New research has revealed that Escherichia coli (E. coli), a bacterium that normally lives in the human gut, can spread through populations at a rate comparable to the swine flu.

For the first time, researchers from the Wellcome Sanger Institute, the University of Oslo, the University of Helsinki, Aalto University in Finland, and their collaborators have been able to estimate how efficiently one person can pass gut bacteria to others. This kind of calculation, which measures transmission rates, has previously been possible mainly for viruses.

Tracking Dangerous Strains Across Populations

The study, published today (November 4) in Nature Communications, examined three key E. coli strains circulating in the UK and Norway. Two of these strains are resistant to several common classes of antibiotics. They are also the most frequent causes of urinary tract and bloodstream infections in both countries. The researchers suggest that better monitoring of these strains could guide public health responses and help prevent outbreaks of infections that are difficult to treat.

In the long term, gaining insight into the genetic factors that help E. coli spread could lead to more targeted therapies and reduce reliance on broad-spectrum antibiotics. The approach developed in this study could also be adapted to investigate other bacterial pathogens and improve strategies for managing invasive infections.

E. coli is one of the leading causes of infections around the world.1 While most strains are harmless and normally inhabit the gut, the bacteria can enter the body through direct contact such as kissing or indirect means like shared surfaces, food, or living spaces. When E. coli moves into areas such as the urinary tract, it can cause serious illness, including sepsis, especially in people with weakened immune systems.

Antibiotic resistance has made these infections even more concerning. In the UK, more than 40 percent of E. coli bloodstream infections are now resistant to a key antibiotic,2 reflecting a global trend of rising resistance levels.

Applying Viral-Style Transmission Metrics to Bacteria

Scientists often describe how infectious a pathogen is using the basic reproduction number, known as R0. This number estimates how many new cases a single infected person might cause. It is typically applied to viruses and helps predict whether an outbreak will expand or decline. Until now, researchers have been unable to assign an R0 value to bacteria that normally colonize the gut, since they often live in the body without triggering illness.

To overcome this, the team combined data from the UK Baby Biome Study with genomic information from E. coli bloodstream infection surveillance programs in the UK and Norway, previously compiled by the Wellcome Sanger Institute.

Using a software platform called ELFI3 (Engine for Likelihood-Free Inference), the researchers built a new model capable of estimating R0 for the three major E. coli strains studied.

Their results showed that one particular strain, known as ST131-A, can spread between people as rapidly as some viruses that have caused global outbreaks, including the swine flu (H1N1). This is particularly striking because E. coli is not spread through airborne droplets like flu viruses are.

The two other strains studied, ST131-C1 and ST131-C2, are resistant to multiple antibiotic classes but spread much more slowly among healthy individuals. However, in hospitals and other healthcare environments, where patients are more vulnerable and contact is frequent, these resistant strains could move through populations much faster.

Understanding R0 for Bacteria

Assigning an R0 value to bacteria opens the door to a clearer understanding of how bacterial infections spread. It also helps identify which strains pose the greatest threat and could inform public health strategies to better protect people with compromised immune systems.

Fanni Ojala, M.Sc., co-first author at Aalto University in Finland, explained: "By having a large amount of systematically collected data, it was possible to build a simulation model to predict R0 for E. coli. To our knowledge, this was not just a first for E. coli, but a first for any bacteria that live in our gut microbiome. Now that we have this model, it could be possible to apply it to other bacterial strains in the future, allowing us to understand, track, and hopefully prevent the spread of antibiotic-resistant infections."

Dr. Trevor Lawley, Group Leader at the Wellcome Sanger Institute and co-lead of the UK Baby Biome Study, who was not involved in this research, noted: "E. coli is one of the first bacteria that can be found in a baby's gut, and in order to understand how our bacteria shape our health, we need to know where we start -- which is why the UK Baby Biome study is so important. It is great to see that our UK Baby Biome study data are being used by others to uncover new insights and methods that will hopefully benefit us all."

