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The Daily Pub

@thedailypub.bsky.social

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Posting bioinformatics-related publications daily Sourced from PubMed: https://pubmed.ncbi.nlm.nih.gov/ A product of MAB: https://midauthorbio.com/ Follow us at: https://bsky.app/profile/midauthorbio.bsky.social

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The Daily Pub @thedailypub.bsky.social · 4h

A bizarre, hollow protein structure called the CAGE complex was found in a single-celled organism, showing up in a ton of other life forms, too! First spotted in a microbe, it's got ties to algae and fungi, even hinting at links to ancient marine bacteria. Scientists suggest it might act like a h...

The CAGE complex: a hollow, megadalton, protein assembly in prokaryotic and eukaryotic microbes.

Published in bioRxiv : the preprint server for biology

The Daily Pub @thedailypub.bsky.social · 4h

Influenza A viruses are sticking around in water habitats, with separate viral strains found in seawater and freshwater. Recent human-like strains are in the sea, while older bird-like ones are in lakes. Viruses seem to buddy up with certain microbes, helping them survive. Freshwater areas could...

Echoes in the Deep: Revealing Influenza A Viruses' Persistence and Microbial Associations in Aquatic Ecosystems.

Published in Transboundary and emerging diseases

The Daily Pub @thedailypub.bsky.social · 4h

Ever wondered what makes a cigar smell or taste just right? Turns out, the grade of filler tobacco leaves (FTLs) is key. Different grades of FTLs have unique microbial makeups and chemical shifts during fermentation. High-grade leaves bring a rich aroma, while low-grade ones might lead to funky s...

Fermentation-driven microbial and metabolic shifts in filler tobacco leaves of different grades.

Published in Frontiers in microbiology

The Daily Pub @thedailypub.bsky.social · 16h

Did you know that the gut microbes of animals help them thrive in their environments? Scientists studied 11 herbivores in Namibia's Etosha Park and found that females have richer gut biodiversity than males. They also discovered how a variety of factors affect gut microbes, like location and diet...

Interspecific variation in gut microbiome diversity across the Etosha National Park herbivore community.

Published in PloS one

The Daily Pub @thedailypub.bsky.social · 16h

The gut is a hotspot for genetic diversity, thanks to diversity-generating retroelements (DGRs). Over 1100 distinct DGRs in human-associated Bacteroides cleverly tweak proteins, enhancing adaptability. These DGRs can hop between species and boost competition by fine-tuning protein interactions. B...

Targeted protein evolution in the gut microbiome by diversity-generating retroelements.

Published in Science (New York, N.Y.)

The Daily Pub @thedailypub.bsky.social · 22h

Imagine finding a unique bug in chilly Himalayan soil. Meet Dyadobacter aurulentus, a golden bacteria thriving in the cold and munching on compounds like sodium benzoate. It's packed with cool genes for surviving low temps, making it key for studying life in harsh environments and possibly aiding...

Description of high-altitude, cold-adaptive, metabolically versatile Dyadobacter aurulentus sp. nov. isolated from Western Himalayan farmland soils.

Published in Microbiology spectrum

The Daily Pub @thedailypub.bsky.social · 1d

Flavonoids are great for meds and cosmetics but tough to use due to solubility issues. This study shows E. coli W is a superstar in making flavonoids more usable by using sugar efficiently. It beats the standard lab E. coli K12 by handling flavonoids better. With tweaks, E. coli W ramps up produc...

Engineering a Robust Escherichia coli W Platform for Scalable Production of Flavonoid-O-Glucosides.

Published in Microbial biotechnology

The Daily Pub @thedailypub.bsky.social · 1d

Reducing soil heavy metals just got a boost! Researchers developed a new material from iron tailings and sodium alginate that locks in toxic metals like lead, copper, and nickel in the soil, making them less harmful. It even tweaks the soil's bacterial balance and boosts plant growth. A promising...

Investigation of the modulation and co-stabilization mechanism on sodium alginate-modified ball-milled iron tailings on the deposition pathways of Pb(II), cu(II), Ni(II) in soil.

Published in International journal of biological macromolecules

The Daily Pub @thedailypub.bsky.social · 1d

Scientists figured out a way to speed up plastic breakdown by evolving microbial communities. They ran experiments with bacteria on polyethylene, a tough plastic, as the sole food source. After 40 cycles, these microbes got better at creating biofilms, helping each other degrade the plastic more...

Synergistic biodegradation of polyethylene by experimentally evolved bacterial biofilms.

Published in The ISME journal

The Daily Pub @thedailypub.bsky.social · 1d

Scientists explored the gut microbiome of a 936-year-old mummy dubbed the Zimapán man. Through advanced DNA techniques, they discovered typical human bacteria families and an abundance of the Clostridiaceae group, similar to other mummies. They also found Romboutsia hominis, a unique microbe not...

Microbiome characterization of a pre-Hispanic man from Zimapán, Mexico: Insights into ancient gut microbial communities.

Published in PloS one

The Daily Pub @thedailypub.bsky.social · 2d

Babies in the womb get an immune crash course from their mothers! This clever system helps them not reject mom, all while gearing up for life outside. It's now thought that mom’s diet and microbes play a key role, preparing babies' immune systems for challenges like germs and allergens, potential...

A mother's touch: microbial guardians of early immune imprinting.

Published in Trends in immunology

The Daily Pub @thedailypub.bsky.social · 2d

Surface soil fractures can worsen soil stability and speed up groundwater contamination by PFOA, a harmful chemical. Bigger fractures mean much faster PFOA spread. However, the introduction of a mix of microbes and minerals can slash contaminant levels significantly, especially in certain groundw...

Fracture-mediated transport and bio-mineral synergistic attenuation of PFOA plumes: Implications prediction for reactive remediation in heterogeneous field coupling with various groundwater environment.

