Nature Search

Genome-wide DNA-(de)methylation is associated with Noninfectious Bud-failure exhibition in Almond (Prunus dulcis [Mill.] D.A.Webb)

Jonathan Fresnedo-Ramírez
Helen M. Chan
Thomas M. Gradziel
ResearchOpen Access16 Feb 2017
Scientific Reports

Volume: 7, P: 1-12
Dominant species predict plant richness and biomass in global grasslands

By combining modelling and simulated data with empirical data from 76 grassland sites across 6 continents, the authors show that the relative abundance of dominant species predicts species richness, while their absolute abundance predicts community biomass.

Pengfei Zhang
Eric W. Seabloom
Elizabeth T. Borer
Research13 May 2025
Nature Ecology & Evolution

Volume: 9, P: 924-936
Two Compounds implicated in the Function of the RC Gene of Escherichia coli

MICHAEL CASHEL
JONATHAN GALLANT
Research01 Mar 1969
Nature

Volume: 221, P: 838-841
Formation of the Porphyrin Ring

JONATHAN B. WITTENBERG
Research19 Sept 1959
Nature

Volume: 184, P: 876-878
Control of somite number during morphogenesis of a vertebrate, Xenopus laevis

Jonathan Cooke
Research20 Mar 1975
Nature

Volume: 254, P: 196-199
GWAS and meta-analysis identifies 49 genetic variants underlying critical COVID-19

An analysis of 24,202 critical cases of COVID-19 identifies potentially druggable targets in inflammatory signalling (JAK1), monocyte–macrophage activation and endothelial permeability (PDE4A), immunometabolism (SLC2A5 and AK5), and host factors required for viral entry and replication (TMPRSS2 and RAB2A).

Erola Pairo-Castineira
Konrad Rawlik
J. Kenneth Baillie
ResearchOpen Access17 May 2023
Nature

Volume: 617, P: 764-768
Reversible histone deacetylase activity catalyzes lysine acylation

Tsusaka et al. discover that histone deacetylases, which are well known to remove protein modifications, such as lysine acetylation and β-hydroxybutyrylation, can also reverse their chemical activity to add lysine modifications.

Takeshi Tsusaka
Mohd. Altaf Najar
Emily L. Goldberg
Research26 Mar 2025
Nature Chemical Biology

P: 1-10
DSIF factor Spt5 coordinates transcription, maturation and exoribonucleolysis of RNA polymerase II transcripts

The critical events in transcription termination of RNA polymerase II (Pol II) remain not fully understood. Here, the authors find that the transcription factor Spt5 enhances the activity of RNA exonuclease Xrn2 during transcription to promote efficient termination of transcription.

Krzysztof Kuś
Loic Carrique
Lidia Vasiljeva
ResearchOpen Access02 Jan 2025
Nature Communications

Volume: 16, P: 1-19
Mapping the human genetic architecture of COVID-19

A global network of researchers was formed to investigate the role of human genetics in SARS-CoV-2 infection and COVID-19 severity; this paper reports 13 genome-wide significant loci and potentially actionable mechanisms in response to infection.

Mari E. K. Niemi
Juha Karjalainen
Chloe Donohue
ResearchOpen Access08 Jul 2021
Nature

Volume: 600, P: 472-477
Quantitative fermentation of unpretreated transgenic poplar by Caldicellulosiruptor bescii

Metabolizing lignocellulosic feedstocks to industrial chemicals by microorganisms requires surmounting the recalcitrance caused by lignin. Here, the authors pair transgenic lignin modified poplar lines with engineered Caldicellusiruptor bescii to achieve biomass solubilization and ethanol conversion without pretreatment.

Christopher T. Straub
Piyum A. Khatibi
Robert M. Kelly
ResearchOpen Access07 Aug 2019
Nature Communications

Volume: 10, P: 1-6
Vertebrate embryo handedness

Jonathan Cooke
Research20 Apr 1995
Nature

Volume: 374, P: 681
Nascent transcript sequencing visualizes transcription at nucleotide resolution

A novel technique called native elongating transcript sequencing (NET-seq) is described, which can quantify transcription with single nucleotide resolution. It is based on sequencing nascent transcripts associated with RNA polymerase II that are captured directly from live cells, and is used to gain insights into polymerase pausing and backtracking and the directionality of transcription.

