We’re pleased to welcome Dr. Fiona Walsh to our editorial board in the Microbiology section! Dr Walsh has expertise in antimicrobial resistance, plasmids, metagenomics and ESKAPEE pathogens. We look forward to working with you! 🦠🔬 fiwalsh.bsky.social
November 11, 2025 at 9:41 PM
We’re pleased to welcome Dr. Fiona Walsh to our editorial board in the Microbiology section! Dr Walsh has expertise in antimicrobial resistance, plasmids, metagenomics and ESKAPEE pathogens. We look forward to working with you! 🦠🔬 fiwalsh.bsky.social
3: PathoLM-Sp, adapted for ESKAPEE species classification, outperforms traditional machine learning and deep learning methods (pg. 6, Fig. 3A).
November 26, 2024 at 2:36 AM
3: PathoLM-Sp, adapted for ESKAPEE species classification, outperforms traditional machine learning and deep learning methods (pg. 6, Fig. 3A).
Check out our latest publication where we performed AMR screening in ~2000 metagenomes from food and production surfaces in Europe. >60% samples carrying ARGs, >70% of all ARG found, and critical role of non-ESKAPEE from surfaces of the latest stages of production over the final products’ resistome!
#NewResearch
'The food-associated resistome is shaped by processing and production environments' by @nmquijada.bsky.social and co-workers.
#MicroSky 🦠
www.nature.com/articles/s41...
'The food-associated resistome is shaped by processing and production environments' by @nmquijada.bsky.social and co-workers.
#MicroSky 🦠
www.nature.com/articles/s41...
The food-associated resistome is shaped by processing and production environments - Nature Microbiology
Whole-metagenome sequencing of 1,780 raw-material, end-product and surface samples from 113 food processing facilities reveals the occurrence of antimicrobial resistance determinants in foods and thei...
www.nature.com
July 31, 2025 at 1:55 PM
Check out our latest publication where we performed AMR screening in ~2000 metagenomes from food and production surfaces in Europe. >60% samples carrying ARGs, >70% of all ARG found, and critical role of non-ESKAPEE from surfaces of the latest stages of production over the final products’ resistome!
The ESGEM-AMR subgroups have been busy encoding AMRrules for lots of pathogens - the beta release has core gene rules for all the ESKAPEE pathogens, plus Salmonella & Yersinia.
May 22, 2025 at 9:38 AM
The ESGEM-AMR subgroups have been busy encoding AMRrules for lots of pathogens - the beta release has core gene rules for all the ESKAPEE pathogens, plus Salmonella & Yersinia.
Unlock the power of genomics and AI to tackle antimicrobial resistance. Our machine learning models predict resistance across ESKAPEE superbugs with over 90% accuracy, empowering clinicia...
🧵 Thread below
Full analysis: https://helixbrief.com/article/fddb6b79-7823-451c-a737-42ee9b3303fd
🧵 Thread below
Full analysis: https://helixbrief.com/article/fddb6b79-7823-451c-a737-42ee9b3303fd
September 25, 2025 at 3:01 PM
Unlock the power of genomics and AI to tackle antimicrobial resistance. Our machine learning models predict resistance across ESKAPEE superbugs with over 90% accuracy, empowering clinicia...
🧵 Thread below
Full analysis: https://helixbrief.com/article/fddb6b79-7823-451c-a737-42ee9b3303fd
🧵 Thread below
Full analysis: https://helixbrief.com/article/fddb6b79-7823-451c-a737-42ee9b3303fd
Phage-antibiotic synergy reprograms resistance by targeting efflux systems in ESKAPEE pathogens, offering a promising strategy against MDR/XDR bacteria. 🧬🦠
#AntibioticResistance #PhageTherapy #Bacteriophages #MiniReview
📄 https://doi.org/10.1128/mbio.01822-25
👤 EVBC member: Robert Edwards
#AntibioticResistance #PhageTherapy #Bacteriophages #MiniReview
📄 https://doi.org/10.1128/mbio.01822-25
👤 EVBC member: Robert Edwards
Reprogramming resistance: phage-antibiotic synergy targets efflux systems in ESKAPEE pathogens | mBio
Antimicrobial resistance (AMR) is one of the greatest threats to global health. If unaddressed, it is projected to cause over 39 million cumulative deaths globally by 2050 (1). While resistance is a broad and evolving problem, a small group of bacteria, collectively known as ESKAPEE pathogens, has e...
