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Since they emerged approximately 125 million years ago, flowering plants have evolved to dominate the terrestrial landscape and survive in the most inhospitable environments on earth. At their core, these adaptations have been shaped by changes in numerous, interconnected pathways and genes that collectively give rise to emergent biological phenomena. Linking gene expression to morphological outcomes remains a grand challenge in biology, and new approaches are needed to begin to address this gap. Here, we implemented topological data analysis (TDA) to summarize the high dimensionality and noisiness of gene expression data using lens functions that delineate plant tissue and stress responses. Using this framework, we created a topological representation of the shape of gene expression across plant evolution, development, and environment for the phylogenetically diverse flowering plants. The TDA-based Mapper graphs form a well-defined gradient of tissues from leaves to seeds, or from healthy to stressed samples, depending on the lens function. This suggests that there are distinct and conserved expression patterns across angiosperms that delineate different tissue types or responses to biotic and abiotic stresses. Genes that correlate with the tissue lens function are enriched in central processes such as photosynthetic, growth and development, housekeeping, or stress responses. Together, our results highlight the power of TDA for analyzing complex biological data and reveal a core expression backbone that defines plant form and function. 

Abstract During the Remote Sensing of Electrification, Lightning, and Mesoscale/Microscale Processes with Adaptive Ground Observations-Cloud, Aerosol, and Complex Terrain Interactions (RELAMPAGO-CACTI) field experiments in 2018–19, an unprecedented number of balloon-borne soundings were collected in Argentina. Radiosondes were launched from both fixed and mobile platforms, yielding 2712 soundings during the period 15 October 2018–30 April 2019. Approximately 20% of these soundings were collected by highly mobile platforms, strategically positioned for each intensive observing period, and launching approximately once per hour. The combination of fixed and mobile soundings capture both the overall conditions characterizing the RELAMPAGO-CACTI campaign, as well as the detailed evolution of environments supporting the initiation and upscale growth of deep convective storms, including some that produced hazardous hail and heavy rainfall. Episodes of frequent convection were characterized by sufficient quantities of moisture and instability for deep convection, along with deep-layer vertical wind shear supportive of organized or rotating storms. A total of 11 soundings showed most unstable convective available potential energy (MUCAPE) exceeding 6000 J kg −1 , comparable to the extreme instability observed in other parts of the world with intense deep convection. Parameters used to diagnose severe-storm potential showed that conditions were often favorable for supercells and severe hail, but not for tornadoes, primarily because of insufficient low-level wind shear. High-frequency soundings also revealed the structure and evolution of the boundary layer leading up to convection initiation, convectively generated cold pools, the South American low-level jet (SALLJ), and elevated nocturnal convection. This sounding dataset will enable improved understanding and prediction of convective storms and their surroundings in subtropical South America, as well as comparisons with other heavily studied regions such as the central United States that have not previously been possible.