Determination of in vivo target search kinetics of regulatory noncoding RNA

Jingyi Fei, Digvijay Singh, Qiucen Zhang, Seongjin Park, Divya Balasubramanian, Ido Golding, Carin K. Vanderpool, Taekjip Ha

Research output: Contribution to journalArticlepeer-review

78 Scopus citations


Base-pairing interactions between nucleic acids mediate target recognition in many biological processes.We developed a super-resolution imaging and modeling platform that enabled the in vivo determination of base pairing-mediated target recognition kinetics.We examined a stress-induced bacterial small RNA, SgrS, which induces the degradation of target messenger RNAs (mRNAs). SgrS binds to a primary target mRNA in a reversible and dynamic fashion, and formation of SgrS-mRNA complexes is rate-limiting, dictating the overall regulation efficiency in vivo. Examination of a secondary target indicated that differences in the target search kinetics contribute to setting the regulation priority among different target mRNAs.This super-resolution imaging and analysis approach provides a conceptual framework that can be generalized to other small RNA systems and other target search processes.

Original languageEnglish (US)
Pages (from-to)1371-1374
Number of pages4
Issue number6228
StatePublished - Mar 20 2015
Externally publishedYes

ASJC Scopus subject areas

  • General


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