doi.org
November 27, 2025 at 8:39 AM
Phage-antibiotic synergy reprograms resistance by targeting efflux systems in ESKAPEE pathogens, offering a promising strategy against MDR/XDR bacteria. 🧬🦠
#AntibioticResistance #PhageTherapy #Bacteriophages #MiniReview
📄 https://doi.org/10.1128/mbio.01822-25
👤 EVBC member: Robert Edwards
#AntibioticResistance #PhageTherapy #Bacteriophages #MiniReview
📄 https://doi.org/10.1128/mbio.01822-25
👤 EVBC member: Robert Edwards
Identification of clinically relevant multi-drug resistant ESKAPEE isolates from hospital wastewater surveillance in Thailand
https://doi.org/10.3389/fmicb.2025.1657219
https://doi.org/10.3389/fmicb.2025.1657219
September 26, 2025 at 1:26 PM
Identification of clinically relevant multi-drug resistant ESKAPEE isolates from hospital wastewater surveillance in Thailand
https://doi.org/10.3389/fmicb.2025.1657219
https://doi.org/10.3389/fmicb.2025.1657219
This study developed and validated machine learning models to predict antimicrobial resistance phenotypes directly from genomic data across the ESKAPEE pathogens - a group of bacteria responsible for many hospital-acquired infections.
September 25, 2025 at 3:01 PM
This study developed and validated machine learning models to predict antimicrobial resistance phenotypes directly from genomic data across the ESKAPEE pathogens - a group of bacteria responsible for many hospital-acquired infections.
PathoLM uses a pre-trained Nucleotide Transformer model for pathogen identification in bacterial and viral sequences. It outperforms alignment-based methods and traditional machine learning, showing strong zero/few-shot learning. A variant, PathoLM-Sp, classifies ESKAPEE species.
November 26, 2024 at 2:36 AM
PathoLM uses a pre-trained Nucleotide Transformer model for pathogen identification in bacterial and viral sequences. It outperforms alignment-based methods and traditional machine learning, showing strong zero/few-shot learning. A variant, PathoLM-Sp, classifies ESKAPEE species.
PXD053955 🚨
Polyamino-isoprenyl enhancer NV716 potentiates the antibacterial activity of two families of multitarget inhibitors against the ESKAPEE bacterium Enterobacter cloacae, Part1bis (Enterobacter
🚨 New dataset alert! 🚨
Polyamino-isoprenyl enhancer NV716 potentiates the antibacterial activity of two families of multitarget inhibitors against the ESKAPEE bacterium Enterobacter cloacae, Part1bis (Enterobacter
🚨 New dataset alert! 🚨
April 4, 2025 at 7:00 AM
PXD053955 🚨
Polyamino-isoprenyl enhancer NV716 potentiates the antibacterial activity of two families of multitarget inhibitors against the ESKAPEE bacterium Enterobacter cloacae, Part1bis (Enterobacter
🚨 New dataset alert! 🚨
Polyamino-isoprenyl enhancer NV716 potentiates the antibacterial activity of two families of multitarget inhibitors against the ESKAPEE bacterium Enterobacter cloacae, Part1bis (Enterobacter
🚨 New dataset alert! 🚨
The researchers assembled a dataset of 18,916 ESKAPEE genomes paired with antibiogram data, and trained highly accurate Random Forest and XGBoost models for each antibiotic. The models achieved over 90% recall and F1 score for most pathogen-antibiotic combinations.
