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A hallmark of bacterial populations cultured in vitro is their homogeneity of growth, where the majority of cells display identical growth rate, cell size and content. Recent insights, however, have revealed that even cells growing in…

Quantitative Methods · Quantitative Biology 2022-06-07 Santosh Pandey , Yunsoo Park , Ankita Ankita , Gregory J. Phillips

Antimicrobial susceptibility testing (AST) is a standard clinical procedure used to quantify antimicrobial resistance (AMR). Currently, the gold standard method requires incubation for 18-24 h and subsequent inspection for growth by a…

Nosocomial outbreaks of bacteria are well-documented. Based on these incidents, and the heavy usage of antibiotics in hospitals, it has been assumed that antibiotic resistance evolves in hospital environments. To test this assumption, we…

Populations and Evolution · Quantitative Biology 2016-10-20 Anna Seigal , Portia Mira , Bernd Sturmfels , Miriam Barlow

As antibiotic resistance continues to pose a significant threat to public health, alternative treatments are urgently needed. Phage therapy, which utilizes bacteriophages to specifically target bacterial pathogens, has emerged as a…

Populations and Evolution · Quantitative Biology 2025-02-27 Blessing Emerenini , Edward Beck , Kathryn Cantrel , Vedat Kurtay

This paper presents a novel positive and negative set selection strategy for contrastive learning of medical images based on labels that can be extracted from clinical data. In the medical field, there exists a variety of labels for data…

Computer Vision and Pattern Recognition · Computer Science 2022-11-10 Kiran Kokilepersaud , Mohit Prabhushankar , Ghassan AlRegib

The results of applying a laser dynamic speckle technique to characterize bacterial activity are presented. The speckle activity was detected in two-compartment Petri dishes. One compartment was inoculated and the other one was left as a…

Antibiotic resistance (AR) is one of the greatest public health challenges worldwide. Processes that allow the reduction of AR predictor of hospital wastewater has become crucial process that contributes to the protection of public health…

Populations and Evolution · Quantitative Biology 2025-06-05 Kornelia Stefaniak , Monika Harnisz , Magdalena Mecik , Ewa Korzeniewska

Analyzing microscopy images to extract biological object properties (e.g., their morphological organization, temporal dynamics, and population density) is fundamental to various biomedical research. Yet conducting this manually is costly…

Computer Vision and Pattern Recognition · Computer Science 2026-05-15 Xiaofei Hui , Haoxuan Qu , Hossein Rahmani , Shuohong Wang , Jeff W. Lichtman , Jun Liu

Due to the low accuracy of object detection and recognition in many intelligent surveillance systems at nighttime, the quality of night images is crucial. Compared with the corresponding daytime image, nighttime image is characterized as…

Computer Vision and Pattern Recognition · Computer Science 2023-07-12 Xinyi Bai , Steffi Agino Priyanka , Hsiao-Jung Tung , Yuankai Wang

While the mechanisms and quantitative details are complex, few analysts would doubt that antibiotic use increases the prevalence of drug-resistant bacterial pathogens among all bacteria causing disease in a population. The causal connection…

Populations and Evolution · Quantitative Biology 2018-03-21 Edward Goldstein , Derek R. MacFadden , Marc Lipsitch

The evolution of antibiotic resistance among bacteria threatens our continued ability to treat infectious diseases. The need for sustainable strategies to cure bacterial infections has never been greater. So far, all attempts to restore…

Populations and Evolution · Quantitative Biology 2015-06-12 Christiane P. Goulart , Mentar Mahmudi , Kristina A. Crona , Stephen D. Jacobs , Marcelo Kallmann , Barry G. Hall , Devin C. Greene , Miriam Barlow

The alarming growth of the antibiotic-resistant superbugs methicillin-resistant Staphylococcus aureus (MRSA) and vancomycin-resistant Enterococcus (VRE) is driving the development of new technologies to investigate antibiotics and their…

Antimicrobial resistance (AMR) is a growing public health threat, estimated to cause over 10 million deaths per year and cost the global economy 100 trillion USD by 2050 under status quo projections. These losses would mainly result from an…

Nutrient limitation is one of the most common triggers of antibiotic tolerance and persistence. Here, we present two microfluidic setups to study how spatial and temporal variation in nutrient availability lead to increased survival of…

Quantitative Methods · Quantitative Biology 2020-10-29 Stefany Moreno-Gámez , Alma Dal Co , Simon van Vliet , Martin Ackermann

We propose an imaging system and methodology for mapping soft-tissue samples in three dimensions, with micron-scale and isotropic spatial resolution, with low-concentrations as well as in the absence of heavy metal staining. We used hard…

Instrumentation and Detectors · Physics 2023-12-21 Michela Esposito , Nicole Schieber , Alessandro Olivo , Yannick Schwab , Marco Endrizzi

A major public health issue is the growing resistance of bacteria to antibiotics. An important part of the needed response is the discovery and development of new antimicrobial strategies. These require the screening of potential new drugs,…

Applications · Statistics 2026-02-19 Byran Smucker , Benjamin Brennan , Emily Rego , Meng Wu , Zhihong Lin , Brian Ahmer , Blake Peterson

The investigation of spatio-temporal dynamics of bacterial cells and their molecular components requires automated image analysis tools to track cell shape properties and molecular component locations inside the cells. In the study of…

Computer Vision and Pattern Recognition · Computer Science 2016-12-23 Jean-Pascal Jacob , Mariella Dimiccoli , Lionel Moisan

X-ray microtomography is a versatile tool allowing the measurement of the 3D structure of optically thick samples. As a non-destructive technique, it is readily adapted to 4D imaging, where a sample can be monitored over time, and…

Instrumentation and Detectors · Physics 2025-12-17 Harry Allan , Tom Partridge , Joseph Jacob , Marco Endrizzi

The emergence of the phenomenon known as ABR (anti-bacterial resistance), is the result of the gradual decrease in the efficacy of antibiotics and the increase in the cost of producing new antibiotics. Hence, alternative solutions to…

Populations and Evolution · Quantitative Biology 2024-02-08 Nouf Alghamdi , Mal Horsburgh , Bakhtier Vasiev

Antibiotics resistance has caused much complication in the treatment of diseases, where the pathogen is no longer susceptible to specific antibiotics and the use of such antibiotics are no longer effective for treatment. A recent study that…

Populations and Evolution · Quantitative Biology 2023-02-28 Clarence FG Castillo , Zhu En Chay , Maurice HT Ling
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