The Daily Pub
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Posting bioinformatics-related publications daily
Sourced from PubMed: https://pubmed.ncbi.nlm.nih.gov/
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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
Bad news for our wastewater treatment: PFAS, those "forever chemicals," are shaking things up. In low doses, they boost nitrogen removal, but high levels mess with key bacteria and genes, harming the cleanup process. Short-chain PFAS move easily in water. They alter microbial communities by favor...
Microbial nitrogen removal processes under PFAS stress: mechanisms, functional evolution, and research outlook.
Published in Biodegradation
doi.org
November 11, 2025 at 8:00 AM
Bad news for our wastewater treatment: PFAS, those "forever chemicals," are shaking things up. In low doses, they boost nitrogen removal, but high levels mess with key bacteria and genes, harming the cleanup process. Short-chain PFAS move easily in water. They alter microbial communities by favor...
Scientists are making waves with RNA therapeutics to fight resistant microbes. Research shows major growth in this field, dominated by the US and China. The focus is shifting from basic studies to clinical use, like better delivery systems and new treatment combos. With more collaboration and tec...
Development of siRNA therapeutics to combat microbial infections: a bibliometric analysis.
Published in Frontiers in cellular and infection microbiology
doi.org
November 10, 2025 at 8:00 PM
Scientists are making waves with RNA therapeutics to fight resistant microbes. Research shows major growth in this field, dominated by the US and China. The focus is shifting from basic studies to clinical use, like better delivery systems and new treatment combos. With more collaboration and tec...
Reposted by The Daily Pub
This concept goes against the work of Luria and Delbruck, Newcombe, and the Lederbergs that supported the hypothesis that bacterial evolution is driven by random mutations. Just got through lecturing on those experiments in my molecular microbio class. Might have students read this paper and discuss
Microorganisms like bacteria can cleverly adapt to rapidly changing environments, such as exposure to drugs, because their evolution isn't random. They have a knack for directed evolution, which means they can adjust purposefully to external changes. This insight reshapes how we understand human...
Humans and Microbes: A Systems Theory Perspective on Coevolution.
Published in Bio Systems
doi.org
November 3, 2025 at 2:29 AM
This concept goes against the work of Luria and Delbruck, Newcombe, and the Lederbergs that supported the hypothesis that bacterial evolution is driven by random mutations. Just got through lecturing on those experiments in my molecular microbio class. Might have students read this paper and discuss
Timing is everything—even for your immune system! A review shows that our body fights germs like Salmonella, Listeria, and Streptococcus differently depending on the time of day. It highlights how immune responses are linked to our circadian clock, affecting how diseases progress and urging for a...
By dawn or dusk-how circadian timing rewrites bacterial infection outcomes.
Published in FEBS letters
doi.org
November 8, 2025 at 2:00 PM
Timing is everything—even for your immune system! A review shows that our body fights germs like Salmonella, Listeria, and Streptococcus differently depending on the time of day. It highlights how immune responses are linked to our circadian clock, affecting how diseases progress and urging for a...
Storing raw Pu-erh tea just right can make or break its flavor! This fascinating study found that the moisture level during storage has a big impact on the microbes that shape its taste. When moisture is above 0.60, helpful fungi enhance the flavor, but go over 0.70, and you risk unwanted odors....
New insights into optimal storage conditions for raw Pu-erh tea: modulating post-fermentation flavor via microbial metabolism under controlled water activity.
Published in Journal of advanced research
doi.org
November 8, 2025 at 8:00 AM
Storing raw Pu-erh tea just right can make or break its flavor! This fascinating study found that the moisture level during storage has a big impact on the microbes that shape its taste. When moisture is above 0.60, helpful fungi enhance the flavor, but go over 0.70, and you risk unwanted odors....
Darwin's idea that survival depends on adapting to the environment is spot on, even for pathogens. Modern meds can kill off susceptible bacteria and viruses, but clever ones evolve to survive. Think of mitochondria, originally bacteria, now helping cells. This might even apply to atoms and molecu...
Adaptability Beyond Darwin: Microbial Evolution, Mitochondria, and the Thermodynamic Frontiers of Survival.
Published in Frontiers in bioscience (Landmark edition)
doi.org
November 7, 2025 at 8:00 AM
Darwin's idea that survival depends on adapting to the environment is spot on, even for pathogens. Modern meds can kill off susceptible bacteria and viruses, but clever ones evolve to survive. Think of mitochondria, originally bacteria, now helping cells. This might even apply to atoms and molecu...