A New Lens on Bacterial Genetics

Professor Jukka Corander, senior author at the Wellcome Sanger Institute and the University of Oslo, added: "Having the R0 for E. coli allows us to see the spread of bacteria through the population in much clearer detail, and compare this to other infections. Now that we can see how rapidly some of these bacterial strains spread, it is necessary to understand their genetic drivers. Understanding the genetics of specific strains could lead to new ways to diagnose and treat these in healthcare settings, which is especially important for bacteria that are already resistant to multiple types of antibiotics."

The success of this study relied on extensive genomic data from the UK and Norway, all sequenced at the Wellcome Sanger Institute. This large-scale data made it possible to identify transmission patterns in detail. The datasets originated from earlier studies published in The Lancet Microbe,4,5 which laid the foundation for the modeling breakthrough achieved in this new research.

Notes

  1. Antimicrobial Resistance Collaborators. (2022) 'Global burden of bacterial antimicrobial resistance in 2019: a systematic analysis.' The Lancet. DOI: 1016/S0140-6736(21)02724-0
  2. UK Health Security Agency. New data shows 148 severe antibiotic-resistant infections a day in 2021. Available at: https://www.gov.uk/government/news/new-data-shows-148-severe-antibiotic-resistant-infections-a-day-in-2021#:~:text=Over%20two-fifths%20of%20E,as%20cefiderocol%20to%20identify%20resistance[1]
  3. ELFI can be found: https://www.elfi.ai/[2]
  4. R. A. Gladstone, et al. (2021) ' Emergence and dissemination of antimicrobial resistance in Escherichia coli causing bloodstream infections in Norway in 2002-17: a nationwide, longitudinal, microbial population genomic study' Lancet Microbe. DOI: 10.1016/S2666-5247(21)00031-8.
  5. A. K. Pontinen, et al. (2024) 'Modulation of multidrug-resistant clone success in Escherichia coli populations: a longitudinal, multi-country, genomic and antibiotic usage cohort study' Lancet Microbe. DOI: 10.1016/S2666-5247(23)00292-6.
Read more …Scientists shocked to find E. coli spreads as fast as the swine flu

A research team at the University of Missouri has made a discovery that could transform how glaucoma is detected and treated. Glaucoma, a major cause of irreversible blindness in older adults, often goes undiagnosed until significant vision loss has already occurred. Scientists are now closer to identifying a biomarker that may allow doctors to detect the disease much earlier and develop new ways to protect the eye.

Glaucoma occurs when retinal ganglion cells (RGCs) and their axons become damaged. These delicate nerve cells, located at the back of the eye, carry visual information to the brain. Once they deteriorate, vision loss begins. Current therapies mainly reduce pressure inside the eye, but none effectively protect RGCs from harm. This gap in treatment highlights the urgent need for neuroprotective strategies that can preserve these critical nerve cells.

Searching for Biomarkers and Protective Treatments

Pawan Singh, a researcher at Mizzou's School of Medicine, is dedicated to finding both biomarkers that reveal glaucoma early and therapies that safeguard the optic nerve. His team recently discovered that glaucoma patients have lower levels of two naturally occurring molecules, agmatine and thiamine, in the clear fluid at the front of the eye compared with individuals without the disease. These small molecules, known as metabolites, may serve as early indicators that can be detected through testing.

"In several cases, people do not find out they have glaucoma until they are older and their eye pressure is elevated," Singh explained. "Our long-term goal is to see if doctors could one day do a simple blood test to check for these biomarkers. If they can, hopefully they will be able to catch the disease much earlier, before vision loss occurs, so patients can receive treatment sooner."

Promising Clues for Future Treatments

Beyond diagnosis, the discovery offers hope for new therapies. Singh's pre-clinical research suggests that agmatine and thiamine may help protect RGCs and maintain visual function, offering neuroprotective potential. These molecules could eventually be developed into treatments, possibly in the form of eye drops or supplements, that slow or prevent vision loss from glaucoma.

"Mizzou's impressive research infrastructure and our collaborative team help make this research possible," Singh said. "While more work needs to be done, the eye doctors I have spoken to here at Mizzou are very excited about this research, so I am proud and hopeful for the future."

The findings were published in Investigative Ophthalmology and Visual Science under the title "Metabolomic profiling of aqueous humor from glaucoma patients identifies metabolites with anti-inflammatory and neuroprotective potential in mice."

