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Posts by Ran Duan

Polyphosphate acts as an architectural regulator of carbon fixation and nucleoid structure in cyanobacteria www.biorxiv.org/content/10.6... #jcampubs

1 week ago 5 2 0 0
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Trafficking of a nitrogenase FeMo-cofactor assembly intermediate - Nature Chemical Biology The maturation of the unique FeMo-cofactor of molybdenum nitrogenase is a multistep process requiring the sequential action of a series of maturase complexes. Here, the authors report on how cryo-elec...

The maturation of the unique FeMo-cofactor of molybdenum nitrogenase is a multistep process requiring the sequential action of a series of maturase complexes. Cryo-EM structures capture trafficking of a key intermediate of cofactor assembly

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

2 weeks ago 3 2 0 0
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Converting Relative Amplicon Abundances to Absolute Abundances via Flow Cytometry: Metagenomic Validation and Application to Long Ocean Transects Abstract. With microbes critical for ocean ecological and biogeochemical processes, we need to understand their abundance and diversity distributions. Whil

Want to convert old relative abundance ocean amplicon data into absolute abundances? Williams et al. show a flow cytometry "anchor" can provide reasonable absolute abundances, validated by internal-standard corrected metagenomics with single copy genes, and amplicons academic.oup.com/ismecommun/a...

2 weeks ago 25 11 0 0
January and July maps of estimated proline, glutamic acid, ectoine, and DHPS excretion in the top 100 m seawater of the global ocean. Labels indicate producers for which the metabolite is among the top 10 exometabolites. Surveyed phytoplankton and their functional group are indicated by color.

January and July maps of estimated proline, glutamic acid, ectoine, and DHPS excretion in the top 100 m seawater of the global ocean. Labels indicate producers for which the metabolite is among the top 10 exometabolites. Surveyed phytoplankton and their functional group are indicated by color.

One of the most-viewed PNAS articles in the last week is “Characterization of phytoplankton-excreted metabolites mediating carbon flux through the surface ocean.” Explore the article here: https://ow.ly/zPNG50YBfRR

For more trending articles, visit https://ow.ly/iZnr50YBfRS

3 weeks ago 2 2 0 0
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Biochemical remodelling of phytoplankton cell composition under climate change - Nature Climate Change The authors simulate phytoplankton macromolecular composition—proteins, carbohydrates and lipids—under present and future scenarios. They show increased protein allocation in subtropical phytoplankton...

Biochemical remodelling of phytoplankton cell composition under climate change www.nature.com/articles/s41... #jcampubs 🌊

3 weeks ago 11 5 0 0

Alkaline phosphatase activity supports heterotrophic carbon acquisition in a coastal time series site and a representative marine bacterium www.biorxiv.org/content/10.6... #jcampubs 🌊

3 weeks ago 4 2 0 0
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Moderate global warming does not rule out extreme global climate outcomes - Nature Extreme global climate outcomes may occur even under moderate 2 °C warming and may turn out to be more extreme than model-averaged projections at 3 °C or 4 °C warming.

In a new Nature study, we show that extreme global climate outcomes may occur even under moderate 2°C warming for several sectors.

The findings reinforce the urgency of limiting warming well below 2°C.

Together with @erichfischer.bsky.social @janasillmann.bsky.social @zscheischlerjak.bsky.social

3 weeks ago 100 55 1 5
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Statistical Rethinking 2026 is done: 20 new lectures emphasizing logical and critical statistical workflow, from basics of probability theory to causal inference to reliable computation to sensitivity. It's all free, made just for you. Lecture list and links: github.com/rmcelreath/s...

4 weeks ago 598 193 11 11
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Gene regulatory networks: from correlative models to causal explanations Nature Reviews Genetics - In this Perspective, Maizels and Briscoe discuss the limitations of current models of gene regulatory networks and outline solutions to harness data abundance without...

New Perspective form Rory Maizels & me: "Gene regulatory networks: from correlative models to causal explanations"

Gene regulatory networks are supposed to give us mechanistic explanations of development, so why are we drowning in 'hairballs' of statistical correlations?

rdcu.be/e7zx7

1 month ago 121 46 2 2
Artist’s illustration of a pristine pyrite grain as an archive of Earth's 3.5-billion-year transition to an oxygenated atmosphere, showing machine learning “threads” extracting redox patterns from the mineral’s lattice and the reconstructed pulses of atmospheric oxygen. 
CREDIT: Zhen-Jie Zhang.

Artist’s illustration of a pristine pyrite grain as an archive of Earth's 3.5-billion-year transition to an oxygenated atmosphere, showing machine learning “threads” extracting redox patterns from the mineral’s lattice and the reconstructed pulses of atmospheric oxygen. CREDIT: Zhen-Jie Zhang.

