Nature Reviews Genetics, Published online: 01 December 2025; doi:10.1038/s41576-025-00924-0In this Tools of the Trade article, Shubham Khetan presents PADIT-seq (protein affinity to DNA by in vitro transcription and RNA sequencing), which enables the reliable identification of low-affinity DNA binding sites for transcription factors.

Nature Reviews Genetics, Published online: 28 November 2025; doi:10.1038/s41576-025-00908-0Genome-wide association studies of increasing scale have revealed the prevalence of pleiotropic genetic variants that affect multiple traits. In this Review, the authors overview the statistical methods and approaches used to identify these pleiotropic genetic variants and dissect how they contribute to shared mechanisms of diseases.

Nature Reviews Genetics, Published online: 28 November 2025; doi:10.1038/s41576-025-00918-yEngelberts and Tyson discuss the potential and challenges of microbial single-cell genomics, emphasizing the integration of single-cell omics and meta-omics data as a promising opportunity to reveal the ecological and evolutionary processes that shape microbial communities.

Nature Reviews Genetics, Published online: 03 December 2025; doi:10.1038/s41576-025-00912-4Ancient DNA techniques are being applied to study increasingly diverse pathogens of the past. The authors review the latest insights into pathogen–host coevolution, zoonotic events and the spread of pathogens, all while highlighting the importance of a One Health approach to this research.

Nature Reviews Genetics, Published online: 10 November 2025; doi:10.1038/s41576-025-00913-3In this Tools of the Trade article, Shaoqian Ma discusses scFLUENT-seq, a method that enables quantitative, genome-wide analysis of nascent transcription in single cells.

Nature Reviews Genetics, Published online: 01 December 2025; doi:10.1038/s41576-025-00924-0In this Tools of the Trade article, Shubham Khetan presents PADIT-seq (protein affinity to DNA by in vitro transcription and RNA sequencing), which enables the reliable identification of low-affinity DNA binding sites for transcription factors.

Nature Reviews Genetics, Published online: 28 November 2025; doi:10.1038/s41576-025-00918-yEngelberts and Tyson discuss the potential and challenges of microbial single-cell genomics, emphasizing the integration of single-cell omics and meta-omics data as a promising opportunity to reveal the ecological and evolutionary processes that shape microbial communities.

Nature Reviews Genetics, Published online: 28 November 2025; doi:10.1038/s41576-025-00908-0Genome-wide association studies of increasing scale have revealed the prevalence of pleiotropic genetic variants that affect multiple traits. In this Review, the authors overview the statistical methods and approaches used to identify these pleiotropic genetic variants and dissect how they contribute to shared mechanisms of diseases.

Nature Reviews Genetics - In this Review, Pinto and Bhatt provide an overview of DNA-sequencing and RNA-sequencing approaches that can be used to study the composition, structure, and function of...

Nature Reviews Genetics, Published online: 06 November 2025; doi:10.1038/s41576-025-00904-4In this Review, Chen et al. discuss how the advancement and integration of large-scale genetic resources, multi-omics data and sophisticated computational tools are improving drug development pipelines.

Nature Reviews Genetics, Published online: 18 November 2025; doi:10.1038/s41576-025-00907-1CRISPR-based genome editing has revolutionized biotechnology, enabling precise DNA modifications for research and therapy. The authors review how artificial intelligence, including deep learning, is advancing genome editing by improving guide RNA design, editor protein engineering, novel effector discovery and predicting editing outcomes.

Nature Reviews Genetics, Published online: 18 November 2025; doi:10.1038/s41576-025-00919-xIn this Journal Club, Nozomu Yachie recalls a 1999 paper by Pellegrini, Marcotte and colleagues that demonstrated how functional information, such as protein--protein interactions, could be revealed through patterns of genetic diversity across species.

Nature Reviews Genetics, Published online: 04 November 2025; doi:10.1038/s41576-025-00903-5Kay et al. review evidence that parental care, and more complex social behaviour based on parental care, evolved in multiple species through the repeated co-option of members of a pleiotropic molecular network regulating the ancestral processes of feeding, growth and reproduction.

Nature Reviews Genetics, Published online: 03 November 2025; doi:10.1038/s41576-025-00909-zMicrobial genomics can improve our understanding of antimicrobial resistance dynamics across ecosystems. In this Comment, Kathryn Holt emphasizes the interconnectedness of human, animal and environmental health and calls for greater integration of microbial genomic data through robust analytical frameworks to unravel the complexity of antimicrobial resistance dynamics.