The Missing Piece to the Probiotic Healing Puzzle

by lydia on March 15, 2013

Those of you who have learned of the importance of probiotics have likely embraced finding a high quality probiotic or started fermenting foods in order to ‘repopluate’ your gut. By now, we should all have at least heard that after a round of antibiotics we need to ‘repopulate’ the beneficial bacteria that was wiped out during the course.

Antibiotics are indiscriminate and will take both the good and the bad. That’s why so many of us today are lacking in healthy gut flora. There are plenty of other reasons as well, suffice it to say that many people do not often get the results they are hoping for from taking probiotics.

Transient Probiotics Don’t Hang Around

From what I have learned, the majority of probiotics on the market are transient in nature. That means they go into the body, do their job and leave with the stool, and can even be seen in a stool sample. These native probiotics also don’t all survive stomach acid (that is if you actually have good stomach acid).

Transient microbes come through dietary sources, and some through soil, air and water supply.  The transient forms of probiotics are the ones we are all most familiar with, such as the Lactobacilli family and the Bifidum or Bifidobacteria family.

Also, saccharomyces boulardii (which is found in milk, water kefir and kombucha). In other words, they do not actually work to ‘repopulate’ the gut like many of us have thought. They still serve a great purpose for our health, but understanding this piece may help you understand why you may not be healing like you thought you should be.

Enter Native strains of probiotics……Native probiotics on the other hand actually work to STAY in the body, they do not leave with the stool. These are the major league players in our guts. Native probiotics come from the environment. Most of us no longer have our hands in the dirt, or even healthy dirt for that matter. We don’t even accidentally eat a peck of good dirt in our asceptic worlds anymore. So, it’s rare any of us are getting these native strains such as Bacteriodes, streptococus and enterococus through our current probiotics. (Go ahead get out your bottle and look on the label.)

Native (the major league players in our gut) probiotics can be taken in lower doses.They can also work to Missing Puzzle Piece bring about rapid changes in the gut terrain, and can cause discomfort if you take too much at once. They can have a detoxifying effect on the body. It’s best to start with small doses increase slowly. This is the missing piece to the probiotic healing puzzle.

My experience with soil based probiotics (specifically, Prescript Assist) has been a very good one. I’ve spent the last year working with Prescript Assist when I could afford it. My digestion has only improved since taking it and when I went off it after only one bottle my gut health was ‘off’ a bit. I started back up with more and things ironed out again. I’ve recommended Prescript Assist to most all of my clients and it has made some marked improvements in many. Including a client with severe colitis, who has now recovered.


Prescript Assist

Prescript Assist is a 100% native, prebiotic & probiotic (only one out there like this that I know of). It’s a broad spectrum probiotic that contains more than 29 soil-based, pH-resistant micro-flora (SBOs that may be found in a healthy GI track) -with proprietary humic and fulvic acid prebiotic complex, to help the body in addressing GI track and other disorders (such as IBS and Crohns).
To start supplemeting with Prescript Assist, start on  a quarter to half a capsule once per day. Wait 3 days to see if there is any reaction. Then add 1, then 2 per day in divided doses. This probiotic is also in a base of carbon which is a bowel detoxifier. If you are working to heal leaky gut, or have been on antibiotics, I’d highly recommend getting some Prescript Assist.

Once you get through at least one bottle of taking it daily, you can simply take 1-2 capsules per week rather than daily. I’ve had some clients take 2 per day for many months because they had more severe health conditions. Some people may find even greater therapeutic doses to be of benefit to them. Everyone will be different. Prescript Assist is a great probiotic option for those with SIBO since it does not contain D-Lactate. Speak with your practitioner about using it for SIBO.



Prescript Assist has been a key player in my health journey. Since I struggle with an autoimmune disease, we must first focus on healing my gut, in order to get everything else under control. While I try to eat fermented foods, I know that I don’t consume enough, so I do have to supplement. I feel that since I started taking PA, my digestive problems have begun to correct themselves. I have less gas and bloating, and better BMs. OVerall, I feel that my gut is slowly getting better and PA has been key in helping that. ~ Jessica, Delicious Obsessions (read more of her healing journey here).