Trace elements incorporated into grains of pyrite preserve information about the chemistry of ancient oceans, allowing researchers to reconstruct the interplay of biology and tectonics driving long-term oxygen fluctuations. In PNAS: https://ow.ly/RJSO50YwsLC

1 month ago 15 3 0 0
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Parallel but distinct adaptive routes in the budding and fission yeasts after 10,000 generations of experimental evolution - Nature Ecology & Evolution Experimental evolution of fission yeast (Schizosaccharomyces pombe) in the same environment as a previous experiment with budding yeast (Saccharomyces cerevisiae) reveals parallel evolution but distin...

Experimental evolution of fission yeast in the same environment as a previous experiment with budding yeast reveals parallel evolution but distinct molecular mechanisms and targets of adaptation in the two species 🧪 www.nature.com/articles/s41...

1 month ago 10 3 0 0
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AlphaFold database has entered the era of complexes. Together with NVIDIA, DeepMind and EBI, we use ColabFold, OpenFold and MMseqs2-GPU to predict ~31 million complexes (homo & hetro-dimers) resulting in 1.8 million high-quality predictions
📄 research.nvidia.com/labs/dbr/ass...
🌐 alphafold.ebi.ac.uk

1 month ago 265 111 8 3
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🚨 Next Friday 20/03 15:30 EU, Julia Schwartzman (University of Southern California) will present the talk

Ecological Dynamics of Bacterial Groups

at the Population Dynamics Seminars.

Subscription sites.google.com/view/popdyn/

1 month ago 7 8 1 0
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The Pokémon Company Is Actively Recruiting PhD Holders With Backgrounds in Ecology to Work in Tokyo - IGN The Pokémon Company is actively recruiting PhD holders with backgrounds in ecology to work in Tokyo. This is perhaps the closest chance Pokémon fans have to channel their inner Professor Oak in real l...

This could be your dream job!
PhD in ecology, and English and Japanese language skills required... working for POKEMON!!!

www.ign.com/articles/the...

1 month ago 187 113 7 21
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International Women's Day 2026 Nature highlights developments in women’s health research and career guidance for women in science.

International Women’s Day celebrates the Earth’s 4 billion female inhabitants. Nature brings you a collection of the latest on advancements in women’s health and career guidance, advice and inspiration for women in science. 🧪 #IWD2026

1 month ago 43 27 1 1
The image shows two figures, a and b. Figure a shows a map of Europe with thermal positions indicated by color-coded hexagons, ranging from -1.0 to 1.0. Arrows point to "Reduced negative impacts" and "Increased negative impacts." Figure b shows a scatter plot of effect size vs thermal position with a fish illustration on top. "Biomass change estimates" indicated by circle size.

The image shows two figures, a and b. Figure a shows a map of Europe with thermal positions indicated by color-coded hexagons, ranging from -1.0 to 1.0. Arrows point to "Reduced negative impacts" and "Increased negative impacts." Figure b shows a scatter plot of effect size vs thermal position with a fish illustration on top. "Biomass change estimates" indicated by circle size.

A study published in Nature Ecology & Evolution reports that long-term ocean warming reduces global fish biomass by up to 19.8% annually. Warmer years and marine heatwaves were linked to sharp biomass losses of up to 43.4%. go.nature.com/40b6AIB 🧪 🌍

1 month ago 82 54 1 5

Check out our new review in Nature Reviews Genetics on de novo emerged genes and proteins. How they emerge, are lost and persist - and how de novo emerged proteins relate to randomized proteins! @bornberglab.bsky.social www.nature.com/articles/s41...

2 months ago 60 28 3 2
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Ocean warming enhances iron use efficiencies of marine ammonia-oxidizing archaea #USC_MEB www.pnas.org/doi/abs/10.1... #jcampubs

1 month ago 7 4 0 0
DECODE: deep learning-based common deconvolution framework for various omics data - Nature Methods DECODE is a universal deconvolution framework for both cell types and cell states that can be applied to transcriptomic, proteomic and metabolomic data.

DECODE: deep learning-based common deconvolution framework for various omics data www.nature.com/articles/s41... #jcampubs

1 month ago 3 1 0 0
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Pokémon turns 30 — how the fictional pocket monsters shaped science The Japanese media sensation has inspired generations of researchers in fields as diverse as evolution, biodiversity and research integrity.

Happy 30th birthday, Pokémon! Since 1996, the Japanese media sensation has inspired generations of researchers in fields as diverse as evolution, biodiversity and research integrity. go.nature.com/4bcjZ9w

1 month ago 96 39 1 5
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Evolving synchronization of the Gulf Stream and Kuroshio-Oyashio Extension in a changing climate Summer SST covariability across the North Pacific and North Atlantic may be linked to Arctic sea-ice loss and climate change.

