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Category: human microbiome

Published on Leave a comment on Study Finds Eating A Diversity of Plant-Based Foods Best For Kidney Disease

What foods to avoid or to eat has long been debated in chronic kidney disease treatment. Traditionally, people with chronic kidney disease (CKD) have been advised to avoid a number of fruits and vegetables. In contrast, a recent study found that eating a diet dominant in a high variety of plant-based foods, is the best for chronic kidney disease.

Eating a diet dominant in plant-based foods with more than 30 different plant-based foods each week improved the gut microbiome (with an increase in beneficial health-promoting microbes), decreased symptoms, and reduced harmful toxins in the blood and urine. The best results were found in persons with worse kidney function (more advanced kidney disease)..

In contrast, during the study period when the same persons followed a low diversity of plant-foods in the diet (less than or no more than 15 different plant-based foods per week) they had a loss in gut microbial diversity (not good for health).

What is a diet dominant in a high variety of plant-based foods? This means eating many different types of plant-based foods each week, including a variety of fruits, vegetables, whole grains, nuts, and seeds. Fresh herbs also count - e.g., dill, parsley, cilantro, basil, chives. Some tips to getting over 30 plant-based foods: eat multi-grain cereals, trail mixes, nut mixtures, salads with a variety of ingredients, fruit bowls, multi-grain breads, and multi-grain or seed crackers.

From Medical Xpress: Plant-based diet trial boosts health for people living with kidney disease

New research from the University of Wollongong (UOW) has found that a diet rich in diverse plant foods can significantly benefit people living with chronic kidney disease (CKD). ...continue reading "Study Finds Eating A Diversity of Plant-Based Foods Best For Kidney Disease"

Published on Leave a comment on Dairy Foods Benefit Our Gut Microbes

It's good to eat and drink dairy foods! Consuming dairy foods is beneficial for the gut microbiome, but each dairy food - whether milk, cheese, or yogurt - appears to have  different effects on the composition of the gut microbiome (the community of bacteria, viruses, fungi).

A recent small study found that consuming higher amounts of dairy foods is beneficial for the gut microbiome, and resulted in a greater variety of bacterial species (this is considered good for health). There was more abundance of the beneficial bacteria Bifidobacterium, a bacteria associated with digestive health and immune support.

Consumption of milk was especially beneficial in boosting a variety of beneficial bacteria (Faecalibacterium) known for their anti-inflammatory properties.

Higher amounts of total dairy foods consumed was associated with lower levels of Bacteroides, which are linked to inflammatory conditions and colorectal cancer.

Excerpts from news-medical.net: Milk boosts gut-friendly bacteria while cheese alters microbiome balance, study reveals

In a recent study published in the journal Nutrients, researchers in the United States explored the influence of dairy consumption on colonic mucosa-associated gut microbiota. By investigating specific bacterial composition changes linked to dairy intake, they highlighted its implications for individual and public health. ...continue reading "Dairy Foods Benefit Our Gut Microbes"

Published on Leave a comment on A Juice Only Diet Is Not Good For the Gut Microbiome
Carrot juice Credit: Wikipedia

A few days of a juice only diet is viewed by many as healthy, and a good way to cleanse the body. But... a recent study found that this is not true for the gut microbiome (the community of fungi, bacteria, and viruses), which is so important to our health. A vegetable and fruit juice only diet, even if it's only for three days, is unhealthier than juice plus whole foods, or only whole-plant foods diet.

The juice only diet promoted the growth of bacterial species in the gut that are linked to gut permeability, inflammation, and cognitive decline. The juice only diet also resulted in changes in the saliva and cheek microbiota (microbiome), especially an increase in pro-inflammatory bacteria. The researchers thought these changes were due to the low fiber intake of the juice only diet.

This is because fiber feeds the beneficial bacteria (linked to good health) in the gut. Juices are low in fiber, but whole fruits and vegetables are high in fiber (as are whole grains, seeds, nuts, legumes).

Participants in the study were divide into 3 groups. Each group followed one diet (juice only, juice + food, or whole plant based foods only) for three days. Bacteria in the mouth (saliva and cheek swabs) and gut (through stool samples) were analyzed before, during, and after.

Before participants followed one of the 3 diets, they first followed an elimination diet for 3 days: organic fresh fruits, vegetables, gluten-free whole grains, eggs, and 8 glasses of water a day. No alcohol, caffeine, sugar, processed foods, dairy, red meat, and gluten (e.g., wheat, rye, barley, spelt). This diet also had beneficial changes in the gut microbiome with increased numbers of bacteria linked to good health, for example, an increase in the gut bacteria Faecalibacterium prausnitzii.

