Streptomyces genomes encode two homologs of the nucleoid-associated HU proteins. One of them, here designated HupA, is of a conventional type similar to E. coli HU␣ and HU, while the other, HupS, is a two-domain protein. In addition to the N-terminal part that is similar to that of HU proteins, it has a C-terminal domain that is similar to the alanine-and lysine-rich C termini of eukaryotic linker histones. Such two-domain HU proteins are found only among Actinobacteria. In this phylum some organisms have only a single HU protein of the type with a C-terminal histone H1-like domain (e.g., Hlp in Mycobacterium smegmatis), while others have only a single conventional HU. Yet others, including the streptomycetes, produce both types of HU proteins. We show here that the two HU genes in Streptomyces coelicolor are differentially regulated and that hupS is specifically expressed during sporulation, while hupA is expressed in vegetative hyphae. The developmental upregulation of hupS occurred in sporogenic aerial hyphal compartments and was dependent on the developmental regulators whiA, whiG, and whiI. HupS was found to be nucleoid associated in spores, and a hupS deletion mutant had an average nucleoid size in spores larger than that in the parent strain. The mutant spores were also defective in heat resistance and spore pigmentation, although they possessed apparently normal spore walls and displayed no increased sensitivity to detergents. Overall, the results show that HupS is specifically involved in sporulation and may affect nucleoid architecture and protection in spores of S. coelicolor. Bacteria face the formidable task of compacting their chromosomes to accommodate them in a small cytoplasmic volume and at the same time maintaining the nucleoids in a highly organized and dynamic state so that transcription, DNA replication, and chromosome partitioning can take place with accuracy and speed. DNA also has to be protected from damage to preserve the genomic information, for example, during periods of nongrowth. The structure and organization of bacterial chromatin are shaped by compacting forces, like DNA supercoiling and macromolecular crowding, and by small, basic, nucleoid-associated proteins (reviewed in, e.g., references 33, 34, 50, and 54). Such proteins are often referred to as histone like, although they share no sequence homology with eukaryotic histones and constitute a very heterogeneous group. They include HU-like proteins, which are ubiquitous in bacteria and often abundant, for example, Escherichia coli HU, which is a homo-or heterodimer of the homologous subunits ␣ and  (21). HU binds to DNA without sequence specificity and can contribute to nucleoid compaction by bending or wrapping DNA. Other nucleoid-associated proteins, like IHF, H-NS, Lrp, and Fis, can wrap or bridge segments of DNA (33,34). Together with the condensin/cohesin-like SMC and MukB proteins, they contribute to the global compaction and dynamic organization of bacterial chromosomes, as well as to local effects on DNA topology tha...