L. Stirling Churchman
Jonathan S. Weissman
Research19 Jan 2011
Nature

Volume: 469, P: 368-373
Whole-genome sequencing reveals host factors underlying critical COVID-19

Whole-genome sequencing, transcriptome-wide association and fine-mapping analyses in over 7,000 individuals with critical COVID-19 are used to identify 16 independent variants that are associated with severe illness in COVID-19.

Athanasios Kousathanas
Erola Pairo-Castineira
J. Kenneth Baillie
ResearchOpen Access07 Mar 2022
Nature

Volume: 607, P: 97-103
Feasibility of a dietary intervention to modify gut microbial metabolism in patients with hematopoietic stem cell transplantation

In a pilot feasibility study involving recipients of allogeneic hematopoietic stem cell transplants, adherence to a dietary intervention and its effects on the gut microbiota were assessed in the run-in to a study testing the effects of modulation of the microbiome on transplant outcomes.

Mary M. Riwes
Jonathan L. Golob
Pavan Reddy
ResearchOpen Access19 Oct 2023
Nature Medicine

Volume: 29, P: 2805-2813
Multi-immersion open-top light-sheet microscope for high-throughput imaging of cleared tissues

Light-sheet microscopes are increasingly used for imaging cleared tissues, but have imposed constraints on sample geometries and protocols. Here the authors present a multi-immersion open-top light-sheet microscope to overcome these limitations and enable high-throughput imaging of samples processed with various clearing protocols.

Adam K. Glaser
Nicholas P. Reder
Jonathan T. C. Liu
ResearchOpen Access04 Jul 2019
Nature Communications

Volume: 10, P: 1-8
Cell lineage and the induction of second nervous systems in amphibian development

Robert L. Gimlich
Jonathan Cooke
Research01 Dec 1983
Nature

Volume: 306, P: 471-473
Weathering and glacial cycles

Jonathan Adams
Research12 Jan 1995
Nature

Volume: 373, P: 110
Delayed-type Hypersensitivity in Premature Neonatal Humans

JONATHAN W. UHR
JOSEPH DANCIS
CHARLOTTE GRANTZ NEUMANN
Research24 Sept 1960
Nature

Volume: 187, P: 1130-1131
An acidophilic fungus promotes prey digestion in a carnivorous plant

The acidophilic fungus Acrodontium crateriforme is present in traps of the carnivorous plant Drosera spatulata and promotes prey digestion.

Pei-Feng Sun
Min R. Lu
Isheng Jason Tsai
ResearchOpen Access01 Aug 2024
Nature Microbiology

Volume: 9, P: 2522-2537
Induction and all that

Jonathan Cooke
News & Views09 Jul 1992
Nature

Volume: 358, P: 111-112
Carbon-negative production of acetone and isopropanol by gas fermentation at industrial pilot scale

Two industrial chemicals are sustainably produced at large scale by microbial gas fermentation.

Fungmin Eric Liew
Robert Nogle
Michael Köpke
Research21 Feb 2022
Nature Biotechnology

Volume: 40, P: 335-344
Genome-wide association analyses identify 44 risk variants and refine the genetic architecture of major depression

A genome-wide association meta-analysis of individuals with clinically assessed or self-reported depression identifies 44 independent risk loci. Comparisons with other psychiatric disorders and candidate gene analyses provide new insights into major depressive disorder.

Naomi R. Wray
Stephan Ripke
Patrick F. Sullivan
Research26 Apr 2018
Nature Genetics

Volume: 50, P: 668-681
Long-read transcript sequencing identifies differential isoform expression in the entorhinal cortex in a transgenic model of tau pathology

The authors used long-read sequencing to reveal novel isoforms and differential transcript use in a transgenic model of tau pathology. Similar patterns were found in the human cortex, supporting a role for alternative splicing in Alzheimer’s disease.

