Subject: New issue: Nucleic Acids Research, Volume 53, Issue 11, 24 June 2025

Nucleic Acids Research

Volume 53, Issue 11, 24 June 2025

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20 Years of Open Access

In 2005 Nucleic Acids Research (NAR) transitioned from a subscription-based publishing model to an open access model. Now, 20 years later, NAR proudly stands as a leading journal in the field of biological sciences, providing barrier-free access to groundbreaking research.

To celebrate this milestone, we have created collection featuring the most cited paper (from standard article types) from each year since 2005. This collection showcases the research excellence that NAR fosters and demonstrates the impact of open access publishing.

Browse the papers

NAR Breakthrough Article

Methylation of mycovirus DNA is mediated by the RNAi machinery in vegetative hyphae of Fusarium graminearum

Yanfei Wang and others

Critical Reviews and Perspectives

Next generation genetic screens in kinetoplastids

James Budzak and T Nicolai Siegel

Chemical Biology and Nucleic Acid Chemistry

The intrinsic preference of guanosine bases for cleavage-facilitating interactions with phosphodiester moieties in RNA anions revealed by base modifications and mass spectrometry

Anna Ploner and others

Impact of a single 8-oxoguanine lesion on Watson'Crick and Hoogsteen base pair hybridization in telomeric DNA quantified using single-molecule force spectroscopy

Yuanlei Cheng and others

Bright and pH-sensitive Baby Spinach aptamer with RNA triplex fusion

Kinuko Ueno and others

Gene Regulation, Chromatin and Epigenetics

p53 reveals principles of chromatin remodeling and enhancer activation

Martin Fischer and others

Pioneering new enhancers by GATA3: role of facilitating transcription factors and chromatin remodeling

Krystal A Orlando and others

Deciphering meiotic chromatin organization by SYCP3

Shimeng Guo and others

Temporal and spatial niche partitioning in a retrotransposon community of the Drosophila melanogaster genome

Marion Varoqui and others

Super-enhancer-mediated circRNAs exhibit high splicing circularization diversity and transcriptional activity

Shaodong Huang and others

Nat10 maintains the homeostasis of pluripotent and 2-cell-like states in mouse embryonic stem cells through mRNA cytidine acetylation

Guofeng Feng and others

An endogenous retroviral element co-opts an upstream regulatory sequence to achieve somatic expression and mobility

Natalia Rubanova and others

Genome Integrity, Repair and Replication

Bacterial RecD2 is a processive single-stranded DNA translocase with strand-switching capacity at DNA forks

Silvia HormeÃ±o and others

Genome rearrangements induced by the stimulation of end-joining of DNA double strand breaks through multiple phosphorylation of MRE11 by the kinase PKB/AKT1

JosÃ©e Guirouilh-Barbat and others

The low endoribonuclease activity and lack of rNMP preference of human mitochondrial topoisomerase 1 protect against ribonucleotide-dependent deletions

Cyrielle P J Bader and others

The mammalian Ku70 C-terminus SAP domain is required to repair DNA damage

Yuan Wang and others

KIF2C condensation concentrates PLK1 and phosphorylated BRCA2 on kinetochore microtubules in mitosis

Anastasiia Skobelkina and others

Genome-wide maps of UV damage repair and mutation suppression by CPD photolyase

Kaitlynne A Bohm and others

R-2-hydroxyglutarate-mediated inhibition of KDM4A compromises telomere integrity

Florence Couteau and others

HIV Vpr activates a nucleolar-specific ATR pathway to degrade the nucleolar stress sensor CCDC137

Karly A Nisson and others

XPC-RAD23B enhances UV-DDB binding to DNA to facilitate lesion search in nucleotide excision repair

Soyeong An and others

Replication stress responses in human lymphocytes change sex-specifically during aging

Melanie Rall-Scharpf and others

Separation of telomere protection from length regulation by two different point mutations at amino acid 492 of RTEL1

Riham Smoom and others

Non-coding Y RNA fragments in a complex with YBX1 modulate PARP1 residency at DNA double strand breaks

Annabelle Shaw and others

Specific origin selection and excess functional MCM2'7 loading in ORC-deficient cells

