High-throughput functional characterization of microbial activity using automation and AI-powered spatial and temporal image analysis

Current methods for studying cellulolytic microorganisms in solid cultures are laborious and limited by low spatial and temporal resolution. This hinders progress in critical areas such as biofuel production, waste management, and industrial biotechnology, where understanding microbial activity is crucial for process optimization and innovation. The Mira2 system addresses these challenges by integrating multi-modal imaging capabilities, including visible light, fluorescence, and Short-Wave Infrared (SWIR) hyperspectral imaging, into a single, automated benchtop incubator. This approach enables non-invasive, real-time monitoring of cellulolytic activity in solid cultures with high spatial and temporal resolution, providing unprecedented insights into microbial processes. In Phase I, we will develop and validate a novel multi-modal incubator-imaging system, focusing on three key objectives: (1) Integration of multi-modal imaging systems into a compact, automated incubator prototype; (2) Development of AI-driven image analysis software for hyperspectral data processing and chemical mapping during microbial growth; and (3) Demonstration of the system's capabilities through a series of experiments monitoring cellulolytic activity in fungal cultures. These efforts will establish the feasibility of the Mira2 system and lay the groundwork for further development in Phase II. As this project progresses through Phase II and beyond, it has the potential to revolutionize microbial research and biotechnology applications across multiple sectors. Thiis technology could significantly accelerate the development of more efficient biofuel production processes by providing real-time, non-invasive monitoring of cellulolytic activity. This could lead to optimized strains and processes, potentially reducing costs and increasing the competitiveness of renewable energy sources. These advanced imaging capabilities could speed up drug discovery processes by providing detailed insights into microbial interactions and metabolic activities. This could be particularly valuable in developing new antibiotics or studying the human microbiome. The technology could optimize various bioprocesses in industries such as food production, textiles, and chemical manufacturing. Real-time monitoring of enzymatic activities could lead to more efficient and cost-effective production methods. This technology could contribute to the development of more sustainable agricultural practices by enhancing our understanding of plant-microbe interactions and soil health. Public benefits include potential advancements in renewable energy production, improved environmental management strategies, and accelerated development of new medicines and biotechnologies. This technology could also contribute to addressing global challenges such as climate change mitigation and food security through its applications in various scientific and industrial fields.