Published in Journal of hazardous materials

The Daily Pub @thedailypub.bsky.social · 2d

The study dives into how desert plants host specific bacteria and fungi on their leaves. By examining 734 leaf samples from Central Asia, it was uncovered that a plant's family ties and traits mainly determine the types of microbes present, more than the environment or location. Interestingly, fu...

Host phylogeny and traits shape the composition and network structure of the phyllosphere microbial communities in temperate desert plants.

Published in Microbiological research

The Daily Pub @thedailypub.bsky.social · 2d

Researchers have cracked the secret codes of some plant-invading bad guys! By using advanced tech, they found that different pathogens, despite being unrelated by sequence, share similar 3D shapes to help them sneak past plant defenses. A particular discovery includes ankyrin proteins in some pat...

Structure-guided secretome analysis of gall-forming microbes offers insights into effector diversity and evolution.

Published in eLife

The Daily Pub @thedailypub.bsky.social · 2d

Microbes play a big role in how organisms evolve, and their method of passing from one host to another can change this impact. Week and team created a model showing these effects depend on the host’s life history. This new approach helps us better grasp host-microbe relationships, offering a clea...

Digest: Theoretical advances in studying selection via microbiome-mediated traits.

Published in Evolution; international journal of organic evolution

The Daily Pub @thedailypub.bsky.social · 3d

Yeast can now turn waste lipids into valuable chemicals more efficiently. By tweaking genes in Candida viswanathii and evolving its metabolism, researchers boosted production of a key compound called TAL by up to 50 times. This breakthrough offers a greener and cost-effective way to use waste fat...

Production of triacetic acid lactone from oleic acid by engineering the yeast Candida viswanathii.

Published in Microbial cell factories

The Daily Pub @thedailypub.bsky.social · 3d

Bacteria swap genes like social networks swap memes, through mobile genetic elements (MGEs). These swaps can either boost or slow down bacterial evolution, depending on clashes between different MGEs and their hosts. This process impacts how microbes adapt, especially when facing challenges like...

Horizontal gene transfer, segregation loss, and the speed of microbial adaptation.

Published in Evolution letters

The Daily Pub @thedailypub.bsky.social · 3d

Introducing MicroDFBEST, a breakthrough dual-function base editor for microbes that expands precise genome editing. It fuses powerful deaminases with a specialized Cas enzyme, allowing the widest editing window yet for microbial systems. This innovation paves the way for tweaking gene expression...

MicroDFBEST: A dCas12b-derived dual-function base editor with programmable editing characteristics for microbial genetic engineering.

Published in Synthetic and systems biotechnology

The Daily Pub @thedailypub.bsky.social · 3d

Turns out, fungi have a fascinating party scene high up in the forest canopy! Different heights on trees and types of bryophytes (like mosses) impact fungal diversity. Living bryophytes host a vibrant fungal community, richer than dead ones. This research sheds light on the curious world of canop...

Canopy Height and Epiphytic Bryophytes Shape Fungal Communities in a Temperate Rainforest.

Published in Ecology and evolution

The Daily Pub @thedailypub.bsky.social · 4d

Using bacteria for medical treatments is getting a sci-fi upgrade! Instead of traditional methods, scientists are exploring how to use bacteria's natural abilities to deliver drugs more safely and effectively. Imagine bacteria acting like tiny delivery bots, targeting diseases like cancer with le...

Repurposing the bacterial surface display technology for drug delivery.

Published in Advanced drug delivery reviews

The Daily Pub @thedailypub.bsky.social · 6d

Researchers explored how to tackle algae blooms in urban rivers using natural processes. They found sulfur-driven denitrification and anammox to be more effective when combined. Adding calcium nitrate improved nitrogen removal by up to 93.89%. Key players like Thiobacillus shone, showing promise...

Comparison of sulfur cyclings coupled with anaerobic ammonium oxidation in response to different river remediations.

Published in Journal of environmental management

The Daily Pub @thedailypub.bsky.social · 6d

Pharmaceutically Active Compounds (PhACs) can build up on farmlands from human activities, potentially disturbing ecosystems. An experiment showed that soil microbes break down organic matter, reducing its ability to hold PhACs. Initially, certain chemical properties of PhACs were key in how they...

Soil organic matter decomposition as a key driver of pharmaceutical retention.

Published in Journal of environmental management

The Daily Pub @thedailypub.bsky.social · 6d

E. coli just got cooler—or hotter, rather! Scientists pushed these bacteria to thrive at 45.3°C, a normally deadly heat for them. Key to survival? They fine-tuned stress responses, tapped into anaerobic metabolism, and relied on new heat-fighting genes. Understanding these tweaks could unlock sec...

Laboratory Evolution Reveals Transcriptional Mechanisms Underlying Thermal Adaptation of Escherichia coli.

Published in Genome biology and evolution

The Daily Pub @thedailypub.bsky.social · 7d

Vineyards shake up the environment, creating a playground for microbes. A study of over 4,000 yeast strains found that while many vineyard yeasts also hang out in nearby trees, only *Saccharomyces cerevisiae* has developed superpowers to resist common vineyard chemicals, making it a unique vineya...

Colonization of vineyards by non- Saccharomyces yeast species without evolution of copper and sulfite resistance.

Published in bioRxiv : the preprint server for biology

The Daily Pub @thedailypub.bsky.social · 7d

Research from 1995 to 2025 shows drought stress is a big problem for ornamental plants. Fewer studies focus on them compared to crops, but interest is growing in understanding their response. Top studies cover plant gas exchange, photosynthesis, and molecular-level changes. Despite some internati...

Blossoms amid drought: a bibliometric mapping of research on drought stress in ornamental plants (1995-2025).

Published in Frontiers in plant science