Prescript Assist has made noticeable changes in my inner ecology, for the better. I’ve noticed better bowels and consistency as well. ~Melanie Christner of

Lydia advised me to begin using Prescript Assist to help heal from bone surgery a few months ago. Not only did it provide almost immediate improvement in my speed of healing but I noticed that my constipation was relieved as long as I took it! I ran out at one point and was disappointed to see my constipation return very quickly. Now after several months of taking it I am able to decrease my dose and maintain the same benefits. I have taken many probiotics over the years and this is one of the few that has given me marked improvement. I highly recommend giving Prescript Assist a try!  -Patty L. (read this post about Patty’s healing journey).

I started taking Prescript Assist to help heal ulcerative colitis (UC). While a probiotic/prebiotic alone will not cure UC, a healthy gut is imperative to long term colon health. I started with one pill daily working up to my maintenance dose of 4 pills. In just one month’s time, I was passing much less blood in my stool. What was once a multi-daily occurrence was almost non-existent within a month. In addition, I was experiencing less pain and cramping from the UC. At that point, I had done nothing different other than add Prescript Assist to my nutritional recovery program. Prescript Assist is truly an amazing Probiotic/Prebiotic blend that I cannot recommend more highly. ~ Jennifer, Hybrid Rasta Mama (read this post about Jennifer’s healing journey and experience with Prescript Assist).

 Additional Reading

I recently noticed that Chris Kresser was recommending Prescript Assist (check out this podcast) by reading this article from Paleo Mom. Also, below are a few sources that may be of interest if you want see some clinical articles on the use of Prescript Assist. I know I’m sold on my own experience and the wonderful results I’ve watched numerous clients receive. It’s a major game changer probiotic worth adding to your current probiotic regime.

Prescript-Assist probiotic-prebiotic treatment for irritable bowel syndrome: a methodologically oriented, 2-week, randomized, placebo-controlled, double-blind clinical study. Bittner AC, Croffut RM, Stranahan MC.


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Starlene @ GAPS Diet Journey March 15, 2013 at 10:25 pm

I’ve never tried commercial probiotics before, sticking with sauerkraut and other ferments. Lydia, do you know how long one bottle lasts at the dose you are suggesting? I mean, if I was able to do exactly as you suggest and worked up to 2 capsules in a short amount of time, how long would the bottle last. Thanks. The instructions you give make it sound so easy!

lydia March 16, 2013 at 7:30 am

If you started at 1/4 capsule for 4 days, then 1/2 for 4 days, then 3/4 for 4 days, then 1 for 4 days, then do that whole rotation again added to the 1 capsule daily to get to 2 capsules – 1 bottle would last you about 2 months. After that though 1 bottle would last you about 45 days.

Alexandra March 16, 2013 at 10:11 am

Helpful post. I’m going to try this stuff.
A quick Google search shows that you can find it for considerably less money for the same size 60 capsule bottle than your link to Amazon shows it’s selling for.
Thanks for this post!

lydia March 16, 2013 at 10:26 am

You’re welcome! The link I put in is for a 90 capsule bottle, and I’m pretty sure shipping is free.

Leslie March 23, 2013 at 10:28 am

How does Prescript-Assist compare to Bio-Kult?

lydia March 23, 2013 at 11:55 am


BioKult has very little native strain of probiotic in the mix, it’s mostly transient in nature. (plus I think it may have corn in it). Prescript Assist is completely allergen free.

Leslie March 23, 2013 at 3:03 pm

Thanks, Lydia. I know Bio-Kult is what Dr. Natasha recommends when you’re on the GAPS diet. Wonder if Prescript-Assist is too “strong” while going through the GAPS protocol?

lydia March 23, 2013 at 6:03 pm

I don’t think so. Just start really slowly – and if you feel uncomfortable back off or down or take a break. Start back up when things abate. The initial period of getting adjusted to them is the issue.

Tracy April 3, 2013 at 10:43 am

Lydia, is this ok to take if I’m trying to kill off SIBO bacteria?

lydia April 3, 2013 at 1:08 pm

Absolutely Tracy! I think it would be hugely beneficial!

