aspergillus. The types of health problems caused by Aspergillus include allergic reactions, lung infections, and infections in other organs.
Fungi and the microbiome finally got on my radar. Apologies to some, but there is a lot of different items on the microbiome radar screen.
“Small intestinal fungal overgrowth (SIFO)… Two recent studies showed that 26 % (24/94) and 25.3 % (38/150) of a series of patients with unexplained GI symptoms had SIFO. …. but evidence for eradication is lacking.”Small intestinal fungal overgrowth [2015]
As I did with taxa years ago, I will be writing a blog on each one reviewing the literature. If there is sufficient data at the end, I may add it as a feature to Microbiome Prescription.
One of my reader’s results motivated this choice. The data from a Thorne Microbiome Test. About 8 out of 10 people have less of it. The person also has a Crohn’s diagnosis (with SIBO and IBS earlier).
Preventive for Fungi
The following are suggestions:
Reduce and keep your living space humidity at 50% or lower (typically done by dehumidifiers). EPA recommends 30-50% [EPA]; we set our dehumidifiers for 35%.
There are only 24 studies on PubMed. It was first identified around 2010.
“The fungal component of the intestinal microbiota of eight healthy subjects was studied over 12 months using metagenome survey and culture-based approaches. …Other families of Ascomycota that reached remarkably high amounts in few samples were Debaryomycetaceae (mostly Debaryomyces)” Longitudinal Survey of Fungi in the Human Gut: ITS Profiling, Phenotyping, and Colonization [2019]
Our ability to drill down further is limited because the results only report at the family level and sparse literature. Itraconazole, an antifungal that is the top choice for other fungi reviewed appears to work.
Fungi and the microbiome finally got on my radar. Apologies to some, but there is a lot of different items on the microbiome radar screen.
“Small intestinal fungal overgrowth (SIFO)… Two recent studies showed that 26 % (24/94) and 25.3 % (38/150) of a series of patients with unexplained GI symptoms had SIFO. …. but evidence for eradication is lacking.”Small intestinal fungal overgrowth [2015]
As I did with taxa years ago, I will be writing a blog on each one reviewing the literature. If there is sufficient data at the end, I may add it as a feature to Microbiome Prescription.
One of my reader’s results motivated this choice. The data from a Thorne Microbiome Test. About 8 out of 10 people have less of it. The person also has a Crohn’s diagnosis (with SIBO and IBS earlier).
Preventive for Fungi
The following are suggestions:
Reduce and keep your living space humidity at 50% or lower (typically done by dehumidifiers). EPA recommends 30-50% [EPA]; we set our dehumidifiers for 35%.
I was unable to find any specific diseases / conditions associated with it.
Bottom Line
This is a fungi that I would take no action on because it does not appear to produce any clear harm. If you have other fungi of concern, the treatment of those will likely reduce this one. Some of it’s children are reported sensitive to Itraconazole.
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