1. Academic Validation
  2. Transcriptional pause extension benefits the stand-by rather than catch-up Rho-dependent termination

Transcriptional pause extension benefits the stand-by rather than catch-up Rho-dependent termination

  • Nucleic Acids Res. 2023 Feb 10;gkad051. doi: 10.1093/nar/gkad051.
Eunho Song 1 Seungha Hwang 2 Palinda Ruvan Munasingha 3 Yeon-Soo Seo 3 Jin Young Kang 2 Changwon Kang 3 4 Sungchul Hohng 1
Affiliations

Affiliations

  • 1 Department of Physics and Astronomy, and Institute of Applied Physics, Seoul National University, Seoul 08826, Republic of Korea.
  • 2 Department of Chemistry, Korea Advanced Institute of Science and Technology, Daejeon 34141, Republic of Korea.
  • 3 Department of Biological Sciences, Korea Advanced Institute of Science and Technology, Daejeon 34141, Republic of Korea.
  • 4 KAIST Stem Cell Center, Korea Advanced Institute of Science and Technology, Daejeon 34141, Republic of Korea.
Abstract

Transcriptional pause is essential for all types of termination. In this single-molecule study on Bacterial Rho factor-dependent terminators, we confirm that the three Rho-dependent termination routes operate compatibly together in a single terminator, and discover that their termination efficiencies depend on the terminational pauses in unexpected ways. Evidently, the most abundant route is that Rho binds nascent RNA first and catches up with paused RNA polymerase (RNAP) and this catch-up Rho mediates simultaneous releases of transcript RNA and template DNA from RNAP. The fastest route is that the catch-up Rho effects RNA-only release and leads to 1D recycling of RNAP on DNA. The slowest route is that the RNAP-prebound stand-by Rho facilitates only the simultaneous rather than sequential releases. Among the three routes, only the stand-by Rho's termination efficiency positively correlates with pause duration, contrary to a long-standing speculation, invariably in the absence or presence of NusA/NusG factors, competitor RNAs or a crowding agent. Accordingly, the essential terminational pause does not need to be long for the catch-up Rho's terminations, and long pauses benefit only the stand-by Rho's terminations. Furthermore, the Rho-dependent termination of mgtA and ribB riboswitches is controlled mainly by modulation of the stand-by rather than catch-up termination.

Figures
Products
  • Cat. No.
    Product Name
    Description
    Target
    Research Area
  • HY-19488A
    99.68%, Bacterial Riboflavin Riboswitches Inhibitor