#NatMicroPicks
Wondering what papers did Nature Microbiology editors find super interesting (besides the cool content they are already handling!) ? 🤔

Check out #NatMicroPicks at @natmicrobiol.nature.com!
August 8, 2025 at 1:42 PM
#NatMicroPicks

Hidden in plain sight! 💊🦠

Assessing overlooked minor compounds uncovered a new antibiotic, manikomycin, from well-studied Streptomyces species that kills bacteria by uniquely targeting the ribosomal E-site

#MicroSky

www.nature.com/articles/s41...
A natural depsipeptide antibiotic binds the E-site of the bacterial ribosome - Nature
Improved fractionation strategies can identify antibiotics with previously unseen scaffolds and mechanisms, exemplified by manikomycin from Streptomyces rimosus, which acts by targeting the E-site of ...
www.nature.com
June 19, 2026 at 12:55 PM
#NatMicroPicks

A network like none other! 🌍🍄

Global data and modeling estimates that arbuscular mycorrhizal fungi form extensive underground networks that play a major role in plant carbon–nutrient exchange

#MicroSky

www.science.org/doi/10.1126/...
Global density and biomass of arbuscular mycorrhizal fungal networks
Arbuscular mycorrhizal fungi form symbioses with ~70% of plant species, building hyphal networks that exchange nutrients for host-derived carbon. These tubular networks move ~1 billion metric tons of ...
www.science.org
June 19, 2026 at 12:51 PM
#NatMicroPicks

Phage-to-phage dialogue! 🗨️💬

Arbitrium peptide signaling systems in bacteriophages exhibit cross-communication where peptides can influence non-cognate receptors to promote lysogeny

#MicroSky

www.cell.com/cell/fulltex...
www.cell.com/cell/fulltex...
Arbitrium phages can manipulate each other’s lysis/lysogeny decisions
Arbitrium phages belonging to different species and genera can influence each other’s infection dynamics by secreting chemically similar, non-cognate signal peptides. These findings indicate that arbi...
www.cell.com
June 19, 2026 at 12:45 PM
#NatMicroPicks

Been plaguing humans for long! 🦠

Ancient Yersinia pestis strains caused lethal outbreaks as early as 5,500 years ago indicating that plague epidemics occurred before the rise of dense societies.

#MicroSky

www.nature.com/articles/s41...
Lethal plague outbreaks in Lake Baikal hunter-gatherers 5,500 years ago - Nature
Analyses of ancient DNA from hunter-gatherers near Lake Baikal in southeast Siberia around 5,500 years ago indicate that highly virulent Yersinia pestis emerged earlier than previously estimated, far&...
www.nature.com
June 19, 2026 at 12:37 PM
#NatMicroPicks

GTP-based control of proteome allocation and metabolic flux in bacteria. 🦠

In B. subtilis GTP acts as a key regulator that decouples metabolism from proteome under stress, revealing a distinct resource-allocation strategy

#MicroSky

www.science.org/doi/10.1126/...
Decoupling of global metabolic flux and proteome partitioning in bacteria
Bacteria regulate homeostatic growth by adjusting proteome composition. In Escherichia coli, this coordination is mediated by guanosine tetraphosphate and pentaphosphate, collectively termed (p)ppGpp,...
www.science.org
June 19, 2026 at 12:33 PM
#NatMicroPicks

A step towards HIV vaccine 💉⚕️

Engineered SHIV infection in macaques successfully induced broadly neutralizing HIV antibodies through a two-step coevolution process, providing insights to guide future vaccine design.

#MicroSky

www.science.org/doi/10.1126/...
Induction of broadly neutralizing HIV antibodies by a two-step mechanism informs vaccine design
A major obstacle confronting HIV-1 vaccine and cure research is the lack of an outbred animal model for rapid and consistent induction of broadly neutralizing antibodies (bNAbs). We designed an epitop...
www.science.org
June 19, 2026 at 12:30 PM
#NatMicroPicks

A new way to defeat Mycobacterium! 🦠💉

Metabolic overactivation of the L‑histidine biosynthesis pathway in M. tuberculosis impairs its growth and infectivity, revealing a novel bactericidal mechanism for antimycobacterial drug discovery.

#MicroSky

www.nature.com/articles/s41...
Activation of l-histidine biosynthesis as a new antibiotic strategy against Mycobacterium tuberculosis - Nature Communications
Here, the authors report metabolic activation as a potential antimicrobial strategy against Mycobacterium tuberculosis. They show that supra-physiological activation of L-histidine biosynthesis r...
www.nature.com
March 27, 2026 at 4:17 PM
#NatMicroPicks

Opportunistic Pseudomonas 🦠🌱

Root‑secreted coumarins can be exploited by Pseudomonas NyZ480, whose coumarin‑degrading genes enable opportunistic colonization that worsens plant iron deficiency and impairs overall plant fitness.

