How to Pulse Antibiotics For Lyme.

Your source for quality supplements

Shop Now

How to Pulse Antibiotics in a Lyme disease treatment image from Marty Ross MD

At times, I pulse antibiotics in my Lyme treatments. This means I start and stop the antibiotics at regular intervals with periods on antibiotics followed by periods off. The purpose is to

  • beat Lyme persister cells,
  • decrease biofilms,
  • decrease Lyme cysts,
  • decrease drug toxicity, and
  • limit intestinal yeast.

Persister Cells and Lyme Pulse Antibiotics

Lyme germs can turn into persister cells that are tolerant to antibiotics. In a persister state, metabolism of the germ slows down. In a sense the germ goes into hibernation. However, if the germ wakes up again, the antibiotics will work. So a persister state does not create a germ that is antibiotic resistant. Resistance would remain even when the germ wakes up and starts to grow.

In 2015 researchers at Northeastern University in Boston showed on petri dish experiments that 20% of Lyme germs become persister cells. In the experiment 24 hours after antibiotics were stopped and washed off the germs the persister cells started to grow again. The researches showed that starting and stopping antibiotics (pulse antibiotics) 4 times killed all forms of Lyme germs. In the experiment, antibiotics were used for 5 days followed by 24 hours off.

Biofilms and Cysts Respond to Lyme Pulse Antibiotics

Lyme lives in three different forms and in biofilms. The three forms are spirochete, intracellular Lyme (also called L-form), and microscopic cyst. When Lyme spirochetes are exposed to antibiotics they can morph into cyst forms or move into biofilm communities. Once antibiotics are stopped, Lyme comes out of biofilms where it is easier to treat. And cyst turn back into spirochetes which are also easier to treat. So in a Lyme pulse antibiotic regimen, during the off periods Lyme can move back into a state which is easier to treat with antibiotics.

Toxicity and Yeast Do Better with Lyme Pulse Antibiotics

If I have a patient who is having intestinal yeast issues or problems with liver or kidney toxicity on antibiotics, I consider changing to a Lyme pulse antibiotic regimen. Decreasing the amount of antibiotics decreases the chances of intestinal yeast overgrowth, and makes it easier for yeast treatments to work. Also lowering the total weakly load of antibiotics decreases the strain on the kidneys and liver caused by Lyme antibiotics.

All Antibiotics Are Not Good to Pulse

The Northeastern experiments showed in a lab persister cells require 24 hours before they wake up out of hibernation. In the experiment they literally washed the existing antibiotics off of the petri dish. In humans, we cannot just wash antibiotics out. It takes time for antibiotics to build up to an effective dose and time for the same antibiotic to get out of the body.

In pharmacy science each medicine has an elimination half-life. An Elimination half-life is the time it takes to get half of a medicine out. We can use the elimination half-life for a drug to determine how long it takes to completely remove a drug or how long it takes to get the drug to a maximum level in the blood.

It takes 4 elimination half-lives to remove a medicine completely. It takes 4 elimination half-lives for a medicine to reach the highest drug level in the blood.

Long-half life medicines should not be pulsed. One of these antitibiotics is azithromycin (Zithromax). It has an elimination half-life of 68 hours. This means it takes 272 hours (11 days) to completely eliminate this medicine from the body once it is stopped. Of the current antibiotics most Lyme Literate Medical Doctors use, azithromycin is the only one that should not be pulsed.

Read more about Lyme antibiotic regimens in A Lyme Disease Antibiotic Guide.

An Effective Short Lyme Pulse Antibiotic Frequency

An effective pulse regimen is one that gives enough time to kill the Lyme germs and enough time for the persister cells to wake up. This keeps in mind also that most medicines require 24 to 48 hours to reach a level where they do not kill Lyme once they are stopped. So generally I like to pulse antibiotics for 4 days on followed by 3 days off.

Keep in mind there have not been any human experiments performed that look at the ultimate pulsing regimen. But the 4 day on 3 day off regimen is one that I find moves a treatment forward. I have tried other ones that do not seem to work as well.

Lyme treatment regimens require at least 2 prescription antibiotics or 2 herbal antibiotics. Sometimes 3 are used. Each antibiotic in a regimen should be taken on the same days. So if your regimen includes clarithromycin to treat spirochete Lyme and intracellular Lyme along with metronidazole to treat cyst Lyme, both of these medicines should be taken on the same days.

Long Lyme Pulse Antibiotics

There is another way I pulse antibiotics based on the work of Lyme pioneer Joseph Burrascano MD. Before he left clinical practice years ago he found stopping antibiotics until a person became ill and then using them long enough to feel better could eliminate Lyme.

Overtime working with this idea I have found a regimen using antibiotics for 2 months on followed by 2 months off can sometimes cause significant improvement. This seems to help about 40% of the time. It is OK to stop antibiotics longer term because Lyme replicates slowly. It takes weeks to months before the germ replicates enough to cause problems.

During the 2 months off of antibiotics the lyme germs come out of persister cells. I also suspect that Lyme which has moved into biofilms and into cyst forms also converts back into the spirochete forms which are easier to treat.

Mix Short and Long Lyme Pulse Antibiotics

In my long pulse regimens, I will sometimes do short Lyme pulse antibiotics. So during the 2 months of antibiotics I will have a person take the antibiotics for 4 days on followed by 3 days off.

Do Not Pulse Antibiotics for Co-infections

Co-infections like babesia and bartonella replicate quickly. For instance bartonella replicates every 24 hours. Lyme on the other hand has a very long replication cycle. The problem with stopping antibiotics that are also used in a bartonella treatment or babesia treatment is that during the off phase the bart or babesia will grow too much. So if your regimen for Lyme includes antibiotics that are also treating your coinfection, you should use the antibiotics continuously rather than pulse.

Final Word

Lyme pulse antibiotics do not always work. The idea to pulse antibiotics is based on tightly controlled laboratory experiments. We do not have any human experiments looking at either short pulse regimens or long pulse regimens compared to continuous regimens. Generally I will give short pulse regimens 4 months to see if they will work and long pulse regimens 3 to 4 rounds on the antibiotics.


Sharma B, Brown AV, Matluck NE, Hu LT, Lewis K. 2015. Borelia burgdoferi, the causative agent of Lyme disease, forms drug-tolerant persister cells. Anitimicrob Agents Chemother 59:4616-4624, doi:10.1128/AAC.00864-15.

Get the Free Reports

Subscribe to the Treat Lyme newsletter and receive two FREE reports: How to Beat Herxheimer Reactions and How to Treat Persister Lyme.  Plus updates, special offers and more.