Atin Sharma

Polypeptides synthesized by common bacteria in the human gut improve rodent metabolism - Nature Microbiology Two polypeptides synthesized by common bacterial strains in human gut microbiota lower body fat and blood glucose and increase bone density, improving the metabolism of rodents.

🦠 ENDOCRINOLOGY?

RORDEP1/2 secreted by gut commensal 𝘙𝘶𝘮𝘪𝘯𝘰𝘤𝘰𝘤𝘤𝘶𝘴 𝘵𝘰𝘳𝘲𝘶𝘦𝘴 mimic exercise hormone irisin → systemic effects on host metabolism

⭡ thermogenesis, insulin signaling, glycolysis

↓ gluconeogenesis, lipogenesis

These peptides may be candidate biologics for obesity and type 2 diabetes

Life... finds a way...

Congratulations! 😊

😧 scary!

Maybe more reasons to stick to cooking with unprocessed raw ingredients?

A human homolog of SIR2 antiphage proteins mediates immunity via the Toll-like receptor pathway Key actors of mammalian immunity originated from bacterial antiphage systems. The full extent of immune system conservation between bacteria and eukaryotes is unknown. Here, we show that the silent in...

#NatMicroPicks

Ancient Proteins, Modern Immune Insights! 🦠

A conserved protein family member activates inflammation via the Toll-like receptor pathway in mammals highlighting new aspects of human immunity.

www.science.org/doi/10.1126/...

Precise virulence inactivation using a CRISPR-associated transposase for combating Enterobacteriaceae gut pathogens - Nature Biomedical Engineering A self-transmissible CRISPR-associated transposase system encodes a nanobody payload to treat Shiga toxin infections.

#NatMicroPicks

Engineering Peace in the Gut Microbiome ☮️🔧🦠

BACTRINS, a microbiome engineering platform that precisely edits gut pathogens by inserting therapeutic payloads and neutralizing virulence genes, transforming them into allies.

@natbiomedeng.nature.com
www.nature.com/articles/s41...

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

Probiotic-mediated modulation of gut microbiome in students exposed to academic stress: a randomized controlled trial - npj Biofilms and Microbiomes npj Biofilms and Microbiomes - Probiotic-mediated modulation of gut microbiome in students exposed to academic stress: a randomized controlled trial

Academia is stressful, maybe fermented milk could keep your gut microbiome in check!

#MicroSky #MicrobiomeSky

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

A combination of potential psychobiotics alleviates anxiety and depression behaviors induced by chronic unpredictable mild stress - npj Biofilms and Microbiomes npj Biofilms and Microbiomes - A combination of potential psychobiotics alleviates anxiety and depression behaviors induced by chronic unpredictable mild stress

A Psychobiotic mix: a combination of bacteria that showed preclinical promise in alleviating depression!

#MicroSky #MicrobiomeSky

share.google/JK9vN4zltLcz...

Some really cool papers in this month's special issue that focuses on overcoming infectious diseases.

#MicroSky

Metagenomic estimation of absolute bacterial biomass in the mammalian gut through host-derived read normalization | mSystems In this study, we asked whether normalization by host reads alone was sufficient to estimate absolute bacterial biomass directly from stool metagenomic data, without the need for synthetic spike-ins, ...

You can get an accurate estimate of total bacterial biomass from stool metagenomes by simply normalizing by host read count, without needing any additional measurements.

Excellent work by UW Master's student Gechlang Tang in @asm.org #mSystems Journal.

journals.asm.org/doi/10.1128/...
🧵

Indians are gaming US immigration to get Einstein visas meant for top scientists Immigration lawyers and experts in India told ThePrint that because the EB-1 visa category is intended for a country’s “best of the best,” applications typically face less scrutiny.

Not only this shows how deep the system is corrupt in India, it also puts the accomplishments of hardworking and honest Indian scientists under the scanner.
So disappointing.

share.google/tbtqRab1r8Gt...

This is figure 3, which is FIB-SIMS imaging shows intracellular bioaccumulation of PFAS by E. coli ∆tolC.

The findings of a study in Nature Microbiology show the high bioaccumulation capacity of gut bacteria for PFAS, commonly known as forever chemicals. go.nature.com/4le7Svk #microbiome #medsky 🧪

Beat the heat with the polar breeze from our July issue!