Read more …Tiny molecules could stop glaucoma before it blinds

Scientists have created a promising new compound that could mark a major step forward in the global effort to control tuberculosis, the world's deadliest infectious disease.

A new study in Nature highlights the potential of this compound, called CMX410, which targets a key enzyme in Mycobacterium tuberculosis, the bacterium that causes tuberculosis. The compound has shown success even against drug-resistant strains, a growing global problem that makes treatment more difficult and less effective.

The research was led by James Sacchettini, Ph.D., the Rodger J. Wolfe-Welch Foundation Chair in Science and professor at Texas A&M University, along with Case McNamara, Ph.D., senior director of infectious disease at the Calibr-Skaggs Institute for Innovative Medicines, a division of Scripps Research that develops next-generation therapies.

This discovery emerged from collaborations within the TB Drug Accelerator program, a Gates Foundation-funded initiative that brings together researchers to advance the most promising tuberculosis treatments.

"A lot of people think of tuberculosis as a disease of the past," Sacchettini said. "But in reality, it remains a major public health issue requiring significant attention, collaboration and innovation to overcome."

A new approach to an old enemy

The newly identified compound from AgriLife Research and Calibr-Skaggs works by shutting down a vital enzyme, polyketide synthase 13 (Pks13), which the bacterium needs to build its protective cell wall. Without this structure, M. tuberculosis cannot survive or infect the body.

Scientists have long known that Pks13 is an important target for TB drugs, but developing a safe and effective inhibitor has proven difficult. CMX410 succeeds where earlier attempts fell short. Its design makes it extremely specific to its target, resulting in fewer unwanted effects. The compound forms an irreversible bond with a critical site on Pks13, which prevents resistance from developing and keeps the drug focused on its intended target.

To achieve this, researchers used a technique known as click chemistry -- a method that links molecules together like puzzle pieces. The approach was pioneered by co-author Barry Sharpless, Ph.D., W.M. Keck Professor of Chemistry at Scripps Research and a two-time Nobel Laureate. His work has opened the door to vast libraries of chemical compounds that can be rapidly tested and refined.

"This technique represents a new tool for drug design," said McNamara. "We expect to see its uses expand in the coming years to help address public health concerns with a critical need, including tuberculosis."

Promising early results

The team began by screening a collection of compounds from the Sharpless lab to find those capable of slowing M. tuberculosis growth. After months of optimization, led by co-first authors Baiyuan Yang, Ph.D., and Paridhi Sukheja, Ph.D., CMX410 emerged as the most effective and balanced candidate.

Yang's team tested more than 300 variations to fine-tune the compound's power, safety, and selectivity. The final version was tested against 66 different TB strains, including multidrug-resistant samples taken from patients, and proved effective in nearly all cases.

"Identifying this novel target was an exciting moment," said Sukheja, who led many early studies showing CMX410 could target a previously unexplored gene. "It opened up a completely new path forward, especially against strains that have learned to evade existing treatments."

The researchers also found that CMX410 can be used safely alongside existing TB drugs, a crucial advantage since treatment typically involves multiple medications taken for several months. In animal testing, no negative side effects were observed even at the highest doses. Because of its precision, the compound is unlikely to disturb healthy bacteria or cause gut imbalance -- an issue often linked to traditional antibiotics.

Moving closer to better therapies

The addition of a specialized chemical group that allows CMX410 to permanently attach to its target makes it one of the most selective compounds of its kind. Although more studies are needed before it can be tested in humans, early findings suggest strong potential for future TB treatment.

"These early results are very encouraging," said Inna Krieger, Ph.D., senior research scientist in Sacchettini's lab and co-first author of the paper. "Cell wall-targeting antibiotics have long been a cornerstone of tuberculosis treatment. However, after decades of widespread use, their effectiveness is waning due to the rise of drug-resistant strains.

"We are working to discover new drugs that disrupt essential biological processes and identify optimal combinations with existing drugs to enable shorter, safer and more effective treatment regimens. Through these efforts, we hope to help move the world closer to a future free from tuberculosis."

Read more …This new drug candidate might finally outsmart tuberculosis

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