Lydia April 13, 2013 at 2:50 am

Fascinating! I was given high doses of antibiotics when I had my son almost a year and a half ago. I took probiotics afterwards but have a feeling that wasn’t enough to get me back to normal. I also have a wheat allergy and suspect the possibility of celiac though have not been diagnosed. All that to say, I know I have some digestive work to do. My question though is for my son. He has started to develop eczema over the past few months and I think it is likely related to my own digestive health and the antibiotics I was given (he is breastfed). I am looking for every possible answer to help him and believe that probiotics may be a part of the puzzle for him. Would this probiotic be suitable for a 1 1/2 year old? If so, in what dosage? I can’t seem to determine who makes this product or I would contact them directly. Advice greatly appreciated.

Rebecca April 13, 2013 at 1:18 pm

Hello Lydia,
I have been using Bio-Kult for over a year, do you think I should start using Prescript Assist at the suggested dose? Or should I start with just 1/2 a capsule and work up.

lydia April 13, 2013 at 1:29 pm

I would start with 1/2 and work up. Remember BioKult is only a very minor percentage soil based.

Lydia K. April 13, 2013 at 6:34 pm

Was able to locate the company and contacted them regarding my question of giving the product to a young child — funny how much simpler things seem in the daytime. :)

I did have one other question though: Do you usually recommend taking this probiotic alone or in conjunction with another type of probiotic?

lydia April 14, 2013 at 8:02 am


Yes, any person at any age can take probiotics -they promote life and health. They are safe for anyone to take -it’s a matter of how much and how to ease in to taking them to avoid any discomfort while your body adjusts to taking them.
I think a full spectrum approach is optimal, especially for anyone with deeper health issues or that has been on antibiotics. So, taking this one (soil based) alongside a transient in nature probiotic would be a good idea (unless you have SIBO in that case you would need to avoid D-lactate). Examples of good transient probiotics are: BioDoph 7 Plus, or VSL #3, or any from Custom Probiotics.

Ann April 27, 2013 at 10:36 am

I always thought homemade kefir (from raw milk) contained some beneficial bacteria that remained in the gut, rather than passing through like yogurt. Is my info wrong?

lydia April 27, 2013 at 3:43 pm

Hi Ann, So different strains of bacteria have different functions and some stay and some leave the body with the stool. Milk kefir has a ton of wonderful strains of bacteria, and they all have different jobs, but they are mostly transient in nature. Some hang out, but not as much as we may think. Milk kefir is still a powerful healing food – you’ll just need to drink it frequently to keep up the probiotic benefits within the body. One of the strains of bacteria that I know of in particular is Lactobaccillus casei, and this strain actually survives varying pHs in the body, so they can survive stomach acid and will work their way into the small intestine and can settle in to the intestines. Soil based organisms have the sole purpose of staying put. So you are not wrong – some of it does hang out, just not all of it or even most of it. Hope that helps!

Ann April 28, 2013 at 2:11 pm

That helps a lot, Lydia, thank you!

Debra E May 1, 2013 at 3:28 pm

Lydia, you mentioned in the comments that a full spectrum approach is good and recommend taking a soil based along side a transient in nature probiotic. What dosages would you do to do this? Start with both at the same time or get your body used to just one and then slowly add the other? Thanks

lydia May 1, 2013 at 3:39 pm

Start with one and get used to it first. Then add another. As for dosage, everyone will be different. I recommend getting in as therapeutic dose as you can tolerate for a time. The Prescript Assist -I’d go with 2 pills a day for a few months, then back down and just take 1-2 per week ongoing.

Kat May 5, 2013 at 4:45 pm

Hi, I’ve just started on Prescript Assist. I was taking 2 a day for the first week or so and noticed my bloating and wind got even worse (I was taking it because of these problems). I’ve backed off to one a day and now just have my “normal” (i.e. higher than average) issues. Can you sometimes have a bad reaction at first to probiotics but then these resolve in a month or so? I’ve tried many probiotics in the past and none have helped the bloating/wind. This is the first one to actually have an effect at all, even if it is not the effect I wanted. Thanks.

lydia May 5, 2013 at 5:24 pm


Did you start with 2 right off the bat? I usually recommend starting with 1/2 capsule for 3-4 days or so, then up to 1 -sometimes even less than half so you don’t have an uncomfortable ‘die off’ reaction. That is likely what is going on. I’d back down to 1 and get adjusted for a bit before going to 2. And yes, it should resolve itself. Hang in there! Hope that helps….