Szi Kay Leung
Rosemary A. Bamford
Jonathan Mill
ResearchOpen Access02 Aug 2024
Nature Communications

Volume: 15, P: 1-19
SARS-CoV-2 infection and transmission in the North American deer mouse

Deer mice are natural hosts for a number of human pathogens. Here, Griffin et al. report that intranasal exposure of the North American deer mouse to SARS-CoV-2 results in virus replication and shedding, despite causing only mild or asymptomatic illness. Additionally, infected deer mice can transmit SARS-CoV-2 to naïve deer mice.

Bryan D. Griffin
Mable Chan
Darwyn Kobasa
ResearchOpen Access14 Jun 2021
Nature Communications

Volume: 12, P: 1-10
Nuna supercontinent assembly linked to carbon cycling in shear zones 1.9–1.7 billion years ago

Graphitic carbon was hydrothermally cycled through shear zones during late-stage orogenesis associated with Nuna supercontinent assembly, according to a coupled rhenium–osmium and uranium–lead dating study.

Jonathan Toma
Robert A. Creaser
Long Li
Research20 Aug 2024
Nature Geoscience

Volume: 17, P: 1038-1045
A second update on mapping the human genetic architecture of COVID-19

Masahiro Kanai
Shea J. Andrews
Matthew Solomonson
ResearchOpen Access06 Sept 2023
Nature

Volume: 621, P: E7-E26
A large peptidome dataset improves HLA class I epitope prediction across most of the human population

Prediction of HLA class I epitopes is improved in accuracy and breath with peptidomes from 95 mono-allelic cell lines.

Siranush Sarkizova
Susan Klaeger
Derin B. Keskin
Research16 Dec 2019
Nature Biotechnology

Volume: 38, P: 199-209
Scale of body pattern adjusts to available cell number in amphibian embryos

Jonathan Cooke
Research30 Apr 1981
Nature

Volume: 290, P: 775-778
Estimation of Vitamin C by Agar Diffusion

ALAN H. CHAIET
LOUIS CHAIET
Research07 Nov 1959
Nature

Volume: 184, P: 1487-1488
A spatial map of hepatic mitochondria uncovers functional heterogeneity shaped by nutrient-sensing signaling

Kang et al. reveal structural and functional differences in mitochondria across the hepatic lobule. Mitochondrial distinct phosphoproteome influences their functions highlighting how nutrient availability helps to shape mitochondria zonation.

Sun Woo Sophie Kang
Rory P. Cunningham
Natalie Porat-Shliom
ResearchOpen Access28 Feb 2024
Nature Communications

Volume: 15, P: 1-17
A TRIM21-based bioPROTAC highlights the therapeutic benefit of HuR degradation

Overexpression of human antigen R (HuR) correlates with high grade tumours and poor patient prognosis. Here, the authors engineer a TRIM21 biological PROTAC to demonstrate the benefit of a targeted protein degradation approach to deplete HuR, resulting in tumour growth inhibition in pre-clinical cancer models by altering the HuR-regulated proteome.

Alice Fletcher
Dean Clift
James Hunt
ResearchOpen Access04 Nov 2023
Nature Communications

Volume: 14, P: 1-14
The histone chaperone SPT2 regulates chromatin structure and function in Metazoa

Using a combination of bioinformatics, biochemistry, genetics, genomics and cell-based approaches, this study shows that the H3–H4 binding capacity of the histone chaperone SPT2 is required to preserve chromatin structure and function in Metazoa.

Giulia Saredi
Francesco N. Carelli
John Rouse
ResearchOpen Access18 Jan 2024
Nature Structural & Molecular Biology

Volume: 31, P: 523-535
Amphibian's book of lists

Jonathan Slack
Books & Arts06 Sept 1984
Nature

Volume: 311, P: 88
Embryonic events

Jonathan Cooke
Books & Arts01 Jan 1987
Nature

Volume: 325, P: 26
Nervous disposition

Jonathan Cooke
Books & Arts17 Feb 1983
Nature

Volume: 301, P: 639
‘Cardiac’ RNA

Jonathan Slack
News & Views01 Jan 1978
Nature

Volume: 271, P: 12
Pattern formation in chick limb bud

Jonathan Slack
News & Views14 Jun 1979
Nature

Volume: 279, P: 583-584
Cell lineage in early development

Jonathan Slack
News & Views01 Apr 1979
Nature

Volume: 278, P: 600-601
Compartments, ‘switches’, ‘programs’ and vertebrate development