Read about:

⏱️Slow-growing aeonophiles
🦠Persistence in bacteria
♻️gut bacteria and forever chemicals
🌀Flagellar motors
🧬plasmodium genome
💉evasive Herpes virus
👩‍🔬 Reviewer gender diversity
and more

#MicroSky

www.nature.com/nmicrobiol/v...

🧬🖥️ Postdoc positions available SOON!!
Looking for researchers with strong computational skills (programming essential) to work on microbiome & phylogenetics projects.
📅 Start on Nov 1, 2025 (flexible)
📍 Trento, Italy
DM me for details or share!
#postdocjobs #microbiome #metagenomics #phylogenetics

😯

Just saw a guy at the train station wearing a clip-on fan. Pretty cool.

Our paper demonstrating that within-species warfare interactions are ecologically important on human skin is now published in Nature Micro! www.nature.com/articles/s41...

Outstanding life scientists elected to the EMBO Membership – Press releases – EMBO Sixty-nine new members join the community of leading life scientists in Europe and beyond

Welcome and congratulations to the 60 new members and 9 associate members who have been elected to the EMBO Membership! This honour celebrates #research excellence and outstanding achievements in the #LifeSciences. 🧪

Learn more here:
www.embo.org/press-releas... #EMBOMembers2025

Human gut bacteria bioaccumulate per- and polyfluoroalkyl substances - Nature Microbiology Human gut bacteria bioaccumulate per- and polyfluoroalkyl substances (PFAS), commonly known as forever chemicals, in intracellular aggregates. Colonization of gnotobiotic mice with bioaccumulating bac...

#NewResearch

🚨Out now!

Human gut bacteria bioaccumulate forever chemicals, in intracellular aggregates and colonization of gnotobiotic mice with these bioaccumulating bacteria increases faecal PFAS excretion. @kiranrpatil.bsky.social

#MicroSky #MicrobiomeSky 🦠

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

Intraspecies warfare restricts strain coexistence in human skin microbiomes - Nature Microbiology About 15,000 pairwise interactions within S. epidermidis from 18 people in 6 families reveal the antagonism and molecular trade-offs that shape the skin microbiota.

🚨Out now!

About 15,000 pairwise interactions within S. epidermidis from 18 people in 6 families reveal the antagonism and molecular trade-offs that shape the skin microbiota @contaminatedsci.bsky.social @mancusosci.bsky.social #MicrobiomeSky

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

read here: rdcu.be/et7VP

Just happy to share great work by people that may help others!

Bonus content: What we need for improved research in microbiome field? More microbiologists!

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

Modelling approaches for studying the microbiome - Nature Microbiology This Review summarizes mathematical modelling approaches that can be applied to microbiome datasets, providing insights into microbial dynamics and interactions in this complex system.

Modelling approaches for studying the microbiome

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

Moving from genome-scale to community-scale metabolic models for the human gut microbiome - Nature Microbiology In this Perspective, Deiner, Gibbons and colleagues describe the current strengths and limitations of microbial community-scale metabolic models in microbiome research.

Moving from genome-scale to community-scale metabolic models for the human gut microbiome

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

Planning and describing a microbiome data analysis - Nature Microbiology We provide guidance on the planning, execution and description of statistical analyses in microbiome studies.

Planning and describing a microbiome data analysis

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

Recognizing the reagent microbiome - Nature Microbiology A noticeable part of the microbiome literature, especially that working with low-biomass samples, is plagued by reagent contamination. Here we describe visual, statistical, methodical and ecological t...

Recognizing the reagent microbiome

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

Guidelines for preventing and reporting contamination in low-biomass microbiome studies - Nature Microbiology In this Consensus Statement, the authors outline strategies for processing, analysing and interpreting low-biomass microbiome samples, and provide recommendations to minimize contaminants.

Guidelines for preventing and reporting contamination in low-biomass microbiome studies

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

Defining microbiome function - Nature Microbiology This Perspective argues that microbiome research needs to consider the different philosophical definitions of function to avoid confusion in the field, and uses the hologenome concept as an example.

Defining microbiome function

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

Human microbiome myths and misconceptions - Nature Microbiology Walker and Hoyles highlight selected myths and misconceptions in the human microbiota literature.

Human microbiome myths and misconceptions

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