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Posts by Erika C. Freeman

Visual with the text: Postdoctoral Fellowships call 2026

Visual with the text: Postdoctoral Fellowships call 2026

€399M in EU funding is available to support around 1,600 researchers in their postdoctoral journey.

You can choose your path:

πŸ§ͺ European fellowships: 12-24 months in Europe

πŸ§ͺ Global fellowships: 12-24 months abroad + return

Deadline: 9 September (17:00 CEST)

More info: link.europa.eu/t6jYb3

1 week ago 11 11 0 3
Chemostratigraphic profiles of the 7- m Chattanooga Shale section exposed in Chestnut Mound, central Tennessee, United States.

Chemostratigraphic profiles of the 7- m Chattanooga Shale section exposed in Chestnut Mound, central Tennessee, United States.

Chemostratigraphy of the mass extinction interval helps the untangling of the global crisis:
"...redox- sensitive proxies, indicating that wildfire activity intensified in response to post- OAEs oxygen rise rather than triggering anoxia."
www.science.org/doi/pdf/10.1...
πŸ§ͺ βš’οΈ #Geology #Paleobio

2 weeks ago 17 7 0 1
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A nature-inspired ion trap for parallel manipulation of ions on a massive scale A nature-inspired ion trap enabling massively parallel mass spectrometry.

A nature-inspired ion trap for parallel manipulation of ions on a massive scale | Science Advances www.science.org/doi/10.1126/... πŸ‘€ πŸ‘€ πŸ‘€

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Metabolic interactions shape ecosystems

Metabolic interactions shape ecosystems www.embl.org/about/info/c...

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Wonder if it's similar in adjacent waters.

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Postdoctoral Researcher in Environmental and Analytical Chemistry (f/m/d) 60 - 100 % The Department of Environmental Chemistry (Uchem) of Eawag is offering a position for a

#postdoc #job Environ Analytical Chemistry & Toxicology of #benthic #cyanobacteria @eawag.bsky.social Eawag in #Switzerland! Creating knowledge base of benthic cyanobacteria in Switzerland in collaboration with Pilar Junier Uni.Neuchatel. apply by April 8th.
apply.refline.ch/673277/1346/...

1 month ago 4 4 1 0
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Scalable mass-spectrometry-based molecular phylogeny with TreeMS2 Molecular phylogeny is a well-established method for inferring evolutionary relationships from DNA and RNA sequences. Here, we extend this concept beyond genetic information by applying phylogeny-like analysis to proteomic and metabolomic mass spectrometry data, capturing relationships based on the realized molecular phenotype. The resulting phenotype-derived trees can be directly compared with conventional genetic-based trees to identify where molecular phenotypes reflect evolutionary history and where they diverge due to functional adaptation, regulation, or environmental influence. To enable this analysis, we introduce TreeMS2, a computational tool that constructs similarity matrices by directly comparing tandem mass spectrometry (MS/MS) spectra between samples. By bypassing spectrum annotation, TreeMS2 enables rapid, unbiased comparisons. Across diverse datasets, TreeMS2 reconstructs biologically meaningful relationships. In proteomics, phenotype-derived trees recapitulate established taxonomy, with deviations pinpointing sample handling errors. In single-cell proteomics our method distinguishes cell types despite sparse and noisy measurements and in metabolomics it resolves major biochemical divisions and fine-scale compositional structure. Together, these results establish TreeMS2 as a scalable, annotation-independent framework for deriving molecular relationships from raw MS/MS data.

(BioRxiv All) Scalable mass-spectrometry-based molecular phylogeny with TreeMS2: Molecular phylogeny is a well-established method for inferring evolutionary relationships from DNA and RNA sequences. Here, we extend this concept beyond genetic information by applying… #BioRxiv #MassSpecRSS

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It is deeply annoying how extremely well this works for me.

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The MicrobeAtlas database: Global trends and insights into Earth’s microbial ecosystems MicrobeAtlas (www.microbeatlas.org) is an integrated, reference-based resource for truly planet-wide microbiomics, analyzing hundreds of thousands of microbial lineages across diverse environments, co...

This is an incredible resource:

The MicrobeAtlas Database www.cell.com/cell/fulltex...

1 month ago 34 14 0 0
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Distinct differences of taste quality and metabolite profile between taste tomatoes and ordinary tomatoes revealed by HS-SPME-GC–MS flavoromics and LC–MS metabolomics This study integrated HS-SPME-GC–MS flavoromics, LC–MS metabolomics, and electronic tongue analysis to systematically dissect the metabolic and flavor…

Distinct differences of taste quality and metabolite profile between taste tomatoes and ordinary tomatoes revealed by HS-SPME-GC–MS flavoromics and LC–MS metabolomics #FoodChem www.sciencedirect.com/science/arti...

1 month ago 2 1 0 0
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High-throughput reaction screening using acoustic ejection mass spectrometry - Nature Protocols A bottleneck in high-throughput chemical synthesis is analyzing reaction products. This protocol describes a direct mass spectrometry approach where the loss of a characteristic neutral fragment from ...

