/r/Microbiome
Welcome to r/Microbiome :)
Please make sure you are using the correct flair if applicable.
The Microbiome Reddit
Microbiome - an "ecological community of commensal, symbiotic and pathogenic microorganisms" found in and on all multicellular organisms studied to date from plants to animals. A microbiota includes bacteria, archaea, protists, fungi and viruses. Microbiota have been found to be crucial for immunologic, hormonal and metabolic homeostasis of their host. The synonymous term microbiome describes either the collective genomes of the microorganisms that reside in an environmental niche or the microorganisms themselves.
The microbiome and host emerged during evolution as a synergistic unit from epigenetics and genomic characteristics, sometimes collectively referred to as a holobiont.
Related Reddits
A multi-reddit of the following subs.
Outside Reddit Sites
Fantastic microbiome 101 podcast by Yale. Other parts in the series.
MostlyMicrobes.com - a collection of stories and resources about the microbes that influence our lives.
Wikipedia: Microbiome
Wikipedia: Human Microbiome
Wikipedia: Human Microbiome Project
You can use sci-hub to access paywalled studies.
/r/Microbiome
I’ve been having loose stools every morning for the past month and it’s turned into full on diarrhea over the past week. No other symptoms but I started taking probiotics yesterday to try and help my GI tract and then last night this bright white jelly string came out. It looks like a string of mucous but I’m not sure. Any idea what it is or what could be going on with my GI?
antibiotics really don't seem like the move
If it does, does it rebound?
I've read a lot about S. Boulardii being used to treat blastocystis and I'm curious to try it.
Has anyone tried it for 30 days? What dose and what was your result?
I've been tested for blastocystis twice (Aug 2023) and retested (Jan 2024), both came back positive. I tried allicin, uva ursi, Microb-X (made me worse twice, I had to stop), and Biocidin, digestive enzymes, plus probiotics HMF Intensive 500, Pure Encapsulations 50 billion, L Reuteri 2.5 billion, and L-Glutamine & Zinc Carnosine, along with a very restrictive diet cutting out meat, dairy, eggs, gluten, soy, sugar/sweeteners, vinegar, fermented foods, yeast and most processed food. So far, none of this has been enough to get rid of my likely blasto-related symptoms (or to get rid of the blastocystis).
I was told to try grapefruit seed extract, Noni/Morinda and Candibactin BR (metagenics) to eradicate the blastocystis, but I don't want to - my immune system seems much worse since I tried the previous treatments. I'm getting doubtful if any of these things will help, so I wanted to try JUST S. Boulardii for one month. My doctor thinks it isn't that effective, but so far her treatment hasn't cured the blasto either.
She did prescribe me S. Boulardii and told me to take 2 capsules a day (5 billion CFU each), which I did with the 50 billion CFU (1-2/day) but my symptoms got worse so I had to quit. I also found out she didn't prescribe me the right strain that was used in the studies, so I need to get that specific strain and try again with just the one strain, 5 billion/day.
I did the Genova GI Effects test in August 2023 and found out I had a 4+ overgrowth (potentially pathogenic) of Citrobacter Braakii, as well as the parasite blastocystis and candida overgrowth.
I've had a wide range of symptoms, including being nauseous/throwing up last summer (once every 2 weeks, for 6 weeks). My most stubborn symptom (that has essentially never shown improvement) over ~2 years has been severe bloating--which is the worst at night after a full day of eating (every meal makes it worse). My waist can gain around 5 inches just from bloating. Other symptoms include throat (lots of phlegm, gets sore/tired easily, which is chronic), occasional anxiety, eczema, dry skin, brain fog/worse memory. I used to have appetite issues (I'd feel better not eating), would lose weight easily (even if I was eating enough), insomnia, very low energy/fatigue, and way worse anxiety. Intermittent fasting helped my anxiety.
