Project description:This is the first genome-scale model of G. dulcis, an extremely desiccation-tolerant cyanobacterium isolated from the Atacama desert by Azua-Bustos et al. (2014). We sequenced, closed, and annotated the G. dulcis genome, and created the model using KBase, and COBRApy. We included cyanobacterium-based photosynthesis reactions based on Toyoshima et al. (2020).
Project description:FROG and miniFROG reports are provided for the study involving genome-scale modelling the Microbacterium species to identify strain-specific features for metabolic adaptation to the Atacama Desert. The models (Mgcr1 and Mgcr2) are provided in the Supplementary Information of Mandakovic et al, 2020 cited here.
Project description:Regulatory small RNAs (sRNAs) represent a major class of regulatory molecules that play large-scale and essential roles in many cellular processes across all domains of life. Microbial sRNAs have been primarily investigated in a few model organisms and little is known about the dynamics of sRNA synthesis in natural environments, and the roles of these short transcripts at the community level. Analyzing the metatranscriptome of a model extremophilic community inhabiting halite nodules (salt rocks) from the Atacama Desert, sampled over two years with different weather conditions, with SnapT – a new sRNA annotation pipeline – we discovered hundreds of intergenic (itsRNAs) and antisense (asRNAs) sRNAs expressed.