Kat May 5, 2013 at 9:54 pm

Thanks for your quick and reassuring response Lydia! I will keep going for another few weeks on 1 per day and then try upping it to 2 for a month.

Marius@Probiotic Kefir Grains May 10, 2013 at 12:52 am

Regarding your steatement regarding the round of antibiotics and intestinal flore, one thing I don’t quite agree in what you are saying that you DO NOT wait to finish the round, screw up your flora, and then try to help it recover, BUT every antibiotic pill goes downwith a shot of probiotic drink.
Our grandparents in Europe’s countryside used to do that 5o years ago, and noe of the people I know have a gut problem.
Having lived now for nearly 20 years in a health-ignorant country for the last 20 years, I know sooo many people that wrecked their gut durng childhood with antibiotics, simply because their parents weren’t aware of such a basic and simple antidote, or counter-measure.

Emeka May 13, 2013 at 12:29 am

I,ve tried lots of probitics for my bloating and acid reflux after infectected with H.Pylori. Prescript assist has help me a lot in recovering. My question is can I take 4 pills in a day because I notice that i need more probiotics in my gut. My gut is showing signs of healing

lydia June 7, 2013 at 12:14 pm

Emeka – you can take more if you feel your body needs it. I had a client use 4 per day for many months and muscle tested well for it. Then her body didn’t need any anymore. I’d try it and see how you do.

Debra E June 7, 2013 at 11:20 am

I’ve been doing Prescript Assist for a month while on the GAPS intro and have done great with it at 2 per day. I want to add in the Custom Probiotics 11 strain as well to get a well rounded approach. Should I keep up with 2 per day of the Prescript Assist while adding the other?

lydia June 7, 2013 at 12:14 pm

You absolutely can Debra!

Kat June 7, 2013 at 10:17 pm

I’m a bit worried. I was told by someone I know that you have to be very careful when you use fulvic acid (which is in this product). So I googled it and I’ve pasted below some info from just one of some of the websites that contain an important caution about fulvic acid.

14. Are there any conditions that you know of which makes taking Supreme
Fulvic & Humic Complex inadvisable (Contraindications)?
Yes. Do not take the product/s Supreme Fulvic & Humic Complex at the exact same time you take any medications. In other-words, do not directly [combine] Supreme Fulvic & Humic Complex with any medication that you are taking. Keep in mind the fact that Fulvic (a humic fraction) is a potentiator, increasing the ability of the cells of the body to absorb any substances consumed along with the fulvic, thus making such substance more potent, which in turn may lead to over-medicating or over-dosing. It is our opinion that humic/fulvic products be consumed at least 1-hour BEFORE taking any medication (oral as well as injectable).

Also, do not mix our product (or any humic product) with any fluids that contain CHLORINE.
Mixing humic (and other natural organic substances originating from foods – including fruits, soy, green or black tea) with water that is CHLORINATED is known to create harmful compounds referred to and abbreviated as “MX” – which is representative of the term “unknown mutagen”, which are similar to trihalomethanes (“THM”s).

Julie @ Seeking The Old Paths June 17, 2013 at 12:56 pm


Do you know how this compares with the HSOs in Garden of Life’s Primal Defense?

Are the HSOs in that the same thing as the SBOs in Prescript-Assist, just called by different initials?

Catherine October 6, 2013 at 10:50 pm

When should prescript assist be taken? With meals or on empty stomach?

lydia December 18, 2013 at 8:49 pm

Either is fine – I do a little of both. But it’s usually recommended to take on an empty stomach….

Catherine December 19, 2013 at 11:16 pm

Thank you!

Stacy December 18, 2013 at 8:36 pm

Hi! I was just googling SBO’s and stumbled upon this posting. I have also stumbled upon some scary stuff. I have read that SBO’s are spore forming and can cause death. I had bought the prescript assist but now I am kind of afraid to use it. Is there a risk using this product? What types of things should I be watching for to know I need to quit taking it?

glynn April 22, 2014 at 7:47 am

Donna Pessin with her Unique Healing says that her Bowel Strength formula will promote good gut flora and is preferable to taking her probiotic formula which is more expensive anyway. But it only contains anti parasitic and antibacterial ingredients so I can’t see how it actually promotes the growth of any bacteria. It would retard any bacterial growth. I have been taking it in high dosages as she recommends and still have painful gas if I even look at any starchy foods so I have started to take Prescript Assist as you recommend. Can you tell me how antibacterials are supposed to improve gut flora?