#MicroSky

www.nature.com/articles/s41...
Rhizobacteria opportunistically boost colonization and impair plant fitness by degrading plant-derived coumarins under iron deficiency - Nature Communications
Here, the authors show that rhizobacteria can utilize and detoxify simple coumarins secreted by iron-deficient plants, thereby enhancing their root colonization. This, in turn, hampers plant iron acqu...
www.nature.com
March 27, 2026 at 3:31 PM
#NatMicroPicks

Transmission dynamics of Oropouche virus 🌐

A comprehensive assessment of OROV transmission in 2023-24 epidemic in Manaus City & estimated OROV infections across Latin America and the Caribbean provides better understanding of the OROV burden

#MicroSky
www.nature.com/articles/s41...
Transmission dynamics of Oropouche virus in Latin America and the Caribbean - Nature Medicine
The transmission dynamics of the 2023–2024 Oropouche virus (OROV) outbreak in Brazil (Manaus City) revealed a twofold increase in Oropouche seroprevalence in Manaus, and in a separate historical recon...
www.nature.com
March 27, 2026 at 3:23 PM
#NatMicroPicks

Diet-microbiome analysis at population scale 💻🦠

Diet shaped gut microbiome composition and function analysed at species-level resolution might enabling long‑term predictions and personalized dietary intervention strategies.

#MicroSky #MicrobiomeSky

www.nature.com/articles/s41...
Diet–microbiome associations in 10,068 individuals from the Human Phenotype Project to guide personalized nutrition - Nature Medicine
Analyses of more than 10,000 participants from the Human Phenotype Project revealed distinct, persistent food–microbiome associations that can be used to simulate personalized dietary interventions to...
www.nature.com
March 27, 2026 at 2:46 PM
#NatMicroPicks

Microbial factor in cancer immunotherapy resistance 🦀🦠💉

Ligilactobacillus salivarius–derived indole-3-lactic acid suppresses anti-tumor T‑cell populations, driving resistance to anti‑PD‑1 therapy in ESCC

#MicroSky #CancerSky #MicrobiomeSky

www.cell.com/cell-host-mi...
Gut microbiota-derived indole-3-lactic acid suppresses anti-PD-1 efficacy in esophageal squamous cell carcinoma
Zhou et al. reveal that gut L. salivarius and its metabolite indole-3-lactic acid (ILA) drive anti-PD-1 resistance in ESCC. Mechanistically, ILA activates AhR to suppress NF-κB signaling, triggering t...
www.cell.com
March 27, 2026 at 2:41 PM
#NatMicroPicks

Influenza in the sneeze 🤧🦠

A modular sampling tunnel captures, cultures, and sequences virus in human respiratory expulsions, revealing wide individual variation and preserved viral diversity in aerosols.

#MicroSky

www.cell.com/cell/fulltex...
Controlled human influenza infection reveals heterogeneous expulsion of infectious virus into air
A platform called MIST enables quantification and genotyping of infectious influenza in expelled respiratory particles, revealing diverse, individual-specific viral loads and aerosolized variants that...
www.cell.com
March 27, 2026 at 2:38 PM
#NatMicroPicks

Same destination, different routes 🍄🧫🧪

Following 10,000 generations, parallel evolution occurred in separate yeast species, but took different genetic routes driven largely by transcriptomic and trans‑regulatory differences.

#MicroSky

www.nature.com/articles/s41...
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...
www.nature.com
March 20, 2026 at 11:04 AM
#NatMicroPicks

Vaccination boost! 🦠💉

A delayed booster given 18 months after the initial dose generates a stronger, more diverse, and long‑lasting high‑affinity antibody response to Ebola glycoprotein than a single vaccination.

#MicroSky

www.nature.com/articles/s41...
Improved VSV-Ebola-GP booster vaccination approach promotes antibody affinity maturation and durable anti-Ebola immunity in humans - Nature Immunology
A delayed booster of Ebola vaccine induces a stronger and durable antibody response with higher affinity maturation than a single dose, providing long-lasting immunity and enhancing the ability to pre...
www.nature.com
March 20, 2026 at 11:01 AM
#NatMicroPicks

Host-microbe cycle in chronic kidney disease 🦠⚕️

Inefficient removal of indole derivatives due to kidney dysfunction in mice raises the levels of nitrate that in turn promote indole producing E. coli

#MicroSky

www.science.org/doi/10.1126/...
Host-derived nitrate fuels indole production by Escherichia coli to drive chronic kidney disease progression
Chronic kidney disease (CKD) is linked to an elevated fecal abundance of Enterobacteriaceae, but the ecological drivers of this shift and its impact on disease progression remain unclear. The uremic t...
www.science.org
March 20, 2026 at 10:58 AM
#NatMicroPicks

Live biotherapeutics for bacterial vaginosis 🚺🦠

A short course of vaginal Lactobacillus crispatus biotherapeutics after antibiotics safely achieved sustained colonization in many women recovering from bacterial vaginosis.

