/r/Microbiome

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Welcome to r/Microbiome :)

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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.

Wikipedia: microbiome


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/r/Microbiome

122,378 Subscribers

2

Severe bloating and gastro issues when I have probiotics?

Does this mean I shouldnt be consuming them or is it just an adjustment period?

1 Comment
2024/12/19
21:45 UTC

4

Non histamine raising probiotics

I have small leaky gut ndicators and high histamine. Which probiotics can I use to heal leaky gut that don’t cause histamine to rise?

1 Comment
2024/12/19
21:37 UTC

7

How do you nurture your oral micro biome?

I’m looking for suggestions to improve mouth microbiome after months of oral hygiene neglect. I have been working on my gut for an irritable bowel, but I can’t discount the role of the bugs in my mouth. Home remedies? Strains? Supplements? Do alcohol or salt rinses mess with it in a bad way?

10 Comments
2024/12/19
21:34 UTC

2

Weight gain

I am currently trying to gain weight and was wondering if their is anything that would help gear my stomach towards being more hungry or some type of bacteria for my gut that would increase my appetite?

4 Comments
2024/12/19
19:46 UTC

1

Need some advice

I got e coli early October. I had to do a round of antibiotics the last week in October. My stomach was really messed up and I went back and forth with bloating, cramping, feeling full for way too long, constipation, diarrhea and nausea. I decided to try to go to a naturopath, and the week leading up to the visit I was starting to feel a bit better, no more soft stools, just some constipation and some very mild cramps. I went on a Thursday and she gave me some supplements to help. Well fast forward to Monday morning, I'm waking up in the early hours to have soft stools and stomach pain that prevents me from sleeping. I'm on day 3 of ALL OF MY SYMPTOMS returning. I didn't take any of the supplements today and I'm getting that awful too full feeling again. What would you do?

2 Comments
2024/12/19
19:23 UTC

2

Kefir causing overgrowth?

I’m so lost that kefir isn’t helping me anymore. Back in 2021 I made multiple post about my problem and I was getting skinner by the day due to lack of food being ate because of reflux and my stomach always inflame.

Then I found out about kefir and day by day I got better and better and then back to my old self. I then stop taking it and started eating unhealthy, eating candy junk food, spicy food etc. and then 6 months ago my problems started to begin. Reflux, anxiety and slowly losing weight.

Now it’s starting to progress faster and I don’t know why? Even tried sauerkraut and kefir again with no help at all?

Do I have an overgrowth of some bacteria that kefir may have caused and that’s why fermented foods don’t work for me?

What probiotics can help with this? Cause I tried sbo probiotics with no help to my issue

13 Comments
2024/12/19
15:15 UTC

13

Lack of eating causing malnutrition

So I been doing a chicken and rice with chicken salad diet for 6 months due to reflux and my gut being wreck. I see a lot of people recommending fiber intake?

What do you mean by that? What foods are considering a lot of fiber? I eat oatmeal but that gives me reflux but I eat that due to me to at least something. Eggs I’m fine with, and meat. But fruits like blueberry’s strawberry’s give me reflux.

Also rice gives me reflux as well since I have a relax Les splinter. I haven’t tried beans or legumes because I’m afraid of gas and reflux. So I’m really lost at the moment as I only eat three things and slowly losing weight

35 Comments
2024/12/19
14:17 UTC

1

Help ?

Okay so for context I am 19 years old about 180 and a hypochondriac.

I have been having a problem with certain people (strangers) saying that they smell me when I don’t smell anything ? i wash daily brush teeth daily and wear perfume and deodorant. I’ve never smelled anything and neither has my family or friends. I’ve been to the doctor over 20 times about this over the last year. Honestly they have done nothing but tell me it’s all in my head and try to dope me up with ocd and anxiety meds. I honestly think it’s something much deeper but nobody hears me. Also I’ve had worries that I may have hiv or herpes and have never had a positive test. No sexual partner has ever said anything to me about a smell or a positive test. Also to add it seams like people have to take a shit when they come around me ??v

2 Comments
2024/12/19
12:32 UTC

3

Dealing neurological side effects while on antibiotics

I am experiencing a lot of neurological issues when taking my prescribed antibiotic course.

In June, I was prescribed Rifaximin (14 days) to treat post infectious gut issues following 2 months after the food poisoning episode. After my first day I couldn't sleep, brain fog, heart palpitations etc. It's hard to discontinue it after 4 days as I couldnt tolerate the neurological side effects.