Jonathan Cooke
News & Views20 Mar 1980
Nature

Volume: 284, P: 216-217
Co-translational assembly orchestrates competing biogenesis pathways

The biogenesis of nuclear pores imposes a logistic challenge for cells. Here, the authors investigate structural motifs for co-translational interactions in nucleoporins and find that co-translational assembly events differ between paralogous assembly pathways thus contributing to faithful assembly.

Maximilian Seidel
Anja Becker
Martin Beck
ResearchOpen Access09 Mar 2022
Nature Communications

Volume: 13, P: 1-15
Post-translational modification-centric base editor screens to assess phosphorylation site functionality in high throughput

Combining genome-wide CRISPR–Cas9-mediated base editors with temporally resolved phosphoproteomics enables the functional screening of thousands of post-translational modification sites involved in T cell activation.

Patrick H. Kennedy
Amin Alborzian Deh Sheikh
Samuel A. Myers
Research29 Apr 2024
Nature Methods

Volume: 21, P: 1033-1043
Endogenous proviruses as “mementos”?

Jonathan Stoye
Research28 Aug 1997
Nature

Volume: 388, P: 840
Disulphide-bonded intermediate on the folding and assembly pathway of a non-disulphide bonded protein

Anne Skaja Robinson
Jonathan King
Research01 Jun 1997
Nature Structural Biology

Volume: 4, P: 450-455
UbiB proteins regulate cellular CoQ distribution in Saccharomyces cerevisiae

Coenzyme Q (CoQ) is a lipid made in the inner mitochondrial membrane with antioxidant roles throughout the cell, but regulation of its cellular distribution is unclear. Here the authors identify two proteins that have reciprocal CoQ trafficking functions to help coordinate CoQ localization in yeast.

Zachary A. Kemmerer
Kyle P. Robinson
David J. Pagliarini
ResearchOpen Access06 Aug 2021
Nature Communications

Volume: 12, P: 1-11
Positional cloning of the mouse retrovirus restriction gene Fvl

Steve Best
Paul Le Tissier
Jonathan P. Stoye
Research29 Aug 1996
Nature

Volume: 382, P: 826-829
Permanent distortion of positional system of Xenopus embryo by brief early perturbation in gravity

Jonathan Cooke
Research02 Jan 1986
Nature

Volume: 319, P: 60-63
Systematic identification of minor histocompatibility antigens predicts outcomes of allogeneic hematopoietic cell transplantation

The success of hematopoietic cell transplants is predicted by profiling minor histocompatibility antigens.

Nicoletta Cieri
Nidhi Hookeri
Catherine J. Wu
Research21 Aug 2024
Nature Biotechnology

Volume: 43, P: 971-982
Palaeoproteomics resolves sloth relationships

Palaeoproteomics offers an opportunity to resolve molecular phylogenies especially in contexts where ancient DNA does not preserve. Here collagen sequences resolve sloth phylogenies differently from morphology-based estimates, illuminating the utility of proteomics in systematics.

Samantha Presslee
Graham J. Slater
Ross D. E. MacPhee
Research06 Jun 2019
Nature Ecology & Evolution

Volume: 3, P: 1121-1130
DNA methylation signatures of Alzheimer’s disease neuropathology in the cortex are primarily driven by variation in non-neuronal cell-types

Here the authors identify differences in cortical DNA methylation associated with Alzheimer’s disease pathology, and profiling nuclei from specific cell-types, find that most of these differences reflect variation occurring in non-neuronal cells.

Gemma Shireby
Emma L. Dempster
Jonathan Mill
ResearchOpen Access24 Sept 2022
Nature Communications

Volume: 13, P: 1-14
Proper names for early fingers

Jonathan Cooke
News & Views06 Sept 1990
Nature

Volume: 347, P: 14-15

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