In this tutorial article, statistician Dr. Luman Wang and colleagues introduce the basic principles and workflow of power calculation in metaproteomics and provide detailed examples across different experimental designs and statistical analysis strategies.
Studies face the high costs of MS profiling, making it an important and realistic consideration for researchers to identify the lowest feasible sample size. However, a fundamental question remains: what is the minimum sample size required to achieve adequate statistical power in metaproteomics?
Read the accompanying News & Views commentary from Leyuan Li:
"Microbial pairing alters metabolic wiring" www.nature.com/articles/s41...
Free to read: rdcu.be/fboWw
Functional redundancy matters: the more overlapping microbial functions you have, the more resilient your #microbiome. We showed a strong negative correlation between redundancy loss and increase in #antimicrobial resistance protein upon #drug treatment of microbiomes.
@quadraminstitute.bsky.social
From #drug cabinet → gut #microbiome: screening 312 therapeutic compounds, we mapped 4.6 million microbial protein-level responses to reveal how our drugs don’t just target us, they hit our gut microbes too.
rdcu.be/eMmcT
The microbiologist's guide to metaproteomics
onlinelibrary.wiley.com/doi/full/10.... #Bioinformatics #microbiome #metaproteomics #proteomics #MS
Are you new to #metaproteomics but don't know where to start? Then this guide, written by experts of the Metaproteomics Initiative, is for you! onlinelibrary.wiley.com/doi/full/10....
🚀 Interested in the interactions of xenobiotics with the gut microbiome? Join us @quadraminstitute.bsky.social to apply precision microbiome assays to xenobiotics. Apply by 28 May 2025. 👉 quadram.ac.uk/vacancies/gr...
#microbiome #PrecisionNutrition #metaproteomics #metabolics #metagenomics
Compared to conventional methods, OSaMPle increased bacterial peptide identifications by 3.2x and protein identifications by 1.7x. Using OSaMPle, we analyzed mouth rinse samples from IBD patients and found significant shifts in bacterial protein expression. 3/3 #Metaproteomics
We developed OSaMPle (Optimized Salivary MetaProteomic sample analysis workflow) to enrich bacterial cells from saliva and mouth rinse, reducing host contamination and enabling deeper oral metaproteomics. 2/3
The oral microbiome is linked to various inflammatory conditions, including IBD. However, analyzing functional changes at the protein level has been challenging due to host protein interference. 🧵 1/3
I couldn’t be prouder—this is the work of the very first master's student that I've supervised. Salivary metaproteomics is tricky due to host/debris interference. Yuan et al. developed a microbial cell enrichment step and achieved cleaner data with better insights. www.nature.com/articles/s41...
🚨 We mapped 4.6M #microbial protein responses to 312 compounds, uncovering 3 distinct functional gut #microbiome states and revealing how neuropharma triggers deep shifts (lower functional redundancy, higher #AMR proteins).
www.biorxiv.org/content/10.1...
microbiomejournal.biomedcentral.com/articles/10....
🦠 In #metaproteomics, proteins are often treated as independent features, ignoring their ecological relationships.
🌱 We developed PhyloFunc, a beta diversity metric that integrates phylogeny into functional distance calculations, offering a more ecologically meaningful way to compare microbiomes.
🎉 Excited to share this amazing Metaproteomics Initiative community effort aims to make metaproteomics accessible and easy to use for microbiome researchers. Grateful for this unforgettable journey of collaboration! 🌍🔬 #Metaproteomics #Collaboration #Science chemrxiv.org/engage/chemr...
Thank you for sharing Manuel!
If you want to get started with #metaproteomics , this guide is a good starting point. This was an amazing metaproteomics community effort to get all the key information together led by Tim Van Den Bossche and Leyuan Li
chemrxiv.org/engage/chemr...