These neurological issues haven't settled since then. I did a gut microbiome test in September and it reported that I was missing many beneficial bacterial strains like casei, paracasei, gasseri, reuteri, S.Boulardi yeast is also missing etc. I am unable to tolerate any probiotic supplements that I used to tolerate. It worsens the neuro symptoms. I tried to take these supplements for 3 weeks and no relief from symptoms. It only worsened the symptoms. I am unable to tolerate antibiotics, probiotics now. I am unable to tolerate fermented foods as I out of now where started to develop so much mucus causing breathing issues once I take yoghurt, Kefir etc even when introducing in very small quantities.

In the gut microbiome report, I found the bacterial composition of my gut was atypical, for instance it had higher level of Candida albicans and Candidia tropicalis and less short chain fatty acids producing bacteria. For example, Faecalibacterium prausnitzii is very very low.

I am not sure how to proceed now. Should I treat candida with antifungals first? Or should I address gut dysbiosis? How would you go about this situation? I really appreciate all your suggestions and personal experiences. I am out of ideas right now.

3 Comments
2024/12/19
07:16 UTC

4

Would anyone wanna complete my survey for my biomed class?

0 Comments
2024/12/19
04:31 UTC

1

Ferment lactose to SCFA?

Hypothetically, considering certain strains, yogurt/dairy ought to be able to be made practically sugarfree (no galactose/glucose) and carbfree (no lactic acid though yes technically not a carbohydrate) if the bacteria ferment the end substrate to scfa?

However, all lactobacillus and as per my knowledge, bifidobacterium ferment it to lactic acid?

Is there any strain I could use to produce scfa or acetic acid? (by my reasoning, if the end product is acetic acid, it potentially lowers calories?)

2 Comments
2024/12/19
01:22 UTC

3

What should I get tested for?(+an additional question)

I’m going to keep this short.

About a year ago I had to take 4 rounds of antibiotics (2 for h pylori and 2 for colds).

Since then my gut has been completely wrecked. I have to poop anywhere from 1 to 7 times a day and a lot of the times it’s yellow poop (which indicates something like a fat malabsorption or something like that?).

After a while of being in that state (5-6 months) with a wrecked gut, I started noticing that my hands were constantly shaking. I’m thinking that this is either from not absorbing some nutrients properly or maybe even hypothyroidism (I’ve also gained weight recently).

So what should I test for? I really don’t know which steps to take and who to listen to.

I’m working on improving my diet and adding more fiber in but any additional advice is appreciated.

And the additional question: are digestive enzymes useful in my situation? Are they worth trying? Can they have some negative effects if I wasn’t meant to take them?

Let me know, and thanks for your help ❤️

7 Comments
2024/12/19
01:03 UTC

1

Leaky gut

Is there anyone who healed from leaky gut?

1 Comment
2024/12/18
22:50 UTC

1

Tingling

Has anyone else experienced a mild tingling (more like a cobb web feeling) or know what this could be? It’s not painful but I get it everyday mostly in my upper back, upper arms and thighs. Seems to come on more after eating..I am not diabetic and recently got my thyroid checked too. Only diagnose I’ve ever had is microscopic colitis and gut dysbiosis.

1 Comment
2024/12/18
22:41 UTC

43

Anyone cure a food intolerance by healing microbiome?

How did you do it and what was the process with the specific food item? For example, if intolerant to dairy, did you cut it out completely and if so for how long? How did you reintroduce it?

47 Comments
2024/12/18
22:33 UTC

5

What does Diflucan do to the gut?

My question is, how does this medication impact the gut? I know it stops yeast but does it kill off bacteria inside? Enlighten me!

8 Comments
2024/12/18
22:26 UTC

1

Please help

So I started talking probiotics and then after 3 weeks I know have blurry vision and anxiety and feeling faint if I stand so long so idk what does that even mean like why do a probiotics supplement do this

3 Comments
2024/12/18
22:21 UTC

2

Has anyone had a bad reaction to an iron infusion?

I feel like this relapsed my Sibo but doctor says not possible - anyone had similar experience ?

1 Comment
2024/12/18
20:41 UTC

2

Candida issues still ongoing for 4 years time for fmt?? Ulcer in small bowel

The rashes have gotten better but still have painful rashes in my armpits and groin area last year the canddia would be triggered over any foods i ate it ate at anlittle bit of my hairline i just did a pill cam and it shows i have small ulcers in my small intestine which explains my hairr loss and hunger pains, all doctors will do im assuming is put my on pills like for chrons while the candida will go unaddressed my theory is candida is causing my ulcers gastritis acid reflux ext and all my problems im thinking of just doing the fmt at this point i have no done a gi map test as i know i have candida as all my issues started immediately after the antibiotics i took for 3 weeks if i do fmt and everything goes abck to normal i should heal? Has anyine been thru thus?

