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Harmful algae blooms (HABs), which produce lethal toxins, are a growing global concern since they negatively affect the quality of drinking water and have major negative impact on wildlife, the fishing industry, as well as tourism and…
Under the impact of global climate changes and human activities, harmful algae blooms in surface waters have become a growing concern due to negative impacts on water related industries. Therefore, reliable and cost effective methods of…
Some microalgae store large amounts of neutral lipids inside lipid droplets. Since these lipids can be used to produce biodiesel in a sustainable way, research is developing on fast non-destructive methods to quantify and monitor the amount…
Microorganisms such as bacteria and fungi play essential roles in many application fields, like biotechnique, medical technique and industrial domain. Microorganism counting techniques are crucial in microorganism analysis, helping…
Current methods for microplastic identification in water samples are costly and require expert analysis. Here, we propose a deep learning segmentation model to automatically identify microplastics in microscopic images. We labeled images of…
Understanding how biological communities respond to environmental changes is a key challenge in ecology and ecosystem management. The apparent decline of insect populations necessitates more biomonitoring but the time-consuming sorting and…
Analysis of microscopy images is one important tool in many fields of biomedical research, as it allows the quantification of a multitude of parameters at the cellular level. However, manual counting of these images is both tiring and…
A disconcerting ramification of water pollution caused by burgeoning populations, rapid industrialization and modernization of agriculture, has been the exponential increase in the incidence of algal growth across the globe. Harmful algal…
A strategy based on photo sequencing batch operation was used to select cyanobacteria over unsettled green algae in a wastewater treatment system, evaluating for the first time the effect of hydraulic regimes on nutritional dynamics and…
Microalgae, vital for ecological balance and economic sectors, present challenges in detection due to their diverse sizes and conditions. This paper summarizes the second "Vision Meets Algae" (VisAlgae 2023) Challenge, aiming to enhance…
Characterizing the tissue morphology and anatomy of seagrasses is essential to predicting their acoustic behavior. In this pilot study, we use histology techniques and whole slide imaging (WSI) to describe the composition and topology of…
Metagenomics sequencing is routinely applied to quantify bacterial abundances in microbiome studies, where the bacterial composition is estimated based on the sequencing read counts. Due to limited sequencing depth and DNA dropouts, many…
Phototaxis is a light driven self-locomotion of mass and a common phenomenon in motile organisms with varieties of motility such as in bacteria, algae, etc. In naturally occurring organisms, mechanical force is generated utilising their…
Photo-identification (photo-id) is one of the main non-invasive capture-recapture methods utilised by marine researchers for monitoring cetacean (dolphin, whale, and porpoise) populations. This method has historically been performed…
Analysis of microscope images is a tedious work which requires patience and time, usually done manually by the microscopist after data collection. Here we introduce an approach of automatic image analysis, which is based on locally applied…
Microalgae are an important source of precursors (e.g. lipids) for a variety of biosynthetic processes (e.g. biofuel production). Their co-culturing with other organisms providing essential substrates for growth may reduce cost and provide…
Organoids are self-organized 3D cell clusters that closely mimic the architecture and function of in vivo tissues and organs. Quantification of organoid morphology helps in studying organ development, drug discovery, and toxicity…
Counting cells in fluorescent microscopy is a tedious, time-consuming task that researchers have to accomplish to assess the effects of different experimental conditions on biological structures of interest. Although such objects are…
Microalgae have been shown as a potential bioresource for food, biofuel, and pharmaceutical products. During the growth phases with corresponding environmental conditions, microalgae accumulate different amounts of various metabolites. We…
Microbial communities play a key role in biological wastewater treatment processes. Activated sludge settling characteristics, for example, are affected by microbial community composition, varying by changes in operating conditions and…