From Medical Xpress: Juicing may harm your health in just 3 days, study finds

Think your juice cleanse is making you healthier? A new Northwestern University study suggests it might be doing the opposite. The study, recently published in Nutrients, found that a vegetable and fruit juice-only diet—even for just three days—can trigger shifts in gut and oral bacteria linked to inflammation and cognitive decline. ...continue reading "A Juice Only Diet Is Not Good For the Gut Microbiome"

Published on Leave a comment on Lactobacillus Name Changes

A group of international researchers got together and proposed reclassifying all the Lactobacillus species into 25 different groups (genera) a few years ago.

This was done because the Lactobacillus group had gotten too large and diverse, with over 250 bacterial species in it. The proposed name changes were then adopted by the leading microbiology society, which is why scientists currently use both new and old bacterial names, or just one or the other.

One bacteria important for sinus health is L. sakei. Lactobacillus sakei has now been reclassified as Latilactobacillus sakei, but both terms are used in research and elsewhere. The abbreviation L. sakei stays the same.

Most of the common Lactobacillus species that are used in probiotics have a name change, but typically either name (new and old) is acceptable. What many companies do to avoid confusion is to just use the abbreviated name (e.g., L. sakei, L. rhamnosus, and L. casei).

Examples of name changes for commonly used probiotic species: Lactobacillus sakei is now Latilactobacillus sakei, Lactobacillus rhamnosus is now Lacticaseibacillus rhamnosus, Lactobacillus plantarum is now Lactiplantibacillus plantarum, Lactobacillus brevis is now Levilactobacillus brevis, Lactobacillus salivarius is now Ligilactobacillus salivarius, Lactobacillus fermentum is now Limosilactobacillus fermentum, and Lactobacillus reuteri is now Limosilactobacillus reuteri.

However, the names of some commonly used probiotic species stayed the same, such as Lactobacillus crispatus, Lactobacillus gasseri, and Lactobacillus johnsonii.

Excerpts from ISAPP (International Scientific Association for Probiotics and Prebiotics): New names for important probiotic Lactobacillus species

The genus Lactobacillus was listed as the fifth most important category of living organism to have influenced the planet throughout its evolutionary history in a 2009 book, What on Earth Evolved?. From their central role in food fermentations around the globe to their ability to benefit health in their human and animal hosts, species of Lactobacillus have great importance in our lives. ...continue reading "Lactobacillus Name Changes"

Published on Leave a comment on Looking at the Immune System in Chronic Sinusitis
L. sakei

There has been an exciting development in chronic sinusitis research and treatment using the beneficial bacteria Lactobacillus sakei (L. sakei), specifically with the probiotic powder Lanto Sinus. This recent study took a different approach to chronic sinusitis by looking at the immune system.

Researchers conducted a sinusitis study of individuals with chronic sinusitis, all who had undergone multiple sinus surgeries and were considered hard to treat (had continuing problems with sinusitis, thus refractory). The researchers found that using Lanto Sinus (with its specific strain of L. sakei Probio65) had very good results in treating many of the individuals.

Lanto Sinus probiotic powder

The treatments involved using Lanto Sinus (L. sakei proBio65) as a nasal rinse (1/4 teaspoon of Lanto Health powder in 2 tablespoons of normal saline nasal rinse) once a day and 1/4 teaspoon (240 mg) twice a day in food. This continued until they felt healthy. [IMPORTANT: Stop the use of L. sakei when feeling better.]

The researchers approached chronic sinusitis by looking at the immune system, specifically IL-12, a substance involved with immune system functioning. They found that IL-12 levels can be low in chronic sinusitis sufferers. Using L. sakei raises IL-12 levels, which they thought explained the positive results.

In other words, their thoughts are that microbial imbalances in chronic sinusitis could contribute to IL-12 signaling defects, and this results in low IL-12 levels. Which L. sakei can correct. 

How was IL-12 measured in the study? Blood was drawn from each person and a lab analysis was done - called a pSTAT4 phosphorylation assay (which measures immune health related to IL-12).

Next: Now the researchers are starting another study to further look into this. Stay tuned!