Microbes can make coal weaker! In a study, coal samples were soaked in different solutions and cracked at various angles. Those treated with microbes had less crack resistance and started breaking earlier than those in neutral solutions. The microbial environment lengthened the fracture zone and...
Study on fracture of coal samples with different fracture angles under microbial environment.
Published in PloS one
doi.org
November 7, 2025 at 2:00 AM
Microbes can make coal weaker! In a study, coal samples were soaked in different solutions and cracked at various angles. Those treated with microbes had less crack resistance and started breaking earlier than those in neutral solutions. The microbial environment lengthened the fracture zone and...
Every year, thousands of new chemicals are introduced into industries, challenging microbes to adapt to break them down. This evolution is vital for environmental health. Natural oil has taught microbes how to handle industrial chemicals, but tougher substances like PFAS need new tactics. Now, ev...
New chemicals fuel the evolution of microbial biodegradation.
Published in Microbiology and molecular biology reviews : MMBR
doi.org
November 6, 2025 at 8:00 PM
Every year, thousands of new chemicals are introduced into industries, challenging microbes to adapt to break them down. This evolution is vital for environmental health. Natural oil has taught microbes how to handle industrial chemicals, but tougher substances like PFAS need new tactics. Now, ev...
Improving how microbes get cozy can boost biological nitrogen removal! New tech like carriers creates special microenvironments reducing bacterial washouts, stabilizing the process. Emerging materials like zero-valent iron speed up biofilm formation, solving old problems. Future focus: smarter ca...
Advancements and challenges in carrier-mediated enhancement of partial nitritation-anammox (PN/A): Mechanisms and optimisation strategies - a review.
Published in Water research
doi.org
November 6, 2025 at 8:00 AM
Improving how microbes get cozy can boost biological nitrogen removal! New tech like carriers creates special microenvironments reducing bacterial washouts, stabilizing the process. Emerging materials like zero-valent iron speed up biofilm formation, solving old problems. Future focus: smarter ca...
The evolution of animals brought about complex tissues and organs, offering fresh food for microbes. Microbes have enzymes called MMPs that break down collagen, the key animal protein. MMPs are found in unexpected places and even swapped genes between different life forms. This enzymatic exchange...
Horizontal transfer of matrix metalloproteinase genes links early animal and microbial evolution.
Published in Biology direct
doi.org
November 6, 2025 at 8:00 AM
The evolution of animals brought about complex tissues and organs, offering fresh food for microbes. Microbes have enzymes called MMPs that break down collagen, the key animal protein. MMPs are found in unexpected places and even swapped genes between different life forms. This enzymatic exchange...
Scientists have supercharged a yeast strain, X. dendrorhous, to boost astaxanthin production—a valuable antioxidant. By evolving strain A06, they found mutant TP-4, which makes 20% more astaxanthin and grows faster, thanks to specific mutations. This breakthrough offers a new way to enhance produ...
Screening and characterization of a high-astaxanthin-producing Xanthophyllomyces dendrorhous strain TP-4 via an efficient evolutionary-enrichment system.
Published in Archives of microbiology
doi.org
November 5, 2025 at 8:00 PM
Scientists have supercharged a yeast strain, X. dendrorhous, to boost astaxanthin production—a valuable antioxidant. By evolving strain A06, they found mutant TP-4, which makes 20% more astaxanthin and grows faster, thanks to specific mutations. This breakthrough offers a new way to enhance produ...
Say goodbye to phosphorus scarcity! A new study jazzes up stainless steel for better phosphorus recovery using a smart nickel-cobalt-tin mix. This tweak boosts P recovery to nearly 100% efficiency under optimal conditions. Cool trick? It ramps up hydrogen action and tweaks pH without extra chemic...
Phosphorus Recovery from Wastewater by Enhanced Microbial Electrolysis Cell: Cathode Modification and Circulation Operation.
Published in Environmental research
doi.org
November 4, 2025 at 8:00 AM
Say goodbye to phosphorus scarcity! A new study jazzes up stainless steel for better phosphorus recovery using a smart nickel-cobalt-tin mix. This tweak boosts P recovery to nearly 100% efficiency under optimal conditions. Cool trick? It ramps up hydrogen action and tweaks pH without extra chemic...
