Nature Genetics

Cell-type- and locus-specific epigenetic editing of memory expression - Nature Genetics CRISPR-based epigenetic editing is used in a cell-type-specific, locus-restricted and temporally controllable manner in the adult mouse brain to modulate memory expression.

🚨The paper from my postdoc in @graeffjohannes.bsky.social’s lab at @epfl-brainmind.bsky.social is out! We show that memories can be switched on and off by simply changing the « packaging » of DNA in neurons through epigenetic editing. www.nature.com/articles/s41...

📢OUT TODAY @natgenet.nature.com

📰Limited overlap between genetic effects on disease susceptibility and disease survival.

By Zhiyu Yang, Nina Mars, Andrea Ganna and colleagues.

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www.nature.com/articles/s41...

The dawn of bryophyte genomics is here - Nature Genetics Bryophytes are a widespread group of land plants that occupy nearly all biomes, yet their genetics and evolutionary history have long remained underexplored. Now, a study that generates extensive genomic data for bryophytes highlights de novo gene formation and horizontal gene transfer as key forces that shape bryophyte diversity and adaptation.

✨Don't miss the N&V✨

📰The dawn of bryophyte genomics is here.

By Giacomo Potente, Yuling Yue & Péter Szövényi.

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www.nature.com/articles/s41...

Bryophytes hold a larger gene family space than vascular plants - Nature Genetics A super-pangenome analysis incorporating 123 newly sequenced bryophyte genomes reveals that bryophytes exhibit a larger number of unique and lineage-specific gene families than vascular plants.

📢OUT @natgenet.nature.com

📰Bryophytes hold a larger gene family space than vascular plants.

By Shanshan Dong, Yang Liu and colleagues.

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www.nature.com/articles/s41...

Dipping into the function of DNA methylation at centromeres - Nature Genetics Human centromeres contain a small chromatin region with low levels of DNA cytosine methylation that resides with CENP-A. Salinas-Luypaert et al. find a role of DNA methylation in maintaining the size and function of centromeres by controlling the binding affinity of key centromere components.

💫 Don't miss the N&V by Sylvia Erhardt.

📰Dipping into the function of DNA methylation at centromeres.

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www.nature.com/articles/s41...

Rapid epigenomic classification of acute leukemia - Nature Genetics The authors present a molecular classification of acute leukemia using 5-methylcytosine signatures, together with a neural network-based classifier for clinical use.

📢PUBLISHED @natgenet.nature.com

📰Rapid epigenomic classification of acute leukemia

By Til L. Steinicke, Gabriel K. Griffin, Volker Hovestadt and colleagues.

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www.nature.com/articles/s41...

Pan-UK Biobank genome-wide association analyses enhance discovery and resolution of ancestry-enriched effects - Nature Genetics Genome-wide analyses for 7,266 traits leveraging data from several genetic ancestry groups in UK Biobank identify new associations and enhance resources for interpreting risk variants across diverse populations.

📢PUBLISHED @natgenet.nature.com

📰Pan-UK Biobank genome-wide association analyses enhance discovery and resolution of ancestry-enriched effects.

By Konrad J. Karczewski, Alicia R. Martin and colleagues.

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www.nature.com/articles/s41...

📢PUBLISHED @natgenet.nature.com

📰Genetic and epigenetic screens in primary human T cells link candidate causal autoimmune variants to T cell networks.

By Ching-Huang Ho, John P. Ray and colleagues.

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www.nature.com/articles/s41...

Genome-wide association meta-analysis of childhood ADHD symptoms and diagnosis identifies new loci and potential effector genes - Nature Genetics Genome-wide association meta-analyses of attention-deficit/hyperactivity disorder symptom measures and clinical diagnoses identify new risk loci, highlight putative effector genes and yield improved polygenic risk scores.

📢PUBLISHED @natgenet.nature.com

📰 Genome-wide association meta-analysis of childhood ADHD symptoms and diagnosis identifies new loci and potential effector genes.

By Camiel M. van der Laan, Dorret I. Boomsma and colleagues.

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www.nature.com/articles/s41...

Advancing biological understanding of cellular senescence with computational multiomics - Nature Genetics This Review discusses multiomic approaches for the characterization and biological understanding of cellular senescence, including detailed case studies on skeletal muscle and adipose tissue that high...

📢📢REVIEW PUBLISHED TODAY @natgenet.nature.com

📰Advancing biological understanding of cellular senescence with computational multiomics.

By Sheng Li, SenNet Consortium, and colleagues!

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www.nature.com/articles/s41...

DNA methylation cooperates with genomic alterations during non-small cell lung cancer evolution - Nature Genetics Integrated multi-omic analyses using samples from the TRACERx study highlight cross-talk between DNA hypermethylation and genomic lesions in non-small cell lung cancer.