Abstract (summary) excerpts from medRxiv (for preprints), and now at National Library of Medicine: STAT4 Phosphorylation of T-helper Cells predicts surgical outcomes in Refractory Chronic Rhinosinusitis

Abstract

Objective: Chronic rhinosinusitis (CRS) impacts an estimated 5% to 15% of people worldwide, incurring significant economic healthcare burden. There is a urgent need for the discovery of predictive biomarkers to improve treatment strategies and outcomes for CRS patients. ...continue reading "Looking at the Immune System in Chronic Sinusitis"

Published on Leave a comment on Snot Transplants for Sinusitis?

There are 2 small studies that recently looked at the issue of snot transplants as a treatment for chronic sinusitis. The idea behind snot transplants or sinonasal microbiota transplants is similar to fecal transplants - it's a transplant containing the entire microbial community (fungi, bacteria, viruses) in the form of a sample of snot or nasal mucus from a healthy donor to a recipient with chronic sinusitis (sign of an unhealthy sinus microbiome).

This idea has huge potential as a treatment. The goal in a sinus snot transplant is to have the healthy donor's snot (the mucus) take over and change (engraftment) the recipient's unhealthy sinus microbiome. The hope is that this will restore a healthy sinus microbiome in the person with chronic sinusitis, resulting in sustained improvement in sinus health.

The results from the studies are definitely encouraging, but also a bit mixed. For example, there was sustained improvement (up to 180 days) in 2 out of 3 patients in the 2024 study, but why not the third person? Also, illness may appear in the recipient of the transplant (see patient narratives in the first study). Also, why did some people drop out after the first snot transplant in the 2022 study? In both small studies, most of the the healthy donors were the recipient's spouse or a close friend.

The one concern that everyone has is of the possibility of some unknown disease being transferred from the donor to the recipient. [Note: Post about the Swedish study before it started]

Excerpts from Dec. 2022 Allergy and Rhinology: Upper airway microbiome transplantation for patients with chronic rhinosinusitis

The study, involving patients with CRSsNP, was of an open pre-post interventional design and involved 13 days of antibiotics (amoxicillin/clavulanate 875 mg/125 mg three times daily or, in case of penicillin-allergy, clarithromycin 500 mg two times daily) followed by five daily upper airway microbiome transplants.....All patients had over several years (i.e., far longer than the time span of this study) failed repeatedly on medical therapy and had undergone endoscopic sinus surgery (ESS) with a minimum of bilateral middle meatus antrostomies/ethmoidectomies

3.1 Patient narratives and adverse events Three patients opted not to participate further after visit 1 (V1). The remaining 22 patients completed the trial. Eighteen reported airway symptoms such as cough, sore throat, blocked or runny nose, or common cold-like symptoms during or soon after the transplant procedure. Seven indicated gastrointestinal problems, mainly diarrhea. One patient developed acute purulent rhinosinusitis and pneumonia 34 days after the last transplant. One patient developed a urinary tract infection, and one was diagnosed with diabetes type 2 (2 weeks before V8). One patient developed fever and cough during, and one experienced sinusitis-like symptoms 5 days after the transplant series. The latter two incidents were considered potentially caused by the microbiome transplant series. ...continue reading "Snot Transplants for Sinusitis?"

Published on Leave a comment on Bacteria In The Kidney Microbiome Can Prevent Or Promote Kidney Stones
Kidney stones Credit: Wikipedia

Finally, a study was done examining whether the kidneys have a microbiome (community of fungi, viruses, and bacteria). The answer is yes, the kidneys have a microbiome and the composition of the microbes plays a role in kidney health and whether a person develops kidney stones or not. This makes sense - all our other organs have microbiomes.

This multi-part study showed that the urinary tract is not sterile, and that low levels of bacteria are normal. Additionally, they found that the presence of the beneficial bacteria L. crispatus is found in the absence of kidney stones, while E.coli is associated with the development of kidney stones. (Interestingly, L. crispatus is also found in the healthy vagina and can treat bacterial vaginosis.) 

The researchers found that the L. crispatus somehow blocked E.coli's ability to form kidney stones.

Antibiotic use was associated with bacteria that promoted the development of kidney stones because antibiotics kill off Lactobacillus species and promote the growth of kidney stone forming species (e.g., E. coli). Other studies also find that bacteria such as E.coli (as well as Proteus and Klebsiella) are frequently associated with UTIs, kidney stone formation, and kidney infection (pyelonephritis). 