DOPA is more than just the precursor to dopamine or a Parkinson's treatment. It's been around since prebiotic times, evolving to help life tackle survival, protection, and communication. By sticking, binding, and building semiconducting polymers, it shapes our brain's circuits and plays a crucial...
The DOPA Scaffold: Tracing Catechol Chemistry from Prebiotic Earth to Cognitive Agency.
Published in Progress in biophysics and molecular biology
doi.org
November 4, 2025 at 8:00 AM
DOPA is more than just the precursor to dopamine or a Parkinson's treatment. It's been around since prebiotic times, evolving to help life tackle survival, protection, and communication. By sticking, binding, and building semiconducting polymers, it shapes our brain's circuits and plays a crucial...
Naringenin, a key player in flavonoid production, just got a big boost thanks to some cool science. Researchers created a biosensor and used whole-cell directed evolution to amplify naringenin production. By tweaking a regulatory protein, DksA, production nearly quadrupled. Another enzyme variant...
Global regulator DksA as a key target for naringenin biosynthesis identified via whole-cell directed evolution.
Published in International journal of biological macromolecules
doi.org
November 4, 2025 at 8:00 AM
Naringenin, a key player in flavonoid production, just got a big boost thanks to some cool science. Researchers created a biosensor and used whole-cell directed evolution to amplify naringenin production. By tweaking a regulatory protein, DksA, production nearly quadrupled. Another enzyme variant...
Turning bacteria into mini factories might just get easier! Scientists have developed a clever technique to boost production of complex compounds like xanthommatin, a color-changing pigment. By linking the bacteria's growth to pigment production, they've made the process more efficient. This coul...
Growth-coupled microbial biosynthesis of the animal pigment xanthommatin.
Published in Nature biotechnology
doi.org
November 4, 2025 at 8:00 AM
Turning bacteria into mini factories might just get easier! Scientists have developed a clever technique to boost production of complex compounds like xanthommatin, a color-changing pigment. By linking the bacteria's growth to pigment production, they've made the process more efficient. This coul...
Microorganisms like bacteria can cleverly adapt to rapidly changing environments, such as exposure to drugs, because their evolution isn't random. They have a knack for directed evolution, which means they can adjust purposefully to external changes. This insight reshapes how we understand human...
Humans and Microbes: A Systems Theory Perspective on Coevolution.
Published in Bio Systems
doi.org
November 2, 2025 at 2:00 PM
Microorganisms like bacteria can cleverly adapt to rapidly changing environments, such as exposure to drugs, because their evolution isn't random. They have a knack for directed evolution, which means they can adjust purposefully to external changes. This insight reshapes how we understand human...
Scientists examined how bacteria spoil packaged blue mussels. They found that when mussels are packed in modified atmospheres, bacteria like Psychromonas arctica, Shewanella frigidimarina, and Pseudoalteromonas elyakovii grow less and produce fewer smelly compounds compared to when they're packed...
Real time and non-destructive quantification of volatile organic compounds associated with spoilage bacteria in packed blue mussels (Mytilus edulis) using SIFT-MS.
Published in Food research international (Ottawa, Ont.)
doi.org
November 1, 2025 at 7:00 AM
Scientists examined how bacteria spoil packaged blue mussels. They found that when mussels are packed in modified atmospheres, bacteria like Psychromonas arctica, Shewanella frigidimarina, and Pseudoalteromonas elyakovii grow less and produce fewer smelly compounds compared to when they're packed...
Telonemia, a little-known group of tiny organisms in water, has been hiding hundreds of unknown lineages. Recently, two new strains were discovered, including a new genus named Hyaliora molinica. This research sheds light on how these microbes fit into the tree of life and their vital role in aqu...
Description of a New Telonemia Genus and Species With Novel Observations Providing Insights Into Its Hidden Diversity.
Published in The Journal of eukaryotic microbiology
doi.org
November 1, 2025 at 7:00 AM
Telonemia, a little-known group of tiny organisms in water, has been hiding hundreds of unknown lineages. Recently, two new strains were discovered, including a new genus named Hyaliora molinica. This research sheds light on how these microbes fit into the tree of life and their vital role in aqu...
Enzymes can be like jacks-of-all-trades, helping plants adapt and evolve while offering cool possibilities for synthetic biology, like making new products. But this flexibility can also cause hiccups in purity and efficiency when scaled up for industry. Despite the challenges, this paper looks in...
From Plants to Microbes: Harnessing Enzyme Promiscuity for Natural Product Synthesis.
