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RNA polymerase II is a polar roadblock to a progressing DNA fork.
Kay TM, Inman JT, Lubkowska L, Le TT, Qian J, Hall PM, Batra S, Remus D, Wang D, Kashlev M, Wang MD. Kay TM, et al. Among authors: remus d. Nat Commun. 2025 Sep 29;16(1):8631. doi: 10.1038/s41467-025-63662-1. Nat Commun. 2025. PMID: 41022786 Free PMC article.
Moreover, an elongating Pol II with a long RNA transcript becomes an even more potent roadblock, mediated by RNA-DNA hybrid formation. Surprisingly, when a Pol II collides with the DNA fork head-on and becomes backtracked, a hybrid can form in front of Pol II, creat …
Moreover, an elongating Pol II with a long RNA transcript becomes an even more potent roadblock, mediated by RNA-DNA hybrid formation …
G-quadruplex-stalled eukaryotic replisome structure reveals helical inchworm DNA translocation.
Batra S, Allwein B, Kumar C, Devbhandari S, Brüning JG, Bahng S, Lee CM, Marians KJ, Hite RK, Remus D. Batra S, et al. Among authors: remus d. Science. 2025 Mar 7;387(6738):eadt1978. doi: 10.1126/science.adt1978. Epub 2025 Mar 7. Science. 2025. PMID: 40048517 Free PMC article.
DNA G-quadruplexes (G4s) are non-B-form DNA secondary structures that threaten genome stability by impeding DNA replication. To elucidate how G4s induce replication fork arrest, we characterized fork collisions with preformed G4s in the parental …
DNA G-quadruplexes (G4s) are non-B-form DNA secondary structures that threaten genome stability by impeding DNA repl …
Looping out of control: R-loops in transcription-replication conflict.
Kumar C, Remus D. Kumar C, et al. Among authors: remus d. Chromosoma. 2024 Jan;133(1):37-56. doi: 10.1007/s00412-023-00804-8. Epub 2023 Jul 7. Chromosoma. 2024. PMID: 37419963 Free PMC article. Review.
The block to DNA replication by the transcription machinery is complex and can involve stalled or elongating RNA polymerases, promoter-bound transcription factor complexes, or DNA topology constraints. In addition, studies over the past two decades have ident …
The block to DNA replication by the transcription machinery is complex and can involve stalled or elongating RNA polymerases, …
A transcription-based approach to purify R-loop-containing plasmid DNA templates in vitro.
Kumar C, Remus D. Kumar C, et al. Among authors: remus d. STAR Protoc. 2023 Mar 17;4(1):101937. doi: 10.1016/j.xpro.2022.101937. Epub 2022 Dec 13. STAR Protoc. 2023. PMID: 36520635 Free PMC article.
To study the direct effects of R-loops on DNA replication and other DNA-templated processes in vitro, R-loop-containing DNA templates need to be prepared efficiently and to near homogeneity. Here, we describe a simple transcription-based approach to fo …
To study the direct effects of R-loops on DNA replication and other DNA-templated processes in vitro, R-loop-containing …
Multistep loading of a DNA sliding clamp onto DNA by replication factor C.
Schrecker M, Castaneda JC, Devbhandari S, Kumar C, Remus D, Hite RK. Schrecker M, et al. Among authors: remus d. Elife. 2022 Aug 8;11:e78253. doi: 10.7554/eLife.78253. Elife. 2022. PMID: 35939393 Free PMC article.
The DNA sliding clamp proliferating cell nuclear antigen (PCNA) is an essential co-factor for many eukaryotic DNA metabolic enzymes. PCNA is loaded around DNA by the ATP-dependent clamp loader replication factor C (RFC), which acts at single-stranded ( …
The DNA sliding clamp proliferating cell nuclear antigen (PCNA) is an essential co-factor for many eukaryotic DNA metabolic en …
CMG helicase activity on G4-containing DNA templates.
Batra S, Devbhandari S, Remus D. Batra S, et al. Among authors: remus d. Methods Enzymol. 2022;672:233-260. doi: 10.1016/bs.mie.2022.02.020. Epub 2022 Mar 25. Methods Enzymol. 2022. PMID: 35934477 Free PMC article.
G-quadruplexes (G4s) are non-canonical nucleic acid structures that form in G-rich regions of the genome and threaten genome stability by interfering with DNA replication. However, the underlying mechanisms are poorly understood. We have recently found that G4s can …
G-quadruplexes (G4s) are non-canonical nucleic acid structures that form in G-rich regions of the genome and threaten genome stability by in …
Yeast ORC sumoylation status fine-tunes origin licensing.
Regan-Mochrie G, Hoggard T, Bhagwat N, Lynch G, Hunter N, Remus D, Fox CA, Zhao X. Regan-Mochrie G, et al. Among authors: remus d. Genes Dev. 2022 Aug 4;36(13-14):807-21. doi: 10.1101/gad.349610.122. Online ahead of print. Genes Dev. 2022. PMID: 35926881 Free PMC article.
The origin recognition complex (ORC) that directs DNA replication initiation by loading the MCM replicative helicase onto origins is sumoylated in both yeast and human cells. ...
The origin recognition complex (ORC) that directs DNA replication initiation by loading the MCM replicative helicase on …
A hypomorphic mutation in Pold1 disrupts the coordination of embryo size expansion and morphogenesis during gastrulation.
Chen T, Alcorn H, Devbhandari S, Remus D, Lacy E, Huangfu D, Anderson KV. Chen T, et al. Among authors: remus d. Biol Open. 2022 Aug 15;11(8):bio059307. doi: 10.1242/bio.059307. Epub 2022 Aug 8. Biol Open. 2022. PMID: 35876795 Free PMC article.
However, it remains unclear how mechanisms driving lineage specification and morphogenesis respond to defects in cell proliferation during and after gastrulation. Null mutations in DNA replication or cell-cycle-related genes frequently lead to cell-cycle arrest and …
However, it remains unclear how mechanisms driving lineage specification and morphogenesis respond to defects in cell proliferation during a …
Mobile origin-licensing factors confer resistance to conflicts with RNA polymerase.
Scherr MJ, Wahab SA, Remus D, Duderstadt KE. Scherr MJ, et al. Among authors: remus d. Cell Rep. 2022 Mar 22;38(12):110531. doi: 10.1016/j.celrep.2022.110531. Cell Rep. 2022. PMID: 35320708 Free PMC article.
Fundamental to our understanding of chromosome duplication is the idea that replication origins function both as sites where MCM helicases are loaded during the G1 phase and where synthesis begins in S phase. However, the temporal delay between phases exposes the replisome …
Fundamental to our understanding of chromosome duplication is the idea that replication origins function both as sites where MCM heli …
Mechanisms of loading and release of the 9-1-1 checkpoint clamp.
Castaneda JC, Schrecker M, Remus D, Hite RK. Castaneda JC, et al. Among authors: remus d. Nat Struct Mol Biol. 2022 Apr;29(4):369-375. doi: 10.1038/s41594-022-00741-7. Epub 2022 Mar 21. Nat Struct Mol Biol. 2022. PMID: 35314831 Free PMC article.
Here, we present structures of the yeast checkpoint clamp loader, Rad24-replication factor C (RFC), in complex with 9-1-1 and a 5' junction and in a post-ATP-hydrolysis state. Unexpectedly, 9-1-1 adopts both closed and planar open states in the presence of Rad24-RFC and …
Here, we present structures of the yeast checkpoint clamp loader, Rad24-replication factor C (RFC), in complex with 9-1-1 and a 5' ju …
29 results