The Daily Pub
@thedailypub.bsky.social
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
Sorghum's role in brewing Baijiu was put to the test. Researchers found glutinous sorghum led to more flavorful results, dominated by special microbes like Klebsiella and Saccharomycopsis. Over 129 flavor compounds were identified, with glutinous types outperforming the non-glutinous ones in tast...
Microbial communities as key drivers: Exploring sorghum quality impact on light-flavor Baijiu through physicochemical and flavor analyses of fermented grains.
Published in International journal of food microbiology
doi.org
November 30, 2025 at 8:00 AM
Sorghum's role in brewing Baijiu was put to the test. Researchers found glutinous sorghum led to more flavorful results, dominated by special microbes like Klebsiella and Saccharomycopsis. Over 129 flavor compounds were identified, with glutinous types outperforming the non-glutinous ones in tast...
Understanding microbial ecology and evolution with single-cell genomics.
https://doi.org/10.1038/s41576-025-00918-y
https://doi.org/10.1038/s41576-025-00918-y
Understanding microbial ecology and evolution with single-cell genomics.
Published in Nature reviews. Genetics
doi.org
November 29, 2025 at 2:00 PM
Understanding microbial ecology and evolution with single-cell genomics.
https://doi.org/10.1038/s41576-025-00918-y
https://doi.org/10.1038/s41576-025-00918-y
Bioengineering is revolutionizing fields like health and the environment, but experts remind us that collaboration with ecologists and evolutionary biologists is crucial. These specialists can help uncover the full impact of bioengineered organisms, ensuring these technologies are both safe and b...
A niche for ecology and evolution in microbial biotechnology.
Published in Trends in ecology & evolution
doi.org
November 29, 2025 at 8:00 AM
Bioengineering is revolutionizing fields like health and the environment, but experts remind us that collaboration with ecologists and evolutionary biologists is crucial. These specialists can help uncover the full impact of bioengineered organisms, ensuring these technologies are both safe and b...
A new cobalt electrocatalyst, MEC-17, made via an eco-friendly method, is boosting water electrolysis efficiency. It combines sulfur and 2-methylimidazole to enhance performance, working over 300 hours at a high electrical current. The sulfur adjusts cobalt spacing, while 2-methylimidazole fine-t...
Microbial-vulcanized organic-inorganic dual-modulated cobalt hydroxide for oxygen evolution reaction.
Published in Nature communications
doi.org
November 29, 2025 at 8:00 AM
A new cobalt electrocatalyst, MEC-17, made via an eco-friendly method, is boosting water electrolysis efficiency. It combines sulfur and 2-methylimidazole to enhance performance, working over 300 hours at a high electrical current. The sulfur adjusts cobalt spacing, while 2-methylimidazole fine-t...
Scientists found that certain bacteria use proteins to navigate by magnetism and light. One protein, Amb0994, slows magnetic responses, while another, Amb2291, helps them turn after sensing light. Mutant bacteria showed different behaviors, revealing how these proteins work together. This discove...
Bidirectional Regulation Mechanism of Magneto-Optical Behavior in Magnetotactic Bacteria.
Published in Biophysical journal
doi.org
November 28, 2025 at 2:00 PM
Scientists found that certain bacteria use proteins to navigate by magnetism and light. One protein, Amb0994, slows magnetic responses, while another, Amb2291, helps them turn after sensing light. Mutant bacteria showed different behaviors, revealing how these proteins work together. This discove...
Turning old plastic into new possibilities: Scientists have developed a special type of E. coli that can efficiently break down and consume parts of plastic waste. This engineered bacteria not only feeds on ethylene glycol from PET plastics but also helps recycle and upcycle them in a sustainable...
Engineering of ethylene glycol (EG)-trophic Escherichia coli enables fast growth on EG for closed-loop PET biodegradation.
Published in Bioresource technology
doi.org
November 28, 2025 at 8:00 AM
Turning old plastic into new possibilities: Scientists have developed a special type of E. coli that can efficiently break down and consume parts of plastic waste. This engineered bacteria not only feeds on ethylene glycol from PET plastics but also helps recycle and upcycle them in a sustainable...
Lactic acid is in high demand for lots of industries, but making it isn't easy. By tweaking yeast (yup, the stuff in bread), scientists managed to crank up lactic acid levels over three years, hitting record amounts even without fancy pH controls. This breakthrough shows yeast could become a key...
Long-term adaptive laboratory evolution of Saccharomyces cerevisiae for high-titer lactic acid production at low pH.