📢OUT @natgenet.nature.com

📰DNA methylation cooperates with genomic alterations during non-small cell lung cancer evolution.

By Francisco Gimeno-Valiente, Nnennaya Kanu and colleagues.

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www.nature.com/articles/s41...

Multiancestry brain pQTL fine-mapping and integration with genome-wide association studies of 21 neurologic and psychiatric conditions - Nature Genetics Multiancestry fine-mapping of brain protein quantitative trait loci coupled with Mendelian randomization analyses identifies protein–trait pairs consistent with causal effects across neurological and ...

📢OUT @natgenet.nature.com

📰Multiancestry brain pQTL fine-mapping and integration with genome-wide association studies of 21 neurologic and psychiatric conditions.

By Aliza P. Wingo, Thomas S. Wingo and colleagues.

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www.nature.com/articles/s41...

📢The September issue of @natgenet.nature.com is out!

Featuring:

✅multiomic analysis in NSCLC
✅ancestral recombination graphs with SINGER
✅mutational landscape of TNBC in African American women
✅scDNAme&3Dgenome atlas of human SAT
✅avena super-pangenome

&more!

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www.nature.com/ng/volumes/5...

A multi-tissue single-cell expression atlas in cattle - Nature Genetics This study introduces the Cattle Cell Atlas, a single-cell expression resource including 1,793,854 cells from 59 tissues. Integrative analyses leveraging this atlas provide insights into the biology u...

📢 OUT TODAY @natgenet.nature.com

🐄A multi-tissue single-cell expression atlas in cattle🐄

By Bo Han, Dongxiao Sun, Lingzhao Fang and colleagues.

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www.nature.com/articles/s41...

DNA methylation influences human centromere positioning and function - Nature Genetics Genome-wide and targeted perturbation of DNA methylation at centromeres affects CENP-A positioning and centromere structure, resulting in aneuploidy and reduced cell viability.

📢ONLINE @natgenet.nature.com

📰DNA methylation influences human centromere positioning and function.

By Catalina Salinas-Luypaert, @dfachinetti.bsky.social, @naltemose.bsky.social and colleagues.

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www.nature.com/articles/s41...

Mutational landscape of triple-negative breast cancer in African American women - Nature Genetics This study explores the genomic and transcriptomic landscapes of triple-negative breast cancer in African American women. The authors show that the mutational profile is broadly similar to that observ...

📢PUBLISHED @natgenet.nature.com

📰Mutational landscape of triple-negative #breastcancer in African American women.

By Song Yao, John D. Carpten and colleagues.

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www.nature.com/articles/s41...

Mystery of tamoxifen-associated uterine cancer uncovered - Nature Genetics Tamoxifen is an essential drug in breast cancer therapy. Unlike prevailing models of therapy-related tumorigenesis, tamoxifen acts by directly activating the PI3K pathway, bypassing the need for mutat...

👉Don't miss the Research Briefing!

📰Mystery of tamoxifen-associated uterine cancer uncovered.

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www.nature.com/articles/s41...

Tamoxifen induces PI3K activation in uterine cancer - Nature Genetics Sequencing analysis of tamoxifen-associated uterine cancers and further in vivo analyses suggest that the drug tamoxifen can activate the PI3K pathway in the absence of oncogenic mutations.

✨PUBLISHED @natgenet.nature.com

📰Tamoxifen induces PI3K activation in #uterinecancer.

By Kirsten Kübler, Gad Getz, Rinath Jeselsohn and colleagues.

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www.nature.com/articles/s41...

Single-cell DNA methylome and 3D genome atlas of human subcutaneous adipose tissue - Nature Genetics This multiomic study, including single-nucleus DNA methylation and chromatin conformation matched with single-nuclei RNA sequencing, provides insights into the epigenomic landscape of human subcutaneo...

📢PUBLISHED @natgenet.nature.com

📰Single-cell DNA methylome and 3D genome atlas of human subcutaneous adipose tissue.

By Zeyuan Johnson Chen, Päivi Pajukanta and colleagues.

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www.nature.com/articles/s41...

Genetic variation at transcription factor binding sites largely explains phenotypic heritability in maize - Nature Genetics Pan-cistrome of the maize leaf under well-watered and drought conditions profiled by haplotype-specific MOA-seq highlights the relevance of transcription factor binding QTLs for understanding phenotyp...

📣New @natgenet.nature.com The Hartwig group @mpipz.bsky.social and colleagues @hhu.de unveil a scalable way to map plant genomic "switches" - these overlooked regions hold huge promise for crop breeding & climate resilience. 👉http://bit.ly/41BmCwD #plantsci
www.nature.com/articles/s41...