I was told to go on a very restrictive diet (already vegetarian, so: no eggs, dairy, gluten, sugar, sweeteners, soy, limited processed food, no vinegar, fermented foods and yeast) for months. I took CandidaStop (allicin), Uva ursi, MicrobX (made me sick twice - I had to stop) and Biocidin for the kill phase, plus digestive enzymes. Then HMF Intensive 500 bil CFU, Pure Encapsulations 50 billion, L-Glutamine and Zinc Carnosine. I noticed improvement after HMF 500; but it was short-lived because I got a bad flu and the progress stopped after that. My immune system has seemed much worse since I started the herbal remedies. I also take Vitamin D, B12, selenium, omega-3 and Vitamin C. Also take iodine topically (but not all the time). I'm currently on just Lactobacillus Reuteri (2.5 bil CFU) every 2 days, which I found out today also helps with citrobacter.
I got retested in January 2024 - still have blastocystis and 'yeast was still present' (although seemingly less) in the candida test. I'm also planning to take S. boulardii for 30 days to try to kill the blastocystis.
A lot of my symptoms are still remaining after this time and I'm getting very discouraged. My doctor is insistent that this diet is so important but I'm doubting it. She thinks blastocystis is causing the bloating. I wonder if it could be citrobacter. Either way, nothing I've done so far has helped.
I haven't been able to find any threads specifically on Citrobacter Braakii- even generally on the internet the info is pretty sparse, I just found it can cause bloating. Has anyone else had it and gotten rid of it? How did you do it? I'm not sure if the same treatments for the freundii/other strains apply to this one too.
Thank you in advance - hoping we can help each other
Just wondering if anyone here has ever been crazy enough to eat small amounts of heat treated dirt to see if they got any benefits from heat treated microbes. Essentially you could just make a couple pill size balls of dirt, bake them in the oven and take one a day for 30 days.
Which food/drink provides more prebiotic/probiotics than kefir, kimchi and Saurkrut?
Thank you
Recently went through a stressful event and decided to do all I could to deal with it. I had came across some suggestions including on this sub recommending this specific product. I had tried various multi-probiotics before and felt bad after taking them as well but thought since this had actual research it might work.
But as I got closer to finishing the 30 day supply, I felt worse and worse. I already deal with depression but I feel like these pills made it 10x worse. I don’t feel like “me”. I can’t imagine things the same way I normally do. My sex drive plummeted. I have an uneasy feeling almost the entire day and wake up constantly. While some of this could of course be due to normal stressors, the fact that I’ve gotten worse since starting them makes me feel it’s most likely the pills.
Anyway, I obviously won’t be buying them again but has anyone else experienced anything this drastic from taking probiotics? I’ve found a few people that have said similar things but not necessarily about this specific probiotic. Should I increase my acid intake to help rebalance things? I ready eat a fairly low FODMAP diet. Just want to feel normal again!
I can eat 2 full huge meals and still be hungry, like a black hole. What bacteria/fungi/parasite causes this?
Setting the gut up for success with sauerkraut.
39/F
I wake up 90% of the time and my stomach feels full and comfortable. I have thyroid issues and eat limited foods and it is still a problem. I know I was on antibiotics a lot when I was little.
I also have asthma, adhd, and bipolar and am on meds for all.
Recent colonoscopy and endoscopy - no h pylori no SIBO
For allergy or know intolerances or impacts my thyroid issues I don’t eat the following foods and for how long
Gluten - almost 20, Egg - over 15, Dairy - over 2 and my casein is still 150 on blood test, Soy - 1 year ish, Added sugars except honey and maple syrup- 1 year.
I think corn bothers me but end up having it sporadically.
I did the AIP diet last year for 3 months and still bloated. Not as much but.
I take megaspore probiotic, eat fermented carrots, glutamine, magnesium, vit d with K.
I still get bloated every day.
Help!
EDIT: I also do organic, no fried, no processed
Hi guys I've been suffering from h pylori for over a year.. main symptom is nausea constantly losing weight I wanted to try talicia but unfortunately its not available in my country What do I do now?can I get the meds separately (rifabutin amox and omeprazole)would it be as effective? Please answer guys I'm losing my mind!
I decided to start the seed symbiotic a few months ago (after getting some gi symptoms when I quit an ssri) and ever since my first few pills my gi tract and stomach has been in hell.