September 25, 2025 at 3:01 PM
The researchers assembled a dataset of 18,916 ESKAPEE genomes paired with antibiogram data, and trained highly accurate Random Forest and XGBoost models for each antibiotic. The models achieved over 90% recall and F1 score for most pathogen-antibiotic combinations.
SKP… eSKaPee… escapee! 😂
December 21, 2024 at 5:05 AM
SKP… eSKaPee… escapee! 😂
Potential involvement of beta-lactamase homologous proteins in resistance to beta-lactam antibiotics in gram-negative bacteria of the ESKAPEE group https://pubmed.ncbi.nlm.nih.gov/38778284/
May 27, 2024 at 8:02 AM
Potential involvement of beta-lactamase homologous proteins in resistance to beta-lactam antibiotics in gram-negative bacteria of the ESKAPEE group https://pubmed.ncbi.nlm.nih.gov/38778284/
Now the science!! (no pun intended):
we have found 47 phage defense systems among gene cassettes of unknown function (gcus). Most (43) of these Bacteriophage Resistance integron Cassettes (BRiCs) are novel, they are mobile, and many work in key pathogens from the #ESKAPEE group 💣 #phagetherapy ‼️
we have found 47 phage defense systems among gene cassettes of unknown function (gcus). Most (43) of these Bacteriophage Resistance integron Cassettes (BRiCs) are novel, they are mobile, and many work in key pathogens from the #ESKAPEE group 💣 #phagetherapy ‼️
May 8, 2025 at 8:27 PM
Now the science!! (no pun intended):
we have found 47 phage defense systems among gene cassettes of unknown function (gcus). Most (43) of these Bacteriophage Resistance integron Cassettes (BRiCs) are novel, they are mobile, and many work in key pathogens from the #ESKAPEE group 💣 #phagetherapy ‼️
we have found 47 phage defense systems among gene cassettes of unknown function (gcus). Most (43) of these Bacteriophage Resistance integron Cassettes (BRiCs) are novel, they are mobile, and many work in key pathogens from the #ESKAPEE group 💣 #phagetherapy ‼️
🧪 +2.000 samples analyzed
🧬 Detection of resistance genes in food and production environments
⚠️ High prevalence of ESKAPEE group bacteria
🧫 ~40% of genes linked to mobile genetic elements
🧶⬇️
🧬 Detection of resistance genes in food and production environments
⚠️ High prevalence of ESKAPEE group bacteria
🧫 ~40% of genes linked to mobile genetic elements
🧶⬇️
August 7, 2025 at 10:21 AM
🧪 +2.000 samples analyzed
🧬 Detection of resistance genes in food and production environments
⚠️ High prevalence of ESKAPEE group bacteria
🧫 ~40% of genes linked to mobile genetic elements
🧶⬇️
🧬 Detection of resistance genes in food and production environments
⚠️ High prevalence of ESKAPEE group bacteria
🧫 ~40% of genes linked to mobile genetic elements
🧶⬇️
tenho mais medo das eskapee do que do diabo
September 1, 2024 at 8:25 PM
tenho mais medo das eskapee do que do diabo
Bacterial Profile and Antibiotic Resistance of ESKAPEE Pathogens Isolated in Intensive Care Units from Blood Cultures: A Cross-Sectional Study from Abu Dhabi, United Arab Emirates (2018-2022)
https://doi.org/10.3390/antibiotics14111142
https://doi.org/10.3390/antibiotics14111142
November 27, 2025 at 4:13 PM
Bacterial Profile and Antibiotic Resistance of ESKAPEE Pathogens Isolated in Intensive Care Units from Blood Cultures: A Cross-Sectional Study from Abu Dhabi, United Arab Emirates (2018-2022)
https://doi.org/10.3390/antibiotics14111142
https://doi.org/10.3390/antibiotics14111142
We tested 100 peptides against the ESKAPEE group (the worst of the worst) and a panel of human gut commensals (that we'd prefer to not harm)
In total, 79 peptides were active; 63 of which against ≥1 pathogen
Some of our novel peptides are equivalent to polymyxin B (an antibiotic) in a mouse model
In total, 79 peptides were active; 63 of which against ≥1 pathogen
Some of our novel peptides are equivalent to polymyxin B (an antibiotic) in a mouse model
June 6, 2024 at 4:17 AM
We tested 100 peptides against the ESKAPEE group (the worst of the worst) and a panel of human gut commensals (that we'd prefer to not harm)
In total, 79 peptides were active; 63 of which against ≥1 pathogen
Some of our novel peptides are equivalent to polymyxin B (an antibiotic) in a mouse model
In total, 79 peptides were active; 63 of which against ≥1 pathogen
Some of our novel peptides are equivalent to polymyxin B (an antibiotic) in a mouse model
Our study in @sciencedirect's #VeterinaryMicrobiology: Active surveillance in Equine ICU reveals 90% of horses or their environment have ESKAPEE pathogens. We analyzed 271 patient samples and 28 environmental samples, identifying 207 isolates. #horsehealth #AMR doi.org/10.1016/j.ve...
