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Background  The physiological function of eukaryotic DNA occurs in the context of nucleosomal arrays that can expose or obscure defined segments of the genome. Certain DNA sequences are capable of strongly positioning a nucleosome  in vitro , suggesting the possibility that favorable intrinsic signals might reproducibly structure chromatin segments. As high-throughput sequencing analyses of nucleosome coverage  in vitro  and  in vivo  have become possible, a vigorous debate has arisen over the degree to which intrinsic DNA:nucleosome affinities orchestrate the  in vivo  positions of nucleosomes, thereby controlling physical accessibility of specific sequences in DNA.    Results  We describe here the  in vivo  consequences of placing a synthetic high-affinity nucleosome-positioning signal, the 601 sequence, into a DNA plasmid vector in mice. Strikingly, the 601 sequence was sufficient to position nucleosomes during an early phase after introduction of the DNA into the mice (when the plasmid vector transgene was active). This positioning capability was transient, with a loss of strong positioning at a later time point when the transgenes had become silent.    Conclusions  These results demonstrate an ability of DNA sequences selected solely for nucleosome affinity to organize chromatin  in vivo , and the ability of other mechanisms to overcome these interactions in a dynamic nuclear environment.

An in vitro-identified high-affinity nucleosome-positioning signal is capable of transiently positioning a nucleosome in vivo