I’ve been at the end of my rope with burping 24/7, bloating, gerd, and nausea for the past few months. I lost 20 pounds bc I couldn’t eat. I threw up next to a riverside trail 😮💨It got so bad that I scheduled a gi appointment.
In prep For one of their tests, they had me go off my probiotics.. and I kid you not I’ve been feeling so much better. It was literally traumatic I thought I was dying lmao.
Seed symbiotic went in the trash. DAE know why this happened? Everyone is raving about it in the reviews.
I'm bored of taking crackers with doxycycline 50mg for acne treatment. I want to change, but I don't know which products to buy to eat because most products contain calcium, fiber and iron. I want you to help me tell me what you eat with doxycycline.
Please help
Hi everyone. 39F here. I've been experiencing a range of symptoms and I need some help figuring out what is causing this so I can get it treated.
Starting summer of last year, my feet started hurting in the morning (would go away quite quickly), and my stomach also started to gurgle more. Starting around fall/winter of last year, I would have random loose stools, same gurgling noises, gas/bloating, abdominal cramping. I also have joint and muscle pain all over (not debilitating). Tailbone pain that gets worse with sitting (sometimes very painful). About a month ago I caught the Flu A and had some diarrhea and also had mucus in my stool three times in a 2 week time frame. Of course this freaked me out. I feel like my bowel movements are more regular now, my stool doesn't necessarily seem thinner, but I do feel a little constipated (even though I am going everyday). Rib pain? Frequent urination. Feeling depressed/ anxiety. I'm feeling very worried about my symptoms.
Prior to this, the only major health issue I had was my postpartum preeclampsia following the birth of my baby #2 in the fall of 2022. I was on BP medication for about 6 months following the diagnosis, I weaned off slowly, I wouldn't say my BP is what is was prior to the preeclampsia, but it's not high enough to be medicated (on a good day is about 110s/70s or low 80s, bad days 130s/80s).
I have had recent blood tests and a stool test. I'm posting just the values that were low or high below (per my doctor or the report) as the post would get too long.
Reverse T3, Serum 21.8
Glucose 97
Creatinine 0.49
BUN/Creatinine Ratio 24
Tryglycerides 94
HDL Cholesterol 39
LDL Chol Calc (N1H) 115
Vitamin B12 >2000
Hemoglobin A1c 5.6
DHEA sulfate 317
Prolactin 2.5
Progesterone (Day 20) 0.4
Insulin 7.4
Ferritin 102
Stool sample results:
Akkermansia muciniphila was low (no value?)
Roseburia spp. was high (2.47e10 H)
Bacteriodetes was high (4.74e12 H)
Firmicutes was high (4.24e11 H)
Staphylococcus aureus High 7.04e2
Streptococcus spp. High 2.11e4
Secretory IgA 2038 H
Anti-gliadin IgA 250 H
Zonulin 222.3 H
Negative for H pylori
I have a colonoscopy/endoscopy, abdominal ultrasound, and rheumatologist appointment scheduled.
Any ideas what could be causing these symptoms?
I have prescribed 40mg of Vyvanse, which I take consistently on week/workdays. For the past 5 years, I have been on some dose of Vyvanse, and have been taking it consistently excluding weekends, summers, and when we were quarantined.
From personal experience and confirmation from Google, Vyvanse slows down digestion and causes bloating and gas issues, sometimes severely, sometimes not. I am new to the GutHealth and supplement world so I am not sure what parts of the gut it directly affects, and there also doesn't seem to be much specific/in-depth research on it.
Vyvanse has helped me a lot with my ADHD, especially academically, so quitting the medications is unfortunately not an option for me as a college student right now.
I am wondering if there are any specific supplements, foods, ingredients, diet, etc. I should eat or prioritize to combat the negative effects Vyvanse has on my gut health?
For the past 6 months, I have been pretty consistently taking Nuven Naturals gut health supplements, magnesium, turmeric, and Vitamin C. I have found the Nuven Natural supplements to be helpful, but I am wondering if there is anything else I should consider?
Also, it would be super helpful for others to share their experience with ADHD medications and gut health. Thanks so much.
Hello. I have gut issues. I was wondering if there is a test where I can give a stool sample only once and not 4 times.