Jason May 6, 2014 at 6:53 pm

Hello Lydia,

All these years i have been under the impression that lactobacilli and bifidobacter species are critical in the GI, however, i have been supplementing with high doses for yrs and i still test low for lactobacilli and no growth at all for bifido. I was wondering if there is a misconception surrounding this since the prescript formula contains none of the lacto or bifido species. would appreciate some insisight. Also after a 1 month course of 1-2 daily can the dosage be scaled back to 1-2x weekly? These are a bit expensive and i would think over time the GI will naturally start colonizing these species – appreciate your help

lydia May 7, 2014 at 9:12 am


They are critical in the GI. Each section of the GI tract will contain certain strains predominantly. There are various reasons why they may be out of balance. Prescript Assist contains soil based organisms which we would have likely gotten from our food in the past when people raised it themselves. So this is a native strain and what that means is that it is not transient in nature -when it goes in the body does it’s job and leaves with the stool, it actually sticks around. It is still important to get lactobaccilus and bifido strains (lactobaccilus can be problematic for those with SIBO though) because they have a role to play, but they won’t repopulate the gut like we’ve been told, they leave with the stool and some are killed by the stomach acid etc……

Everyone I’ve worked with so far has needed various dosages of the Prescript Assist, it really depends on your health conditions and what you are trying to achieve. I say do what you can -see how it goes and then if you did not get the results you want with that dose you could try to ramp it up and take it for longer.

Jason May 7, 2014 at 2:47 pm

Thanks Lydia- my ND was concerned that my stool tests showed no growth of lacto and bifido, so is it possible the test itself is not reliable? Are there any probiotic suplements that colonize the gut? if not then what controls or determines which species of healthy bacteria colonize and how can this be supported and maintained? thanks again

Laura May 24, 2014 at 12:05 pm

Lydia, can I take Prescript-assist if I have fructose malabsorption? I’m told to be careful with prebiotics and high fodmaps. I see this product is prebiotic and probiotic. Thanks

lydia May 24, 2014 at 2:25 pm


The prebiotics in this formula are humic and fulvic acids -not the typical prebiotics that cause problems in those needing to avoid FODMAPS (usually people with SIBO). I would definitely try Prescript Assist – but start really slowly and ramp up slowly -back down or take a break if you get any initial die-off reactions (symptoms similar to the ones you are trying to recover from).

Jason June 10, 2014 at 10:50 am

Thanks Lydia! Also meant to you recommend cosupplementing with bifido and lactobacilli probiotics as well?

lydia June 10, 2014 at 11:37 am

I think it’s a good idea to mix it up. I like to start with Prescript Assist and go from there. You can certainly take more than one type at a time, but I’d do it slowly to monitor how you feel. If you have IBS or SIBO (small intestinal bacterial overgrowth) you may want to hold off on the lactobacillus strains until you heal.

Kelli June 13, 2014 at 4:36 pm

Hi Lydia – i too started taking the PA probiotics. But for some reason since I started my stools have gotten very dark and hard and difficult to pass. its been like this now for 3 weeks. even the magnesium dose i normally take isnt helping. is this normal?

lydia June 13, 2014 at 6:58 pm


I’ve not heard anyone have this experience. Please discontinue them for now and be sure to drink plenty of water to flush out, maybe even some warm lemon water first thing in the morning and/or try an enema to clear things out. You may need much less of this probiotic right now and to go much more slowly depending on what is going on in your gut at this time.

Kelli June 14, 2014 at 11:26 am

Hi Lydia, I did some research and this and it actually appears to be a common problem with this supplement (several people have posted in various forums). Can you offer any additional feedback? im wondering if its the prebiotic thats causing this or the actual microbes. Either way i dont think its wise to continue this if they exacerbate my problems. thanks for the feedback

lydia June 14, 2014 at 12:09 pm


If you have data or research, I’d love to hear/see it. It’s hard to determine why it could be exacerbating your problems -whether it’s the probiotic or your unique gut terrain. It’s important to remember that whenever we start a new healing supplement or protocol it’s possible to experience ‘reactions’ to them of the issues we are trying to fix. However, that said I think in 3 weeks you should have seen this issue work itself out.

