Trcek Lab
@trceklab.bsky.social
New paper from the Trcek lab, with Siran Tian as the lead author - congratulations Siran!: www.nature.com/articles/s41...
Controlling intermolecular base pairing in Drosophila germ granules by mRNA folding and its implications in fly development - Nature Communications
Tian et al. show that RNA folding limits extensive base pairing among mRNAs in Drosophila germ granules. Instead, mRNAs interact via scattered bases exposed on the surface of folded RNAs, which may pr...
www.nature.com
August 30, 2025 at 11:13 PM
New paper from the Trcek lab, with Siran Tian as the lead author - congratulations Siran!: www.nature.com/articles/s41...
Reposted by Trcek Lab
New preprint from the Trcek lab - Jeffrey Liao as the lead author! We studied intermolecular base pairing using AMT crosslinking in mammalian cells during oxidative stress doi.org/10.1101/2025...
Characterization of intermolecular base pairing using AMT crosslinking in mammalian cells during oxidative stress
Cellular stress induces global translational repression, leading to exposure of RNA sequences that could engage in intermolecular base pairing. However, characterization of these interactions in stres...
doi.org
May 28, 2025 at 11:43 AM
New preprint from the Trcek lab - Jeffrey Liao as the lead author! We studied intermolecular base pairing using AMT crosslinking in mammalian cells during oxidative stress doi.org/10.1101/2025...
Reposted by Trcek Lab
Our new paper is out in PNAS! We show that competition for binding to the Hfq matchmaker disfavors mismatched sRNA-mRNA combinations while allowing matched sRNA-mRNAs to form stable pairs. Kudos to Jorjethe Roca and Yi-Lan Chen for their fantastic work on this problem! doi.org/10.1073/pnas...
Competition for Hfq drives kinetic selection of mRNA targets by Escherichia coli small noncoding RNAs | PNAS
Small noncoding RNAs (sRNAs) regulate gene expression in Escherichia coli bacteria
in response to diverse stimuli in the environment and the host. ...
doi.org
July 19, 2025 at 12:36 AM
Our new paper is out in PNAS! We show that competition for binding to the Hfq matchmaker disfavors mismatched sRNA-mRNA combinations while allowing matched sRNA-mRNAs to form stable pairs. Kudos to Jorjethe Roca and Yi-Lan Chen for their fantastic work on this problem! doi.org/10.1073/pnas...
Reposted by Trcek Lab
Congrats, Jorjethe and Yi-Lan! 👏👏
Our new paper is out in PNAS! We show that competition for binding to the Hfq matchmaker disfavors mismatched sRNA-mRNA combinations while allowing matched sRNA-mRNAs to form stable pairs. Kudos to Jorjethe Roca and Yi-Lan Chen for their fantastic work on this problem! doi.org/10.1073/pnas...
Competition for Hfq drives kinetic selection of mRNA targets by Escherichia coli small noncoding RNAs | PNAS
Small noncoding RNAs (sRNAs) regulate gene expression in Escherichia coli bacteria
in response to diverse stimuli in the environment and the host. ...
doi.org
July 19, 2025 at 10:35 AM
Congrats, Jorjethe and Yi-Lan! 👏👏
Reposted by Trcek Lab
New method drop:
HCR-Proxy, a modular proximity labelling approach to profile local proteome composition around RNA at nanoscale, subcompartmental resolution. Thereby we resolved nested nucleolar layers and uncovered the grammar of spatial protein partitioning.
www.biorxiv.org/content/10.1...
HCR-Proxy, a modular proximity labelling approach to profile local proteome composition around RNA at nanoscale, subcompartmental resolution. Thereby we resolved nested nucleolar layers and uncovered the grammar of spatial protein partitioning.
www.biorxiv.org/content/10.1...
June 2, 2025 at 10:30 AM
New method drop:
HCR-Proxy, a modular proximity labelling approach to profile local proteome composition around RNA at nanoscale, subcompartmental resolution. Thereby we resolved nested nucleolar layers and uncovered the grammar of spatial protein partitioning.
www.biorxiv.org/content/10.1...
HCR-Proxy, a modular proximity labelling approach to profile local proteome composition around RNA at nanoscale, subcompartmental resolution. Thereby we resolved nested nucleolar layers and uncovered the grammar of spatial protein partitioning.
www.biorxiv.org/content/10.1...
Reposted by Trcek Lab
Excited to share our lab's preprint! We found that flexible RNAs have much broadened ion atmospheres than structured RNAs. This leads us to speculate the implications on molecular recognition and phase behavior. Please check full text for other interesting details www.biorxiv.org/content/10.1...
RNA structural complexity dictates its ion atmosphere
Electrostatic interactions mediated by the surrounding ions govern virtually every facet of RNA behavior. Most studies have focused on rigid, well-folded motifs, leaving the structurally heteregeneous...
www.biorxiv.org
May 28, 2025 at 6:42 PM
Excited to share our lab's preprint! We found that flexible RNAs have much broadened ion atmospheres than structured RNAs. This leads us to speculate the implications on molecular recognition and phase behavior. Please check full text for other interesting details www.biorxiv.org/content/10.1...
Reposted by Trcek Lab
Characterization of intermolecular base pairing using AMT crosslinking in mammalian cells during oxidative stress https://www.biorxiv.org/content/10.1101/2025.05.21.655305v1
May 27, 2025 at 8:19 AM
Characterization of intermolecular base pairing using AMT crosslinking in mammalian cells during oxidative stress https://www.biorxiv.org/content/10.1101/2025.05.21.655305v1
Reposted by Trcek Lab
Characterization of intermolecular base pairing using AMT crosslinking in mammalian cells during oxidative stress https://www.biorxiv.org/content/10.1101/2025.05.21.655305v1
May 27, 2025 at 8:19 AM
Characterization of intermolecular base pairing using AMT crosslinking in mammalian cells during oxidative stress https://www.biorxiv.org/content/10.1101/2025.05.21.655305v1
New preprint from the Trcek lab - Jeffrey Liao as the lead author! We studied intermolecular base pairing using AMT crosslinking in mammalian cells during oxidative stress doi.org/10.1101/2025...
Characterization of intermolecular base pairing using AMT crosslinking in mammalian cells during oxidative stress
Cellular stress induces global translational repression, leading to exposure of RNA sequences that could engage in intermolecular base pairing. However, characterization of these interactions in stres...
doi.org
May 28, 2025 at 11:43 AM
New preprint from the Trcek lab - Jeffrey Liao as the lead author! We studied intermolecular base pairing using AMT crosslinking in mammalian cells during oxidative stress doi.org/10.1101/2025...