Published in Microbial cell factories
doi.org
November 27, 2025 at 2:00 PM
Lactic acid is in high demand for lots of industries, but making it isn't easy. By tweaking yeast (yup, the stuff in bread), scientists managed to crank up lactic acid levels over three years, hitting record amounts even without fancy pH controls. This breakthrough shows yeast could become a key...
Antarctic sponges are survival experts! They host unique microbes adapted to extreme cold. These microbes have a special set of genes for dealing with the chill, like cold shock proteins. Cool fact: they swap genes with one another, aiding survival. Gammaproteobacteria, Alphaproteobacteria, and B...
Cold adaptation and horizontal gene transfer shape Antarctic sponge microbiomes.
Published in Microbiome
doi.org
November 27, 2025 at 2:00 PM
Antarctic sponges are survival experts! They host unique microbes adapted to extreme cold. These microbes have a special set of genes for dealing with the chill, like cold shock proteins. Cool fact: they swap genes with one another, aiding survival. Gammaproteobacteria, Alphaproteobacteria, and B...
Turning olive and vineyard pruning, chicory root, and red onion waste into tasty, fermented drinks? Yes, it's possible! Using specific microbes, one mix stood out. With added sugar, these microbes thrived and boosted antioxidants. Fermented drinks became flavorful and nutritious with promising he...
Microbial Biotransformation of Agro-Industrial Fibre-Rich By-Products into Functional Beverages.
Published in Antioxidants (Basel, Switzerland)
doi.org
November 27, 2025 at 2:00 PM
Turning olive and vineyard pruning, chicory root, and red onion waste into tasty, fermented drinks? Yes, it's possible! Using specific microbes, one mix stood out. With added sugar, these microbes thrived and boosted antioxidants. Fermented drinks became flavorful and nutritious with promising he...
Our saliva’s alpha-amylase interacts with certain oral bacteria to form dental biofilms, influencing oral health and conditions like cavities. These bacteria, like *Streptococcus gordonii*, use amylase to stick to teeth and efficiently digest starch. This ability might have evolved as humans and...
Amylase Binding to Oral Streptococci: A Key Interaction for Human Oral Microbial Ecology, Adaptation and Fitness.
Published in Biomolecules
doi.org
November 27, 2025 at 2:00 PM
Our saliva’s alpha-amylase interacts with certain oral bacteria to form dental biofilms, influencing oral health and conditions like cavities. These bacteria, like *Streptococcus gordonii*, use amylase to stick to teeth and efficiently digest starch. This ability might have evolved as humans and...
In the Yalong River, five fish species (PL, GP, SK, SM, and SW) show unique dining habits: PL munches on fish and algae, GP and SK favor invertebrates and algae, while SM and SW stick mostly to algae. Differences in enzyme activity and gut bacteria, particularly with PL differing markedly from th...
Morphological Differences in Feeding and Digestive Organs, the Diversity of Intestinal Microorganisms, and Variations in Digestive Enzyme Activity Promote the Differentiation of Nutritional Niches in Schizothoracinae Species.
Published in Animals : an open access journal from MDPI
doi.org
November 27, 2025 at 2:00 PM
In the Yalong River, five fish species (PL, GP, SK, SM, and SW) show unique dining habits: PL munches on fish and algae, GP and SK favor invertebrates and algae, while SM and SW stick mostly to algae. Differences in enzyme activity and gut bacteria, particularly with PL differing markedly from th...
Feeding black soldier fly (BSF) larvae with a dash of benzoic acid in their diet can boost how efficiently they convert feed into body mass, especially in a low-pH setting. Even with fewer microbes at work, larvae grew just as well, and smarter feeding seemed to make them even more efficient. Thi...
Effects of Low Benzoic Acid Concentrations on Growth and Substrate Utilization in Black Soldier Fly Larvae.
Published in Insects
doi.org
November 27, 2025 at 2:00 PM
Feeding black soldier fly (BSF) larvae with a dash of benzoic acid in their diet can boost how efficiently they convert feed into body mass, especially in a low-pH setting. Even with fewer microbes at work, larvae grew just as well, and smarter feeding seemed to make them even more efficient. Thi...
Meet Bacillus safensis LG01, a microbial multitasker! It’s more than just a bug—this strain packs potent antibiotic punches and can bust fungus. Its genes hold secrets to killer resistance and nutrient smarts. Plus, it's great at forming protective biofilms. With its unique genetic toolbox, LG01...