Yoshiyuki Shibata and others

Genomics

The mutation rate of SARS-CoV-2 is highly variable between sites and is influenced by sequence context, genomic region, and RNA structure

Hugh K Haddox and others

Molecular and Structural Biology

Unlocking the serine mischarging paradox and inhibiting lactyltransferase activity of AlaRS by a single-point mutation

Wooyoung Park and others

Selective engineering of condensation properties of single-stranded DNA binding (SSB) protein via its intrinsically disordered linker region

PÃ©ter EcsÃ©di and others

Asymmetric loading of TnsE regulates Tn7 targeting of DNA replication structures

Shreya S Krishnan and others

VimR is a conserved master transcription regulator controlling virulence and metabolism in Pseudomonas

Fang Chen and others

Phosphorylation of the protamine-like protein from baculovirus affects its DNA binding and virus propagation

Qian Cheng and others

Dynamic ensembles of SARS-CoV-2 N-protein reveal head-to-head coiled-coil-driven oligomerization and phase separation

Guillem Hernandez and others

Selective inhibition of Mycobacterium tuberculosis GpsI unveils a novel strategy to target the RNA metabolism

Tizian Griesser and others

Nucleic Acid Enzymes

Observing nucleotide flipping in DNA using indirect 2²-F nucleotide probes and ¹⁹F NMR

Lakshmi S Pidugu and others

A temperature-driven DNA discrimination strategy to distinguish E. coli DNA and phage 5hmC-modified DNA

Yue Kang and others

Boosting CRISPR/Cas12a intrinsic RNA detection capability through pseudo hybrid DNA'RNA substrate design

Jie Qiao and others

Kinetic analysis and engineering of thermostable Cas12a for nucleic acid detection

Juan Pan and others

Efficient coordination between the winged helix domain and the aromatic-rich loop restructures the ATPase domain and facilitates DNA unwinding by human RECQ1

Tulika Das and others

RNA and RNA-protein complexes

The functionality of telomerase depends on CPF'CF induced 3²end processing of its RNA component TLC1 and a novel Nrd1'Nab3 surveillance mechanism

Jan-Philipp Lamping and Heike Krebber

Deciphering the role of accessory proteins in Arabidopsis chloroplast editosomes via interaction with a synthetic PPR-PLS factor in E. coli

Jose M Lombana and others

Structurally distinct manganese-sensing riboswitch aptamers regulate different expression platform architectures

Christine Stephen and others

Conserved long-range interactions are required for stable folding of orthoflaviviral genomic RNA

Michael Z Palo and others

Roles of dimeric intermediates in RNA-catalyzed rolling circle synthesis

Emil L Kristoffersen and others

IRE1alpha RNase activity is critical for early embryo development by degrading maternal transcripts

Chao Li and others

Landscape of A-I RNA editing in mouse, pig, macaque, and human brains

Conghui Li and others

Synthetic Biology and Bioengineering

Configuration of adaptable template RNA architectures to unfold the editable space of a nuclease prime editor

Pingbo Chen and others

Unraveling the regulatory dynamics of bidirectional promoters for modulating gene co-expression and metabolic flux in Saccharomyces cerevisiae

Zimo Jin and others

High-resolution profiling reveals coupled transcriptional and translational regulation of transgenes

Emma L Peterman and others

Reusing excess staple oligonucleotides for economical production of DNA origami

Giorgia Isinelli and others

Methods

Measuring intramolecular connectivity in long RNA molecules using two-dimensional DNA patch'probe arrays

Timothy K Chiang and others

Visualizing the transcription and replication of influenza A viral RNAs in cells by multiple direct RNA padlock probing and in situ sequencing (mudRapp-seq)

Shazeb Ahmad and others

A flexible, high-throughput system for studying live mRNA translation with HiBiT technology

Camilla Ascanelli and others

Enhanced RNA secondary structure prediction through integrative deep learning and structural context analysis

Yongtian Wang and others

A highly sensitive protein-RNA cross-linking mass spectrometry workflow with enhanced structural modeling potential

Chris P Sarnowski and others

20th Open Access Anniversary

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