High-throughput reaction screening using acoustic ejection mass spectrometry #NatProtoc www.nature.com/articles/s41...

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Lipids are a currency is parasitoid competition. Interesting chemo-eco-evolutionary case study.

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Graphical abstract Lammers (2026)

Graphical abstract Lammers (2026)

New publication: #Lipids as currency in #parasitoid competition: #Interactions between two #lipidscavenging species.
doi.org/10.1016/j.ji...

1 month ago 6 6 0 2
Depth-resolved carbon dioxide and methane concentrations in 522 lakes, ponds, and reservoirs worldwide - Scientific Data Scientific Data - Depth-resolved carbon dioxide and methane concentrations in 522 lakes, ponds, and reservoirs worldwide

We are excited to officially share GHG-Depths, a database of depth-resolved CO2 and CH4 concentrations in 522 lakes, ponds, and reservoirs worldwide.

Congrats to Joe Rabaey and a huge team of collaborators! @gleonetwork.bsky.social

1 month ago 20 8 0 0

Wow!

2 months ago 1 0 0 0
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Very cool framing

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@igb-berlin.de; some more great thought leadership from Janet Hering, good for IGB to consider :)

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Could life have begun with simpler molecules than we once thought? A new paper in @science.org by @edogia.bsky.social shows that a tiny RNA catalyst can self-replicate itself, suggesting that life may have been easier to emerge than expected. Getting closer. www.biorxiv.org/content/10.1...

2 months ago 47 18 1 1
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Bioaccumulation of Pharmaceutically Active Compounds from Treated Urban Wastewaters in Aquatic Insect Larvae and Aerial Adults The bioaccumulation of 80 pharmaceutically active compounds (PhACs) was examined in larvae, pupae, and (sub)adults of three groups of aquatic insects (caddisflies Oligotricha striata and Limnephilus s...

pubs.acs.org/doi/10.1021/.... Transfer of pharmaceutically active compounds from aquatic to terrestrial ecosystems.

2 months ago 7 4 0 0
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A digital twin for real-time biodiversity forecasting with citizen science data - Nature Ecology & Evolution Citizen science data are increasingly used in biodiversity monitoring. This study applies a digital twin approach to biodiversity monitoring using a large citizen science dataset on birds from Finland...

A digital twin for real-time biodiversity forecasting with citizen science data 🌎🌐πŸ§ͺ www.nature.com/articles/s41...

2 months ago 11 7 0 0

Glad to see this piece still circulating. A year later, I've just moved countries again, this time to Berlin to start my own research group. The joy of that milestone doesn't erase the overwhelming logistics that come with building a life in academia. This conversation is still so needed.

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Turf algae redefine the chemical landscape of temperate reefs, limiting kelp forest recovery In temperate regions experiencing rapid ocean warming, kelp forests are being replaced by chemically rich turf algae. However, the extent to which these turf algae alter the surrounding chemical envir...

If you want to read more about how the changing reef exo-metabolome, driven by invasive red algae, affects kelp survival, you can find the paper here: www.science.org/doi/10.1126/...

10 months ago 4 1 0 0
PNAS Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...

Mapping of the viral shunt across widespread coccolithophore blooms using metabolic biomarkers | PNAS www.pnas.org/doi/abs/10.1...

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Introduction to Freshwater Ecosystems and the One Health Framework | 1 Freshwater ecosystems – comprising rivers, lakes, wetlands, and groundwater systems – play a critical role in sustaining biodiversity, regulating biogeochemical

Managing freshwater threats demands a broader lens. By applying a One Health perspective, this chapter shows how ecosystem degradation connects to disease risk and food security, offering a systems-based foundation to guide policy, conservation, and public health action. 🌐πŸ§ͺ

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oh yes, things are happening!

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Functional motifs in food webs and networks | PNAS When studying a complex system, it is often useful to think of the system as a network of interacting units. One can then ask if some properties of...

New paper with @mhab.bsky.social @jdyeakel.bsky.social and @thilogross.bsky.social out now in @pnas.org! We show when and why you can know something about an entire network, just by knowing the behavior of it's building blocks: doi.org/10.1073/pnas...

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Fun tool for UK-based researchers to assess the cost/benefit ratio of grant applications.

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Point of no returns: researchers are crossing a threshold in the fight for funding With so little money to go round, the costs of competing for grants can exceed what the grants are worth. When that happens, nobody wins.

"In other words, European taxpayers will have spent more on the funding process than on the funding itself, and the scientific ecosystem has been drained"

The situation is rapidly becoming unsustainable: the current research funding scheme does not work.

www.nature.com/articles/d41...

2 months ago 15 9 2 0
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MSnLib: efficient generation of open multi-stage fragmentation mass spectral libraries - Nature Methods MSnLib is a large-scale, open MSn spectral library featuring >2.3 million MSn and >357,000 MS2 spectra for 30,008 unique small molecules.

MSnLib: a large-scale, open multi-stage fragmentation mass spectral library for 30,000 unique small molecules.
@robinschmid.bsky.social @pluskal-lab.org

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

7 months ago 12 3 0 0