Published in Journal of agricultural and food chemistry
doi.org
November 1, 2025 at 1:00 AM
Enzymes can be like jacks-of-all-trades, helping plants adapt and evolve while offering cool possibilities for synthetic biology, like making new products. But this flexibility can also cause hiccups in purity and efficiency when scaled up for industry. Despite the challenges, this paper looks in...
From clonality to complexity: a journey through microbial ecology and evolution.
https://doi.org/10.1038/s41576-025-00910-6
https://doi.org/10.1038/s41576-025-00910-6
From clonality to complexity: a journey through microbial ecology and evolution.
Published in Nature reviews. Genetics
doi.org
October 31, 2025 at 1:00 PM
From clonality to complexity: a journey through microbial ecology and evolution.
https://doi.org/10.1038/s41576-025-00910-6
https://doi.org/10.1038/s41576-025-00910-6
Exciting times ahead in the world of evolutionary genomics! Recent advancements spotlight amazing topics like microbial pangenomes and hybrid speciation. Cutting-edge computational and molecular methods are reshaping the field, unlocking mysteries of protein evolution and gene origination. The fu...
Advances and challenges in understanding evolution through genome comparison: meeting report of the European Molecular Biology Organization (EMBO) lecture course "Evolutionary and Comparative Genomics".
Published in Bioinformatics advances
doi.org
October 31, 2025 at 1:00 PM
Exciting times ahead in the world of evolutionary genomics! Recent advancements spotlight amazing topics like microbial pangenomes and hybrid speciation. Cutting-edge computational and molecular methods are reshaping the field, unlocking mysteries of protein evolution and gene origination. The fu...
Viruses called bacteriophages attack bacteria and keep evolving alongside them, playing a huge role in shaping microbial life. Bacteria fight back with defenses like CRISPR and other immune tactics. Thanks to new gene-sequencing tech, scientists are uncovering these epic battles, revealing comple...
The arms race in bacteria-phage interaction: deciphering bacteria defense and phage anti-defense mechanisms through metagenomics.
Published in Frontiers in microbiology
doi.org
October 31, 2025 at 1:00 PM
Viruses called bacteriophages attack bacteria and keep evolving alongside them, playing a huge role in shaping microbial life. Bacteria fight back with defenses like CRISPR and other immune tactics. Thanks to new gene-sequencing tech, scientists are uncovering these epic battles, revealing comple...
Plants owe a lot to microbes, not just for growth but for evolution, too! Microbes share genes with plants, which helped them adapt and thrive on land. This exchange has been crucial, especially for ancient plant groups like charophytes and bryophytes, leading to major breakthroughs in plant stru...
Land plant evolution: from microbial interaction to horizontal gene transfer.
Published in Trends in plant science
doi.org
October 31, 2025 at 7:00 AM
Plants owe a lot to microbes, not just for growth but for evolution, too! Microbes share genes with plants, which helped them adapt and thrive on land. This exchange has been crucial, especially for ancient plant groups like charophytes and bryophytes, leading to major breakthroughs in plant stru...
Scientists have compiled a detailed database on Amoebozoa, a big group of protists, revealing how their features, like habitat and prey preferences, impact ecosystems. Amoebozoa aren't picky eaters, unlike the closely related Cercozoa, and this affects where they thrive and their roles, especiall...
A Novel Protistan Trait Database Reveals Functional Redundancy and Complementarity in Terrestrial Protists (Amoebozoa and Rhizaria).
Published in Molecular ecology resources
doi.org
October 30, 2025 at 7:00 PM
Scientists have compiled a detailed database on Amoebozoa, a big group of protists, revealing how their features, like habitat and prey preferences, impact ecosystems. Amoebozoa aren't picky eaters, unlike the closely related Cercozoa, and this affects where they thrive and their roles, especiall...
Plants might be getting an evolutionary boost from their tiny microbial buddies in the soil! In a study with Brachypodium, plants were found to partner with specific microbes based on their historic environment. For instance, those from low-nitrogen areas picked nitrogen-savvy microbes. This sugg...
Signatures of local nitrogen adaptation in the Brachypodium distachyon root microbiome.
Published in The New phytologist
doi.org
October 30, 2025 at 1:00 PM
Plants might be getting an evolutionary boost from their tiny microbial buddies in the soil! In a study with Brachypodium, plants were found to partner with specific microbes based on their historic environment. For instance, those from low-nitrogen areas picked nitrogen-savvy microbes. This sugg...