Tracing the evolution of single-cell 3D genomes in Kras-driven cancers - Nature Genetics This study uses chromatin tracing to identify alterations in single-cell 3D genome conformation during the progression of Kras-driven mouse lung adenocarcinoma and pancreatic ductal adenocarcinoma, an...

🎉PUBLISHED @natgenet.nature.com

📰Tracing the evolution of single-cell 3D genomes in Kras-driven #cancers.

By Miao Liu, @muzumdarlab.bsky.social, @sstevenwang.bsky.social and colleagues.

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www.nature.com/articles/s41...

Recreating fibroblast diversity in vitro by activating transcription factors - Nature Genetics We combined CRISPR activation of all 1,836 known human transcription factors with high-throughput Perturb-seq to recreate the diverse transcriptional states occupied by fibroblasts in vivo. Our study ...

✨Don't miss the Research Briefing✨

📰Recreating fibroblast diversity in vitro by activating transcription factors.

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www.nature.com/articles/s41...

Comprehensive transcription factor perturbations recapitulate fibroblast transcriptional states - Nature Genetics CRISPR activation of 1,836 human transcription factors recapitulates fibroblast transcriptional states observed in vivo and identifies regulators that can revert inflammatory states.

💫PUBLISHED @natgenet.nature.com

📰Comprehensive transcription factor perturbations recapitulate fibroblast transcriptional states.

By Kaden M. Southard, @normanlab.bsky.social and colleagues!

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www.nature.com/articles/s41...

Single-nucleus chromatin accessibility profiling identifies cell types and functional variants contributing to major depression - Nature Genetics Integration of snATAC-seq and snRNA-seq data from brains of individuals with major depressive disorder identifies chromatin accessibility alterations and functional enrichment of risk variants in deep...

📢PUBLISHED @natgenet.nature.com

📰Single-nucleus chromatin accessibility profiling identifies cell types and functional variants contributing to major depression.

By Anjali Chawla, Gustavo Turecki and colleagues.

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www.nature.com/articles/s41...

Endogenous Retrotransposable Elements & Human Diseases Conference | Fusion Conferences Our scientific research conferences support the development of physical, medical and life sciences, providing a powerful platform that encourages discussion and collaboration in luxury locations acros...

Nature Genetics editor Margot Brandt will be attending the @fusionconf.bsky.social “Endogenous Retrotransposable Elements & Human Diseases Conference” bit.ly/45iiYbY. Please feel free to reach out to her if you would like to discuss your research!

A scalable gut epithelial organoid model reveals the genome-wide colonization landscape of a human-adapted pathogen - Nature Genetics A genome-wide screen using human gut epithelial organoids combined with transposon-directed insertion sequencing identifies over 100 Shigella flexneri genes required for epithelial colonization.

#NatMicroPicks

Decoding Shigella’s Virulence Blueprint 🦠🧬

Combining organoid infection models with genome-wide mutagenesis allows mapping the full set of Shigella genes required for human gut colonization

www.nature.com/articles/s41...

@sellinlab.bsky.social @natgenet.nature.com

📢 PUBLISHED @natgenet.nature.com

📰The LISTEN principles for genetic sequence data governance and database engineering.

A Perspective by Colin J. Carlson, @ctrlalttim.com and colleagues.

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www.nature.com/articles/s41...

Large-scale genome-wide analyses of stuttering - Nature Genetics Genome-wide analyses in over one million self-reported cases and controls identify genetic variants associated with stuttering and find genetic correlations with autism, depression and impaired musica...

📢PUBLISHED @natgenet.nature.com

📰Large-scale genome-wide analyses of stuttering.

By Hannah G. Polikowsky, Jennifer E. Below and colleagues.

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www.nature.com/articles/s41...

Massively parallel immunopeptidome by DNA sequencing provides insights into cancer antigen presentation - Nature Genetics ESCAPE-seq (enhanced single-chain antigen presentation sequencing) is a massively parallel platform for screening of class I HLA–peptide combinations for antigen presentation. The authors assess more ...

📢PUBLISHED @natgenet.nature.com

📰Massively parallel immunopeptidome by DNA sequencing provides insights into #cancer antigen presentation.

By Quanming Shi, Howard Y. Chang and colleagues.

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www.nature.com/articles/s41...

Deciphering state-dependent immune features from multi-layer omics data at single-cell resolution - Nature Genetics A single-cell multiomic immune cell atlas from 235 Japanese, including patients with COVID-19 and healthy individuals, linked with host genetics including germline and somatic mutation, plasma proteom...

📢PUBLISHED @natgenet.nature.com

📰Deciphering state-dependent immune features from multi-layer omics data at single-cell resolution.

By Ryuya Edahiro, Atsushi Kumanogoh, Yukinori Okada and colleagues.

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www.nature.com/articles/s41...