Redirecting
doi.org
February 25, 2025 at 1:51 PM
Our study in @sciencedirect's #VeterinaryMicrobiology: Active surveillance in Equine ICU reveals 90% of horses or their environment have ESKAPEE pathogens. We analyzed 271 patient samples and 28 environmental samples, identifying 207 isolates. #horsehealth #AMR doi.org/10.1016/j.ve...
AMPSphere published in Cell!
We obtained nearly 1 million novel antimicrobial peptides from the global microbiome!
In vitro testing showed that at least 79/100 are true positives (with 63 targeting of of the nasty ESKAPEE pathogens)
🔎 microprotein
We obtained nearly 1 million novel antimicrobial peptides from the global microbiome!
In vitro testing showed that at least 79/100 are true positives (with 63 targeting of of the nasty ESKAPEE pathogens)
🔎 microprotein
June 6, 2024 at 4:10 AM
AMPSphere published in Cell!
We obtained nearly 1 million novel antimicrobial peptides from the global microbiome!
In vitro testing showed that at least 79/100 are true positives (with 63 targeting of of the nasty ESKAPEE pathogens)
🔎 microprotein
We obtained nearly 1 million novel antimicrobial peptides from the global microbiome!
In vitro testing showed that at least 79/100 are true positives (with 63 targeting of of the nasty ESKAPEE pathogens)
🔎 microprotein
🚨New Review Out🚨
We explore how phage-antibiotic synergy can dismantle efflux-driven resistance in multidrug-resistant ESKAPEE pathogens. By reprogramming bacterial defences, phages offer a precision strategy to restore antibiotic efficacy.
journals.asm.org/doi/10.1128/...
We explore how phage-antibiotic synergy can dismantle efflux-driven resistance in multidrug-resistant ESKAPEE pathogens. By reprogramming bacterial defences, phages offer a precision strategy to restore antibiotic efficacy.
journals.asm.org/doi/10.1128/...
Reprogramming resistance: phage-antibiotic synergy targets efflux systems in ESKAPEE pathogens | mBio
Antimicrobial resistance (AMR) is one of the greatest threats to global health. If
unaddressed, it is projected to cause over 39 million cumulative deaths globally by
2050 (1). While resistance is a b...
journals.asm.org
September 9, 2025 at 3:24 AM
🚨New Review Out🚨
We explore how phage-antibiotic synergy can dismantle efflux-driven resistance in multidrug-resistant ESKAPEE pathogens. By reprogramming bacterial defences, phages offer a precision strategy to restore antibiotic efficacy.
journals.asm.org/doi/10.1128/...
We explore how phage-antibiotic synergy can dismantle efflux-driven resistance in multidrug-resistant ESKAPEE pathogens. By reprogramming bacterial defences, phages offer a precision strategy to restore antibiotic efficacy.
journals.asm.org/doi/10.1128/...