Integrated Genomic and Phenotypic Analysis of Bacillus safensis LG01 Highlights Its Prospects in Biotechnology and Biocontrol.
Published in Microorganisms
doi.org
November 27, 2025 at 2:00 PM
Meet Bacillus safensis LG01, a microbial multitasker! It’s more than just a bug—this strain packs potent antibiotic punches and can bust fungus. Its genes hold secrets to killer resistance and nutrient smarts. Plus, it's great at forming protective biofilms. With its unique genetic toolbox, LG01...
Surprising find in Guilin, China: rice fields in karst areas emit less N₂O, a greenhouse gas, than non-karst areas. High ammonia-oxidizing bacteria (AOB) levels in karst soils play a part, while factors like nitrates and soil pH influence emissions. This knowledge can help cut emissions from agri...
Linking N2O Emission with AOB and nirK-Denitrifier in Paddy Fields of Karst and Non-Karst Areas.
Published in Microorganisms
doi.org
November 27, 2025 at 2:00 PM
Surprising find in Guilin, China: rice fields in karst areas emit less N₂O, a greenhouse gas, than non-karst areas. High ammonia-oxidizing bacteria (AOB) levels in karst soils play a part, while factors like nitrates and soil pH influence emissions. This knowledge can help cut emissions from agri...
Herbicide use has skyrocketed in Australian agriculture, boosting weed control but raising alarms over environmental and health impacts. This increase is linked to pollution and loss of biodiversity in the soil. Microorganisms might save the day by breaking down these chemicals, and new technolog...
Microbial Degradation of Herbicide Residues in Australian Soil: An Overview of Mechanistic Insights and Recent Advancements.
Published in Toxics
doi.org
November 27, 2025 at 2:00 PM
Herbicide use has skyrocketed in Australian agriculture, boosting weed control but raising alarms over environmental and health impacts. This increase is linked to pollution and loss of biodiversity in the soil. Microorganisms might save the day by breaking down these chemicals, and new technolog...
This study dives into why methane levels vary in different Kuwaiti oil field aquifers. Northern Kuwait has the highest methane levels, with saline waters playing a big role in trapping it. The proximity to old wells boosts these levels too. Interestingly, microbes in the southeast munch on carbon...
Diverse methanogenic sources and their controlling factors in saline to hypersaline groundwaters within the major oil field aquifers in Kuwait.
Published in Environmental geochemistry and health
doi.org
November 27, 2025 at 8:00 AM
This study dives into why methane levels vary in different Kuwaiti oil field aquifers. Northern Kuwait has the highest methane levels, with saline waters playing a big role in trapping it. The proximity to old wells boosts these levels too. Interestingly, microbes in the southeast munch on carbon...
Ever wondered why some bacteria and archaea can fix nitrogen despite it being super energy-draining? They’ve evolved by not just inheriting nitrogen-fixing genes but also snagging extra helper genes. These helpers boost absorption and metabolism, often hanging out close to the nitrogen-fixing one...
Nitrogen-fixing microbes gain genes in diverse types of living environments.
Published in Proceedings of the National Academy of Sciences of the United States of America
doi.org
November 27, 2025 at 2:00 AM
Ever wondered why some bacteria and archaea can fix nitrogen despite it being super energy-draining? They’ve evolved by not just inheriting nitrogen-fixing genes but also snagging extra helper genes. These helpers boost absorption and metabolism, often hanging out close to the nitrogen-fixing one...
Exploring the untapped power of plants from Brazil's Caatinga, scientists found that the Lamiaceae and Verbenaceae families pack a punch against bacteria and fungi with their essential oils and extracts. These findings could revolutionize new antimicrobial agents, enhance food preservation, and e...
Antimicrobial potential of Verbenaceae and Lamiaceae from Brazilian Caatinga: a systematic review and technological prospecting.
Published in Anais da Academia Brasileira de Ciencias
doi.org
November 26, 2025 at 8:00 PM
Exploring the untapped power of plants from Brazil's Caatinga, scientists found that the Lamiaceae and Verbenaceae families pack a punch against bacteria and fungi with their essential oils and extracts. These findings could revolutionize new antimicrobial agents, enhance food preservation, and e...
A new system boosts enzyme evolution by using biosensors to detect changes inside cells. This method helps scientists rapidly screen and improve enzymes like those breaking down herbicides, such as alachlor, with improved precision. By coupling enzyme function with cell selection, this breakthrou...