I have received my ordered GI-MAP test kit but am wanting to make sure these results will be accurate since it costs so much to do. Should I avoid all alcohol and fermented foods or foods with bacteria like yogurt a week or two before collecting the sample? Or am I overthinking this and can just eat my regular diet?
Like nagging achy pain around the belly button to the left and right which hurts when pressed on?
After confirmation of OCD induction, rats that developed OCD- like behaviors were treated with L. casei Shirota (109 CFU/g, daily for 4 weeks) (group 1), fluoxetine (10 mg/kg, daily for 4 weeks) (group 2), combination of L. casei Shirota and fluoxetine (daily for 4 weeks) (group 3), and normal saline (positive control for OCD-like be- haviors). L. casei Shirota and fluoxetine were given by a standard gavage protocol (solved in 0.1 cc physiological saline) using curved metal animal feeding needles. The dose of fluoxetine was chosen based on the previous re- ports, in which 10 mg/kg/day of this drug was effective in ameliorating OCD-like behaviors in rats [23]. The probi- otic dose was also selected based on the previous reports [25]. Besides, a previous study on rats demonstrated that administration of 109 CFU/g of L. casei is able to form a healthier microbial population in the gastrointestinal tract and improve lipid profile [26].
it just says 10(9)cfu/g. is that 1bil per gram pf bodyweight?
Is it definitely proven that it could be causing this much pain? Lower achy nagging abdominal pain that hurts more when pressed on like its inflamed. All other tests came back normal apart from these two in a GI map, but I struggle to believe that it could cause that much pain if doctors can't find anything wrong.
Any help would be much appreciated.
Yesterday I tried probiotics for the first time. (Garden of Eden Once Daily) Yesterday felt completely fine. However this morning I woke up pretty groggy. Hard time getting out of bed and some brain fog. Kinda hung-over/daze feeling.. Doesn't seem to be going away with time/coffee.
I was perhaps expecting some gastrointestinal side effects, but not this hang over side effect. Wondering if I should continue taking them.. Will this go away in a few days? Or is this a bad sign that I should stop taking them?
Thanks a lot!
Had all scans like colonoscopy etc but my lower abdomen is so sore to touch all day everyday even if I don't eat. Only thing that has come back is possilbe leaky gut with high gut dysbiosis. Would it really cause it to be so achy and sore like this for 8 months? Running out of ideas :(
So I started having some gut issues when I came back from a 3 month trip abroad in Europe a couple years ago where I got some sort of stomach bug. I was super sick for 3 days and continued having stomach pain after eating a bigger meal for around 2 weeks. For months after I came back, I still was not back to normal, it’s also like my body had to adjust to the foods here again too which took some time. A biologist I spoke to told me how different the biome is in Europe from the states and it makes sense why I got sick, since it was my first time abroad. (It also was the day after I had raw salmon on sushi - dumb, I know. I’m not totally sure if it was food poisoning but my symptoms aligned more with a stomach virus)
Taking probiotics has helped me a lot, but I’ve never been 100% back to normal since, and when I take a couple days break from the probiotics I start having some issues again.
Since then I have had to take 2 rounds of antibiotics for two different reasons, but I made sure to take extra probiotics along with them to avoid any issues. I’ve also been South America and was scared of getting sick there but thankfully I didn’t. I eat relatively healthy, not as clean as I used to, but I make sure to eat probiotic foods semi frequently. Is there possibly a more permanent solution that is less expensive to heal my gut? Thanks in advance !
Edit: thank you for the replies. I should have mentioned how my symptoms flare up the most when I eat certain foods, particularly spicy food, when I used to be able to tolerate spice very well
Hi there, do you know where can I get the GI360 test in Europe? or in the UK? I found a couple of websites that sold it, but they looked quite dodgy... thank you
So, I got fissure a few months back out of nowhere. Nothing worked until I tried Kefir. Constipation gone and fissure was healing. But I tried stopping Kefir for awhile and bam! Constipation is back and after BM it's like hell, burning and pain. Has anyone else experienced it? Should I take kefir forever? Or is something else is going on?