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Since its description in 2008, Chromera velia has drawn profound interest as the closest free-­-living photosynthetic relative of apicomplexan parasites that are significant pathogens, causing enormous health and economic problems. There-­- fore, this newly described species holds a great potential to understand evolu-­- tionary basis of how photosynthetic algae evolved into the fully pathogenic Apicomplexa and how their common ancestors may have lived before they evolved into obligate parasites. Hence, the aim of this work is to understand how C. velia function and respond to different environmental conditions. This study aims to reveal how C. velia is able to respond to environmental perturbations that are applied individually and simultaneously since, studying stress factors in separation fails to elucidate complex responses to multi stress factors and un-­- derstanding the systemic regulation of involved genes. To extract biologically significant information and to identify genes involved in various physiological processes under variety of environmental conditions (i.e. a combination of vary-­- ing temperatures, iron availability, and salinity in the growth medium) we pre-­- pared strand specific RNA-­-seq libraries for 83 samples in diverse environmental conditions. Here, we report the set of significantly differentially expressed genes as a re-­- sponse to the each condition and their combinations. Several interesting up-­- regulated and down-­-regulated genes were found and their functions and in-­- volved pathways were studied. We showed that the profound regulation of HSP20 proteins is significant under stress conditions and hypothesized that the-­- se proteins might be involved in their movements.