If you leave your doctor’s office with a prescription for antibiotics, you may have very mixed feelings. Of course, you want to clear up an infection, but at what cost to the beneficial bacteria in your gut microbiome?
In the story of modern medicine, antibiotics play the role of both hero and villain. Few other drugs have saved so many lives. However, antibiotics also play a part in the growing epidemic of gut dysbiosis and the litany of chronic health conditions that result from poor gut health.
So, if you must take a course of antibiotics, probiotic supplements are a great way to combat negative side effects. Plus they have lots of other health benefits.
Yes, You SHOULD Take Probiotics and Antibiotics at the Same Time
- Taking probiotics and antibiotics together is more effective than taking antibiotics alone.
- Probiotics reduce antibiotic side effects, including antibiotic-associated diarrhea.
- Probiotics reduce the likelihood of C. difficile infections for patients on long-term antibiotic therapy.
Probiotics Make Antibiotics More Effective
Rather than canceling each other out, research shows that taking probiotics and antibiotics together is more effective than taking antibiotics alone.The most relevant study to show this effect is a systematic review of 20,215 patients with H[elicobacter] pylori infections [1]. Patients who took probiotics and antibiotics together had better results than patients who only took antibiotics. Lactobacillus acidophilus and Saccharomyces boulardii are the probiotic strains at the top of the list for effectiveness in these studies. But keep in mind that these two strains are among those most commonly used in research.
- One study of 40 patients with SIBO showed more than double the success rate for eradicating SIBO for those taking a combination of S. Boulardii and metronidazole (an antibiotic) when compared to those taking metronidazole alone.[2]
- Another study showed that a combination of probiotic and antibiotic therapy normalized glucose breath tests for 13 out of 15 patients with both SIBO and Crohn’s disease. [3]
Bottom line: Probiotic co-administration with antibiotics tends to enhance treatment results.
Probiotics Reduce Antibiotic Side Effects
Antibiotics work by killing harmful bacteria that cause infections. Most antibiotics are broad-spectrum, meaning they kill a lot of different types of bugs. This broad action makes them useful for a lot of different types of infections and it’s also why they end up killing good bacteria too.- Growth of pathogenic infections.
- A poorly modulated immune system.
- Inflammation.
Probiotics Correct Dysbiosis Caused by Antibiotics
A systematic review of 63 trials examined all the available research into probiotic use for dysbiosis [5]. In healthy subjects who experienced a disturbance in their microbiota after antibiotic use, 83 percent of subjects experienced recovery in their microbiota after taking probiotics.Probiotics Resolve Antibiotic-Associated Diarrhea

Antibiotic-associated diarrhea is one of the most common side effects of antibiotic therapy and is caused by the dysbiosis that impairs normal gut function and allows harmful bacteria to proliferate.
- Probiotics work well to prevent and treat antibiotic-associated diarrhea.
- All probiotic strains used in the studies were found to be effective, including Lacto-bifido blends, Saccharomyces boulardii, and Bacillus (soil-based) strains.
Clostridium Difficile Infections
Researchers also see promising results when probiotics are used for serious Clostridium difficile infections.C. difficile is a bacterial infection that is indeed “difficult” to deal with. It takes advantage of disruptions in the microbiota, grows quickly, and can be difficult to eradicate. C. difficile infections are typically found in hospital patients and those on long-term antibiotic therapy. C. difficile can lead to life-threatening diarrhea and inflammation of the colon.
Is There a Case Against Taking Probiotics with Antibiotics?
Recently, I’ve seen some internet articles that warn people against taking probiotics to help with recovery from antibiotic therapy. Where is this advice coming from?It turns out that there’s one study that questions the value of taking probiotics and antibiotics together [9]. In this study of 21 patients, eight patients received probiotic therapy, seven patients received no treatment, and six patients received a fecal transplant. Researchers found that probiotics were less effective for antibiotic recovery than no treatment at all (the fecal transplant brought near-complete recovery in a matter of days).
- A meta-analysis of 63 research trials shows that subjects had 48 percent less antibiotic-associated diarrhea after taking probiotics [10].
- A single study found probiotics to be less effective (for eight patients) than no treatment at all (for seven patients) [11].
Bottom line: Be careful about science-based claims you read on the internet. Marketers often cherry-pick studies to support their position.
The Best Way to Combine Probiotics With Antibiotics
I highly recommend taking probiotics with antibiotics. Here [are] some tips on how to get the most from your probiotic supplement when taking antibiotics.
Don’t Go Strain Shopping
It’s not necessary to find the one right probiotic strain for your specific health condition.That’s because all probiotics have a similar synergistic effect of balancing the gut microbiota, modulating the immune system, and reducing inflammation.
