According to the competitive exclusion principle, species with low competitive abilities should be excluded by more efficient competitors, and yet they generally remain as rare species. Here, we describe the positive and negative spatial association networks of 326 disparate assemblages, showing a general organization pattern that simultaneously supports the primacy of competition and the persistence of rare species. Abundant species monopolize negative associations in about 90% of the assemblages. Contrarily, rare species are mostly involved in positive associations, forming small network modules. Simulations suggest that positive interactions among rare species and microhabitat preferences are the most likely mechanisms underpinning this pattern and rare species persistence. The