#MicroSky

www.cell.com/cell-host-mi...
VIBRANT: A phase 1 randomized trial of multi-strain vaginal L. crispatus live biotherapeutic products in people with bacterial vaginosis
In this phase 1 randomized trial of women with bacterial vaginosis in South Africa and the United States, Potloane et al. show that a multi-strain vaginal Lactobacillus crispatus live biotherapeutic administered for just 3–7 days following antibiotics can achieve vaginal colonization lasting up to 12 weeks.
www.cell.com
March 20, 2026 at 10:29 AM
#NatMicroPicks

From trash to treasure 🦠🔧♻️

Engineered E. coli convert the plastic PET to levodopa - a frontline medication for Parkinson’s disease.

#MicroSky

www.nature.com/articles/s41...
Microbial upcycling of plastic waste to levodopa - Nature Sustainability
The production of high-value chemicals can involve energy-intensive processes, necessitating sustainable production strategies. Here the authors present a circular bioeconomy approach, upcycling plast...
www.nature.com
March 20, 2026 at 10:19 AM
#NatMicroPicks

Engineered E. coli boosts tumour immunotherapy 🦠🔧💉

A synthetic arginine–nitric oxide (NO) circuit enables sustained intratumoral NO production that promotes vascular normalization and immune reprogramming in mouse models

#MicroSky

www.nature.com/articles/s41...
An engineered E. coli strain sustains intratumoral nitric oxide production to boost effectiveness of tumor immunotherapy - Nature Biotechnology
An engineered Escherichia coli Nissle 1917 strain carrying a synthetic arginine–nitric oxide (NO) circuit enables sustained intratumoral NO production that promotes vascular normalization and immune r...
www.nature.com
March 20, 2026 at 10:15 AM
#NatMicroPicks

Sending evolution into overdrive 🔧🦠

A Φ29‑based DNA replication system in E. coli enables stable and targeted hypermutation achieving evolution of enzyme activities within days

#MicroSky

www.nature.com/articles/s41...
Highly mutagenic continuous evolution in E. coli using a Φ29-based orthogonal replication system - Nature Biotechnology
Mutational rates of bacterial evolution are increased using an error-prone orthogonal system.
www.nature.com
March 13, 2026 at 12:39 PM
#NatMicroPicks

No-GMO enhanced Bt toxin 🦠🌱🪲

Naturally occurring 'sporesilk' matrix coating the Bacillus thuringiensis toxin crystals boosts insecticidal activity providing a non-GMO pest biocontrol.

#MicroSky

www.nature.com/articles/s41...
Auto-crosslinking sporesilk fibers promote endospore and Cry toxin clustering - Nature Communications
Authors reveal that protein nanofibrils govern assembly of bacterial spores and extrasporal toxins into insecticidal aggregates. Spores and parasporal bodies are incased in a “sporesilk” matrix that d...
www.nature.com
March 13, 2026 at 12:36 PM
#NatMicroPicks

The versatile Acinetobacter baumannii! 🦠

The dreaded pathogen naturally occupies soil and airborne niches that underpin its recalcitrance and human contact may have shaped its evolution.

#MicroSky

www.nature.com/articles/s41...
Acinetobacter baumannii’s lifestyle includes soil-dwelling colonization of decaying plant material and airborne spread - Nature Communications
Little is known about the ecology and evolution of the nosocomial pathogen Acinetobacter baumannii outside the hospital. Here, Wilharm et al. show that the lifestyle of A. baumannii includes soil-dwel...
www.nature.com
March 13, 2026 at 12:27 PM
#NatMicroPicks

Multi-kingdom microbial interplay in cancer 🦠🍄🦀⚕️

Candida albicans synergizes with Fusobacterium nucleatum in colorectal cancer offering a potential therapeutic target via L‑arginine disruption.

#MicroSky #CancerSky

www.cell.com/cancer-cell/...
Candida albicans synergizes with Fusobacterium nucleatum in colorectal cancer progression via the Flo9-RadD interaction
How does other types of microbe like fungi influence tumor-promoting role of Fusobacterium nucleatum? In this study, Li et al. establish that commensal fungi facilitate translocation of pro-tumor bact...
www.cell.com
March 13, 2026 at 12:17 PM
#NatMicroPicks

Antibiotics in the long run ⌛💊🦠

Antibiotic use shows lasting associations with reduced gut microbial diversity for up to 8 years, indicating long-term impacts on the adult gut microbiome.

#MicroSky #MicrobiomeSky

www.nature.com/articles/s41...
Antibiotic use and gut microbiome composition links from individual-level prescription data of 14,979 individuals - Nature Medicine
Using individual-level data from the Swedish Prescribed Drug Register and fecal metagenomes of 14,979 individuals in Sweden, the authors examined the association between oral antibiotic use over 8 yea...
www.nature.com
March 13, 2026 at 12:14 PM