From Medical Xpress: First full characterization of kidney microbiome unlocks potential to prevent kidney stones

Cleveland Clinic researchers have found definitive proof of a kidney microbiome that influences renal health and kidney stone formation, demonstrating that the urinary tract is not sterile and low levels of bacteria are normal. ...continue reading "Bacteria In The Kidney Microbiome Can Prevent Or Promote Kidney Stones"

Published on Leave a comment on Health Benefits of Maple Syrup
Maple syrup Credit: Wikipedia

For those with a sweet tooth, maple syrup appears to be a healthier choice than sugar. A recent study found a number of health benefits in individuals who consumed some maple syrup daily in place of refined sugar.

Canadian researchers found that replacing just 2 tablespoons of refined sugars with 2  tablespoons of maple sugar daily for 8 weeks had significant beneficial health effects. Regular ingestion of maple syrup resulted in their bodies handling sugar after meals better (improved glycemic response), their blood pressure was significantly lower, their abdominal fat was reduced, an increase in beneficial gut species (bacteria linked with health), and a decrease in some gut bacterial species linked to inflammation and metabolic disorders.

In other words, there was a significant reduction in key cardiometabolic risk factors. By the way, similar results have been found in animal studies. This could be because maple syrup is a minimally processed sweetener rich in a number of beneficial nutrients and polyphenols. It's just boiled maple tree sap, with nothing added.

What made this study convincing was that persons were randomized to different groups (maple sugar or placebo), it was double-blind (no one knew what they were ingesting), and it it was a crossover study (meaning all participants were in both groups for 8 weeks with a gap in the middle). All participants were overweight adults with mild cardiometabolic alterations at the start of the study.

From SciTechDaily: Reducing Abdominal Fat: Researchers Uncover Surprising Health Benefits of Maple Syrup

A study published in The Journal of Nutrition reveals that replacing refined sugars with two tablespoons of maple syrup can significantly improve several cardiometabolic risk factors, such as blood sugar levels, blood pressure, and abdominal fat composition. This was the first placebo-controlled human clinical trial exploring the potential health benefits of maple syrup consumption. ...continue reading "Health Benefits of Maple Syrup"

Published on Leave a comment on Coffee Drinking Alters the Gut Microbiome
Cup of coffee Credit: Wikipedia

Drinking moderate amounts of coffee each day is associated with a number of health benefits. It turns out that the coffee is also feeding a particular strain of gut microbe - Lawsonibacter asaccharolyticus. 

Researchers found that more people who drink coffee daily have Lawsonibacter asaccharolyticus in their gut microbiome (the community of microbes, bacteria, and viruses that live in the intestines) than people who don't drink coffee. Additionally, the more a person drinks coffee daily, the higher the levels of the bacteria.

Newborns and children rarely have this bacteria in their gut microbiome. The bacteria is mainly found in adults living in places with an urbanized Western-lifestyle. Further research showed that the coffee stimulates the growth of L. asaccharolyticus.

By the way, it appears to be a beneficial bacteria. And yes, many other studies find that what you eat (your daily diet) influences the composition of microbes living in the gut.

From Newsweek: What Coffee Does To Your Gut

Coffee drinking seems to alter which microorganisms live in our guts, with potentially far-reaching implications for health, a large study has found.
...continue reading "Coffee Drinking Alters the Gut Microbiome"

Published on Leave a comment on A Promising Antibiotic For Gum Disease

The bacteria Fusobacterium nucleatum is prevalent in periodontal disease (gum disease), but also in some chronic diseases and cancers, such as colorectal cancer. The bacteria F. nucleatum is normally found in the mouth (oral) microbiome, and its numbers increase as periodontal disease inflammation increases.

It is thought that sometimes the bacteria leaves the mouth and travels to other parts of the body, where it can promote cancer and other diseases.

A recent study found that the antibiotic FP 100 (Hygromycin A) totally eliminates the F. nucleatum bacteria in the mouth, and without causing harm to the mouth microbiome or gut microbiome. This is because it is a narrow spectrum antibiotic - only targets the harmful bacteria, and not all (both good and harmful) bacteria. While the study was only done in mice, this is promising and welcome news.

Eliminating the harmful bacteria in the mouth would potentially prevent some chronic diseases and cancers. Now we need further studies to see if this finding holds up in humans.

From Medical Xpress: First narrow-spectrum antibiotic successfully eliminates  Fusobacterium nucleatum, a gum disease pathogen

In a study published in the Journal of Oral Microbiology, ADA Forsyth scientists found that FP 100 (Hygromycin A), a first-in-class, small molecule, narrow-spectrum antibiotic, successfully eradicates Fusobacterium nucleatum without harming the oral or gut microbiomes. ...continue reading "A Promising Antibiotic For Gum Disease"