Choose a Quality Probiotic Formula
Quality assurance practices do matter. Probiotic manufacturing is not highly regulated and some label claims do not stand up to scrutiny. Consider the results of these investigations into probiotic quality:- One study assessed 26 commercial probiotics and found that none fully supported label claims. Some probiotic supplements contained unacceptable microorganisms [13].
- The same study found two common problems in probiotic supplements:
- Low concentration of viable cells.
- The presence of undesired (potentially harmful) organisms [13].
- Another study found only half of the probiotics examined had the specific strain listed on the label [14].
- 43 percent of the probiotics in another study contained less than half the amount of probiotic[s] listed on their labels [15].
Take Probiotics When it’s Convenient for You
Some would recommend taking probiotics at least two hours away from antibiotics to reduce any potential die-off. You can do this if you want, but if that makes your medication schedule too complicated, just take them together. You’re better off taking them together than not at all.For Maximum Effects, Try This Probiotic Protocol
The difference between success and failure with probiotics often comes down to either:- Establishing balance in your gut microbiome.
- Failing to establish balance in your gut microbiome.
Probiotic Triple Therapy
- Try a quality formula probiotic from each of the three probiotic categories—take all three together:
- Lacto-bifido blend.
- Saccharomyces boulardii.
- Soil-based probiotics.
- Monitor your symptoms for 3–4 weeks
- If you’re improving, stay on Probiotic Triple Therapy until your improvements have plateaued.
- Once you’ve seen your maximum improvement (you’ve plateaued), stay here for about a month to allow your gut and immune system to calibrate to these new improvements.
- Then reduce your dose and find the minimal effective dose. Stay on the minimal effective dose.
Maintain Your Supplement Schedule, Even if You Eat Probiotic Foods
One way to add probiotic bacteria to the gut is through diet. A number of fermented foods, such as kefir, kimchi, and lacto-fermented sauerkraut, in addition to many types of yogurt, are rich in probiotics. However, as you can see in this chart, it’s difficult to eat enough fermented foods to get a therapeutic dose.
◇ References:
- Clin Res Hepatol Gastroenterol. 2017 Sep;41(4):466-475. doi: 10.1016/j.clinre.2017.04.004. Epub 2017 May 25.
- Dig Dis Sci. 2019 Sep 23. doi: 10.1007/s10620-019-05830-0. [Epub ahead of print]
- Scand J Gastroenterol. 2015;50(11):1376-81. doi: 10.3109/00365521.2015.1050691. Epub 2015 May 19.
- Infect Control Hosp Epidemiol. 2018 Jul;39(7):771-781. doi: 10.1017/ice.2018.84. Epub 2018 Apr 26.
- BMJ Open. 2014 Aug 25;4(8):e005047. doi: 10.1136/bmjopen-2014-005047.
- JAMA. 2012 May 9;307(18):1959-69. doi: 10.1001/jama.2012.3507.
- Infect Control Hosp Epidemiol. 2018 Jul;39(7):771-781. doi: 10.1017/ice.2018.84. Epub 2018 Apr 26.
- J Pediatr Gastroenterol Nutr. 2016 Mar;62(3):495-506. doi: 10.1097/MPG.0000000000001081.
- Cell. 2018 Sep 6;174(6):1406-1423.e16. doi: 10.1016/j.cell.2018.08.047.
- JAMA. 2012 May 9;307(18):1959-69. doi: 10.1001/jama.2012.3507.
- Cell. 2018 Sep 6;174(6):1406-1423.e16. doi: 10.1016/j.cell.2018.08.047.
- JAMA. 2012 May 9;307(18):1959-69. doi: 10.1001/jama.2012.3507.
- Viktoria Yonkova Marinova, Iliyana Kirilova Rasheva, Yoana Krasimirova Kizheva, Yordanka Dimitrova Dermenzhieva & Petya Koitcheva Hristova (2019) Microbiological quality of probiotic dietary supplements, Biotechnology & Biotechnological Equipment, 33:1, 834-841, DOI: 10.1080/13102818.2019.1621208
- PLoS One. 2019 Mar 22;14(3):e0213841. doi: 10.1371/journal.pone.0213841. eCollection 2019.
- https://labdoor.com/rankings/probiotics
◇ Table Links:
- [1] https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6117398/
- [2] https://onlinelibrary.wiley.com/doi/abs/10.1111/j.1365-2621.1993.tb06096.x
- [3] https://www.ars.usda.gov/ARSUserFiles/60701000/Pickle%20Pubs/p411.pdf
- [4] https://www.olivemypickle.com/blogs/news/probiotics-in-our-pickles-microbiology-lab-verified
- [5] http://www.ifrj.upm.edu.my/26%20(02)%202019/(05).pdf
- [6] https://www.frontiersin.org/articles/10.3389/fmicb.2016.01493/full
- [7] https://www.researchgate.net/profile/James_Daily_III/publication/259880932_Health_





