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The availability of databases electronically encoding curated regulatorynetworks and of high-throughput technologies and methods to discover regulatoryinteractions provides an invaluable source of data to understand the principlesunderpinning the organization and evolution of these networks responsible forcellular regulation. Nevertheless, data on these sources never goes beyond theregulon level despite the fact that regulatory networks are complexhierarchical-modular structures still challenging our understanding. Thisbrings the necessity for an inventory of systems across a large range oforganisms, a key step to rendering feasible comparative systems biologyapproaches. In this work, we take the first step towards a global understandingof the regulatory networks organization by making a cartography of thefunctional architectures of diverse bacteria. Abasy (Across-bacteria systems)Atlas provides a comprehensive inventory of annotated functional systems,global network properties, and systems-level elements (global regulators,modular genes shaping functional systems, basal machinery genes, andintermodular genes) predicted by the natural decomposition approach forreconstructed and meta-curated regulatory networks across a large range ofbacteria, including pathogenically and biotechnologically relevant organisms.The meta-curation of regulatory datasets provides the most complete andreliable set of regulatory interactions currently available. Abasy Atlascontains systems and system-level elements for 50 regulatory networkscomprising 78,649 regulatory interactions covering 42 bacteria in nine taxa,containing 3,708 regulons and 1,776 systems. All this brings together a largecorpus of data that will surely inspire studies to generate hypothesisregarding the principles governing the evolution and organization of systemsand the functional architectures controlling them.

Abasy Atlas: A comprehensive inventory of systems, global network properties and systems-level elements across bacteria