6 Comments
2024/12/18
18:13 UTC

2

digestive issues and nerve pain from microbiome imbalance (among other potential things); help requested

Hello reddit microbiome community,

I am in really rough shape regarding my digestive issues and associated nerve pain and my gastroenterologists seem to be at a loss, so I figured I would try turning here.

Long story somewhat short, in April 2024, I was finishing an eight week course of prednisone to help stabilize my Crohn's disease and concurrently took fist doxycycline and then bactrim to fight a klebsiella sinus infection. A week or so later, I started feeling pain in my lower back and right leg. Over the course of the next few months, this pain would grow and shrink and move between body parts including both legs (only one at a time), my lower back, my groin, buttocks, and to a lesser extent wrists and thumbs. It has now stabilized to almost exclusively affect my left leg and is to the point where I can barely get my shoes on and barely walk without taking something for the pain (I am a 33 y/o male so suddenly not being able to walk and being in constant pain radically affects my ability to participate in my life). Really bad digestion problems also followed which include large amount of gas, bloating, belching, blood in my stool, and alternating diarrhea and constipation. I have had Crohn's disease since I was 10 and have never experienced prolonged digestion issues as bad as these). This got so bad that it has severely impacted my life, has prevented me from any significant exercise (which contributes to mental health degradation), and has had cascading and significant side effects on stress, relationships, and my career (including playing a role in the loss of my high level job where I was doing important work towards helping the world). I have tried many many tests and treatments and have seen somewhere between 15 and 40 separate physicians (I am very grateful for good health insurance), all of whom have been largely unable to help me and are basically at a loss for what to do next.

It now seems clear that this is all manifesting via connected issues in the nervous system and gut and appears that my gut microbiome is seriously out of whack. I imagine that my gut mucosa is also significantly weakened (potentially from the prednisone) and that the combination of dysbiosis, "IBS", and weakened mucosa membranes is somehow giving me the nerve pain in my leg and lower back (I'm not sure if there's also a bloodstream/muscular aspect to this as well, as I have heard about potential mechanisms that might include this.)

I've been eating pretty well, but seem to find very minimal correlation between my diet and my symptoms. I haven't tried low fodmap or body ecology diets for a prolonged period yet, simply because they have been so difficult, but I am open to making that happen. When I try either for a few days, I really don't notice much of a difference.

I received some GI-MAP results, which I've attached. I would like to understand what is most concerning, what is most likely driving my symptoms and general lack of wellbeing, and what options I have for interventions or further measurement/diagnosis. What do you all think? I am happy to answer any other questions or provide more data that would help clarify the situation. It seems like I need to somehow heal my mucosa (likely in my colon due to observed symptoms) and balance my microbiome, but I don't really know where to start and could use all the help I can get.

https://preview.redd.it/u9fkdz6p4n7e1.png?width=1446&format=png&auto=webp&s=f18e0c9318e84c44e6d34cb902f3275904eaf374

https://preview.redd.it/caxdv17p4n7e1.png?width=1440&format=png&auto=webp&s=4e221b5fc1699a598a4992f040b67f1f0c16c750

https://preview.redd.it/uu5yuy6p4n7e1.png?width=1456&format=png&auto=webp&s=ec02ceaa60e9ec9aae7fd7b982f21f5749158613

1 Comment
2024/12/18
17:46 UTC

6

Gut destruction

Hey all, 23m

Been dealing with antibiotic induced gut dysbiosis for roughly half a year. Just finished an appt hoping to start some type of treatment, but was referred to a food allergist instead. In my mind I was either going to start Rifaximin or go the fecal transplant route, but now neither seem like Western Medicine options.

Anyone else in my boat?

23 Comments
2024/12/18
16:29 UTC

4

Berberine

Has anyone here taken berberine to treat their gut dysbiosis ? Heard it’s a good substitute for antibiotics. I don’t want to take antibiotics because I fear it will further fuck up my gut bacterias.

12 Comments
2024/12/18
14:32 UTC

5

Would slippery elm and aloe vera heal leaky gut in a 1 year old? Would collagen? How long would it take and should you take a probiotic during?