Readily Adaptable Biosensor-Guided Platform Enables the Selection of Herbicide-Metabolizing CYP2B6 Variants.
Published in ACS synthetic biology
doi.org
November 26, 2025 at 2:00 PM
A new system boosts enzyme evolution by using biosensors to detect changes inside cells. This method helps scientists rapidly screen and improve enzymes like those breaking down herbicides, such as alachlor, with improved precision. By coupling enzyme function with cell selection, this breakthrou...
Transforming waste into valuable resources through hyperthermophilic composting involves using extremely high temperatures. Thermophilic bacteria lead this process, adapting to the heat with unique metabolic tricks and strong proteins that resist heat damage. Their actions explain 97% of the bact...
Chaperone-mediated thermotolerance in hyperthermophilic composting: Molecular-Level protein remodeling of microbial communities.
Published in Environmental science and ecotechnology
doi.org
November 26, 2025 at 2:00 PM
Transforming waste into valuable resources through hyperthermophilic composting involves using extremely high temperatures. Thermophilic bacteria lead this process, adapting to the heat with unique metabolic tricks and strong proteins that resist heat damage. Their actions explain 97% of the bact...
New genomic tool on the block! Traditional methods to track evolutionary pressures in genomes are slow and need complex alignments. Now, there's a speedy and alignment-free method using FracMinHash for fast genome-wide analyses. Tested on 85,000 genomes in 5 hours and even found new genetic links...
Leveraging FracMinHash Containment for Genomic d N / d S.
Published in bioRxiv : the preprint server for biology
doi.org
November 26, 2025 at 2:00 PM
New genomic tool on the block! Traditional methods to track evolutionary pressures in genomes are slow and need complex alignments. Now, there's a speedy and alignment-free method using FracMinHash for fast genome-wide analyses. Tested on 85,000 genomes in 5 hours and even found new genetic links...
In the world of microbial biotech, scientists face the challenge of making cells focus less on survival and more on producing what humans need. They juggle competing goals like yield and productivity, all while dealing with natural limits. By tweaking growth settings and reworking cells' internal...
Resource allocation models: theory and applications in microbial biotechnology.
Published in Current opinion in biotechnology
doi.org
November 26, 2025 at 8:00 AM
In the world of microbial biotech, scientists face the challenge of making cells focus less on survival and more on producing what humans need. They juggle competing goals like yield and productivity, all while dealing with natural limits. By tweaking growth settings and reworking cells' internal...
Using 3D-printed systems, scientists studied how two bacterial species adapt when living together in biofilms. Pseudomonas defluvii showed a lot of changes when living in simpler communities, but not much in complex ones due to species interactions. Meanwhile, Pseudomonas brenneri hardly changed...
Competition between Pseudomonas species constrains ecological diversification in polymicrobial biofilms.
Published in NPJ biofilms and microbiomes
doi.org
November 26, 2025 at 8:00 AM
Using 3D-printed systems, scientists studied how two bacterial species adapt when living together in biofilms. Pseudomonas defluvii showed a lot of changes when living in simpler communities, but not much in complex ones due to species interactions. Meanwhile, Pseudomonas brenneri hardly changed...
Ever wonder how tiny creatures like bees keep their community microbiomes in check? Stingless bees have a clever setup: their brood's microbiome stays stable and protected, thanks to specific bacteria-fungi relationships and bee-controlled environmental factors like temperature. Their unique hive...
Spatial segregation and cross-kingdom interactions drive stingless bee hive microbiome assembly.
Published in Nature communications
doi.org
November 26, 2025 at 8:00 AM
Ever wonder how tiny creatures like bees keep their community microbiomes in check? Stingless bees have a clever setup: their brood's microbiome stays stable and protected, thanks to specific bacteria-fungi relationships and bee-controlled environmental factors like temperature. Their unique hive...
Zooplankton, those tiny critters in water, are surprisingly big players in the spread of antibiotic resistance. They carry way more resistance genes than the water around them, helping resistant bacteria spread far and wide. Since the 1970s, key resistance genes have been detected ocean-wide. It'...
Pelagic Shuttles of Antibiotic Resistance Genes: Zooplankton as Overlooked Vectors Across Space and Food Webs.
Published in Microbial ecology
doi.org
November 26, 2025 at 8:00 AM
Zooplankton, those tiny critters in water, are surprisingly big players in the spread of antibiotic resistance. They carry way more resistance genes than the water around them, helping resistant bacteria spread far and wide. Since the 1970s, key resistance genes have been detected ocean-wide. It'...