How many did you start out with? How many did you take daily? How long did you experience the constipation?

The prebiotics humic and fulvic acid are almost always tolerated and great even for those with SIBO or issues with FODMAPS.

Kelli June 15, 2014 at 10:01 am

Thanks Lydia. Started with 1 a day then went to 2 (i in the am with breakfast then one at night before bed). the first few days were fine but then the constipation started and i had it for 3 full weeks. again stools were dark and very hard. ive been off for a few days and things seem to be back to normal.

Lynn May 22, 2016 at 10:35 pm

I took took it and my stools turned very dark. I didn’t have any constipation but the dark color scared me. I took several a day and backed down then eventually stopped. I would take one every now and then.

April August 21, 2014 at 8:56 am

Hi. My order of Prescript-Assist is on it’s way. I initially read about it in an article about management of flatulence. I have terrible flatulence! I’ve tried many things, including other probiotics, but nothing really helps for long. I eat a pretty healthy vegan diet. After reading through the posts here, I think I should start at a partial capsule daily. So, how does one do that? Open the capsule and sprinkle some on food? Or in water? Thanks!

lydia August 21, 2014 at 10:17 am

Hi April,

Open the tip of the capsule with your fingernail and sprinkle some right on your tongue – to better see/measure you can sprinkle onto a spoon and then eat it.

vandana February 16, 2015 at 11:30 am

Hi Lydia, i’ve been taking the GAPS (Gut and Pyschology Syndrom) recommended probiotics BIokult for a few months now..worked up slowly to 6 a day. It made some difference, but it wasn’t until i went strict with paleo..and then tweaked it with low FODmap Paleo foods AND just not starchy period (so more like GAPS combined with low nuts, no coconut.).. that i’ve started to feel much normal energy and no bloating. gas/bloating the moment i have any starch…even plantain which is low FODmap. I have prescript assist but not sure how to add it in and reduce the biokult. Maybe substitue two capsules biokult for 1/4 prescript assist..and then as i increase the PA capsule..reduce the other doses of Biokult? Have you had any experience wtih Biokult and how would you say it compares to PA? Thanks!

lydia February 17, 2015 at 7:20 am


Biokult is mostly transient bacteria with some native (very small amount). If you wanted to take both at the same time that would probably be fine. Prescript Assist is solely native strains of soil based bacteria I’ve never used Biokult myself – I’ve used other transient probiotics alongside Prescript Assist.

I might just keep taking your BioKult dose and slowly ramp up the Prescript Assist until you notice some good benefits – everyone will be different in what dose actually gets them benefit! Good luck!

Ken Sundstrom August 27, 2015 at 8:49 pm

I just started taking Xifaxan for 10 days.
I was thinking I would wait to take Prescript Assist until I stop taking Xifaxin.
Is this what I should do?
I was going to start out with one fourth of a pill for 4 days and slowly work up to one half a pill for 4 days and increase one fourth etc.
I have IBS D
Do you recommend this approach?
Ken Sundstrom

lydia August 30, 2015 at 9:04 am

You can certainly use the Prescript Assist with medications – you will just need to double check to make sure that it is not contraindicated by going to and looking at the foods/medications etc. that interact with Xifaxan. If it’s not on there then your approach sounds reasonable to me.

Janice March 10, 2016 at 4:35 pm

I agree that soil based organism are likely what are missing from today’s diet. However, if Prescript Assist contains probiotics that are NOT transient as described…why the need to keep taking them day after day after day?
Also, can Prescript Assist be used as a probiotic enema (as this makes the most sense to me…that the colon is where the bacteria is needed, not the small intestine, especially in the case of SIBO)

lydia March 12, 2016 at 7:55 am

I recommend getting the probiotic through the entire GI tract – colonizing the large intestine works better North-to-South.

It’s recommended to take a therapeutic dose of this probiotic for a time – everyone’s needs will vary. Then move to a maintenance dose of 1-2 per week or so. There are far too many things that compete with and kill off our gut flora. Ex: chlorine

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