My one year old has eczema that is very itchy at night. I watched a Barbara O’Neill lecture that heralded slippery elm and aloe as a fix for babies and toddlers with leaky gut. Our pediatrician (MD) thinks baby has leaky gut and is recommending collagen powder as perhaps more effective but she isn’t against the slippery elm and aloe. The baby is exclusively breastfed.

I started giving baby the smallest dost of slippery elm three days ago (the adult dose was 4 capsules and we gave 1/2 of a capsule), and I noticed an almost immediate reduction in baby’s eczema and itchiness. It was like magic. I was shocked but unsure if this is only temporarily coating the gut or if it will actually heal it.

I had already cut corn, soy and dairy from my diet years ago and I’m now going to cut gluten and oats.

Any recommendations or insights would be greatly appreciated.

12 Comments
2024/12/18
11:45 UTC

3

Help needed with proposed probiotic protocol to restore gut health

I recently completed a lengthy course of antibiotics (over 60 days in total). Following this treatment, I began experiencing symptoms affecting my autonomic nervous system. Through my own research, I've found significant evidence supporting the connection between gut health and autonomic function through the gut-brain axis, suggesting that restoring gut flora could help improve these symptoms.

I've put together a comprehensive protocol combining probiotics and dietary modifications that I believe could help restore my gut health. Because my knowledge on gut health is still very limited I would greatly appreciate any thoughts on this approach. Below is a detailed outline of the protocol I'd like to propose:

PROPOSED PROBIOTIC PROTOCOL:

Phase 1: Introduction (Week 1) Florastor (S. boulardii) Dosage: One capsule daily Timing: Morning, empty stomach Purpose: Initial gut flora support with minimal risk of adverse reaction

Phase 2: Build-Up (Week 2) Continue Florastor Add VSL#3 (half packet) Space medications by 2 hours Monitor tolerance

Phase 3: VSL#3 Build-Up (Week 3) Continue Florastor Increase VSL#3 to full packet if tolerating well Continue spacing by 2 hours Monitor for any adverse reactions

Phase 4: Full Protocol (Week 4+) Florastor: Morning VSL#3 (full packet): Mid-morning Add Culturelle Pro Strength: Evening

RATIONALE:

Complementary mechanisms of action Research-supported strains Progressive introduction to monitor tolerance Comprehensive coverage for gut restoration

MONITORING:

GI symptom changes Tolerance assessment Adjustment of protocol as needed

DETAILED PROBIOTIC INFORMATION:

Florastor (Saccharomyces boulardii CNCM I-745) Classification: Probiotic yeast Dosage: 250mg per capsule CFU Count: 5 billion per capsule Key Features: Survives antibiotic therapy Extensively researched for gut restoration Supports gut barrier function Anti-inflammatory properties Well-documented safety profile

VSL#3 Classification: High-potency multi-strain bacterial probiotic Bacterial Strains: 8 different strains CFU Count: 450 billion per packet Specific Strains: Streptococcus thermophilus Bifidobacterium strains (3 types) Lactobacillus strains (4 types) Key Features: Medical-grade probiotic Extensively studied Supports gut barrier integrity Strong research backing

Culturelle Pro Strength Primary Strain: Lactobacillus rhamnosus GG (LGG) CFU Count: 20 billion Key Features: Most researched probiotic strain Proven immune support Excellent survival through GI tract Strong safety profile

COMPLEMENTARY DIETARY APPROACH:

Fermented Foods (introduced gradually): Sauerkraut (start with 1 tablespoon daily) Plain yogurt Fermented vegetables Kimchi (when stomach tolerates)

Prebiotic Foods: Well-cooked vegetables Sweet potatoes Rice cooked in bone broth Gentle fiber sources

Gut-Supporting Foods: Bone broth (high-quality, minimal ingredients) Ginger (if tolerated) Cooked carrots Well-cooked leafy greens

Dietary Introduction Schedule: Week 1: Bone broth and basic foods Week 2: Add small amounts of sauerkraut Week 3+: Gradually increase fermented foods as tolerated

4 Comments
2024/12/18
07:24 UTC

2

Why causes l glutamin anxiety, collagen not?

Hey guys ive noticed collagen doesnt cause anxiety but doesnt it contain also huge amount of glutamine?

4 Comments
2024/12/18
06:12 UTC

0

Leaky gut - Grass fed beef intestines?

Hey guys organs are super rich with nutritions, i wonder how effective are beef intestines? Read they are great for leaky gut, did they anyone help here?

6 Comments
2024/12/18
05:45 UTC

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