We have a new study out! In this work, we examine how the Gulf Stream and Kuroshio-Oyashio Extension co-vary, and this is tied to atmospheric variability and potentially sea-ice anomalies. However, this linkage may be changing in a warming world...

➡️ #OpenAccess: www.science.org/doi/10.1126/...

2 months ago 123 35 2 0
Genomics of adaptation to extreme thermal environments As climate change continues to influence ecosystems around the globe, understanding the genomics of adaptation to hot and cold environments is becoming ...

Calling all researchers working on *Genomics of Adaptation to Extreme Thermal Environments*
I'm serving as a guest editor of an upcoming collection in BMC Genomics and am eager to read your submission! More on scope and how to contribute here: bit.ly/4kH3PIx 🧪 @springer.springernature.com

1 month ago 12 7 0 0
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Decoupled timescales of organic carbon and phosphorus recycling in the global ocean | PNAS The ocean’s biological carbon pump exports atmospheric CO2 to the deep ocean, where it can remain sequestered for decades to centuries, and attempt...

Decoupled timescales of organic carbon and phosphorus recycling in the global ocean www.pnas.org/doi/abs/10.1... #jcampubs 🌊

2 months ago 9 5 0 0
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New paper from my team detailing a greatly expanded genomic database of Asgard archaea revealing of high energy metabolism those related to eukaryotes! Led by @katyappler.bsky.social lots of help from @jameslingford.bsky.social @valdeanda.bsky.social @kassipan.bsky.social doi.org/10.1038/s415...

2 months ago 151 61 10 3
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A small polymerase ribozyme that can synthesize itself and its complementary strand The emergence of a chemical system capable of self-replication and evolution is a critical event in the origin of life. RNA polymerase ribozymes can replicate RNA, but their large size and structural ...

How could a simple self-replicating system emerge at the origins of life? RNA polymerase ribozymes can replicate RNA, but existing ones are so large that their self-replication seems impossible. Could they be smaller?

Excited to share our latest work in @science.org on a new small polymerase.
1/n

2 months ago 500 210 10 28
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Bacterial iron acquisition by Escherichia coli is facilitated by amino acid complexation in a rapid-renewal environment | PNAS In natural environments, bacteria often encounter low concentrations of nutrient mixtures that are continuously replenished by physical processes s...

🔥Hot off the press!

❓ How do bacteria get iron when nutrients are scarce and constantly washed away❓

A PriME collective effort reveals—using a new continuous culture device—how bacteria acquire iron under rapid nutrient renewal, beyond #siderophores.

www.pnas.org/doi/10.1073/...

2 months ago 2 1 0 0
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Mechanism and reconstitution of circadian transcription in cyanobacteria Nature Structural & Molecular Biology, Published online: 10 February 2026; doi:10.1038/s41594-025-01740-0Fang et al. reveal how a bacterial circadian clock turns genes on and off at the right times of day and use the purified proteins to drive circadian gene transcription in a test tube for days.

ICYMI: New online: Mechanism and reconstitution of circadian transcription in cyanobacteria

2 months ago 2 1 0 0
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Repeatability of gene expression evolution in experimental environmental adaptation - Nature Communications Experimental evolution enables evaluation of the relative roles of chance and necessity in evolution. This study compiles transcriptomic data from experimental evolution of a prokaryotic and five euka...

Here, the authors compile transcriptomic data from experimental evolution of a prokaryotic and five eukaryotic species in 22 environments to reveal that gene expression evolution is often repeatable and deterministic.

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

2 months ago 10 5 0 0

Nutrient availability modulates impacts of short‐term shifts in temperature and grazing on phytoplankton composition and size structure aslopubs.onlinelibrary.wiley.com/doi/10.1002/... #jcampubs 🌊

2 months ago 7 1 0 0
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Proteomic and biogeochemical perspectives on cyanobacteria nutrient acquisition – Part 2: quantitative contributions of cyanobacterial alkaline phosphatases to bulk enzymatic rates in the subtropical ... Abstract. Microbial enzymes alter marine biogeochemical cycles by catalyzing chemical transformations that bring elements into and out of particulate organic pools. These processes are often studied t...

Proteomic and biogeochemical perspectives on cyanobacteria nutrient acquisition – Part 2: quantitative contributions of cyanobacterial alkaline phosphatases to bulk enzymatic rates in the subtropical North Atlantic bg.copernicus.org/articles/23/... #jcampubs 🌊

2 months ago 25 2 1 0