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Items tagged with: Microbiology
Profile and Binomica Labs registered on archaea.bio!
I'll be doing a lot more Halobacteria & Halococcus work in the near future, looking forward to sharing some interesting notes
https://www.archaea.bio/profiles/sung-won-lim
#microbiology #archaea #bioinformatics
Sung won Lim
Independent researcher at Binomica Labs (Queens, NYC), and a remote adjunct researcher in Kyle lab at University of New Hampshire.Sung won Lim (archaea.bio)
A newly discovered bacterium, Uabimicrobium helgolandensis, eats other bacteria and is a kind of 'bacteria of prey,' that should not even exist based on previous concepts about microbial cells. It could be a kind of microbial missing link, researchers suggest.
#biology #nature #life #cell #microbiology #science #research
The "Incomprehensible" Cell - A Parasitic Prokaryote is Discovered
All complex life forms on Earth, including plants and animals, are made up of eukaryotic cells; they are more sophisticated than bacterial or archaeal cellCarmen Leitch (Labroots)
We found a really big active endogenous virus
https://www.biorxiv.org/content/10.1101/2024.09.03.611062v1
Latent infection of an active giant endogenous virus in a unicellular green alga
Latency is a common strategy in a wide range of viral lineages, but its prevalence in giant viruses remains unknown.bioRxiv
Terrabacteria: redefining bacterial envelope diversity, biogenesis and evolution
https://www.nature.com/articles/s41579-024-01088-0
#microbiology #evolution #science
Terrabacteria: redefining bacterial envelope diversity, biogenesis and evolution - Nature Reviews Microbiology
In this Review, Gribaldo and co-workers explore the diversity and evolution of Terrabacteria and highlight their unique cell envelopes that deviate from Gram-positive and Gram-negative classifications, challenging traditional views on the bacterial c…Nature
by Roberto — Phage-bacteria population dynamics can be remarkably complex. This is reflected in the natural history of both; new phage defense systems in bacteria and anti-defense systems in phage seem to be discovered daily. Behind these intricate strategies to help in the reproductive success of each lies the basic problem of any predator-prey relationship.
Read more > https://tinyurl.com/2e9fyj6w
#microbiology
Do you know MediaDive, the world’s largest collection of cultivation media for microorganisms 🧫? It contains detailed introductions how to prepare the medium you need for your strain. In addition to the provision of all media used at the DSMZ, you can also create your own media or search for a medium suitable for your strain. Give it a try 😉
https://mediadive.dsmz.de/
#database #microbiology #research #DSMZDigitalDiversity #bacteria #fungi
MediaDive — the cultivation media database
Discover standardized cultivation media recipes for more than 40,000 microbial strains.mediadive.dsmz.de
The diel disconnect between cell growth and division in Aureococcus is interrupted by giant virus infection
https://www.frontiersin.org/journals/microbiology/articles/10.3389/fmicb.2024.1426193/full
Frontiers | The diel disconnect between cell growth and division in Aureococcus is interrupted by giant virus infection
Viruses of eukaryotic algae have become an important research focus due to their role(s) in nutrient cycling and top-down control of algal blooms. Omics-base...Frontiers
The Last Universal Common Ancestor of Ribosome-Encoding Organisms: Portrait of LUCA
https://link.springer.com/article/10.1007/s00239-024-10186-9
#evolution #microbiology #science #microbes
The Last Universal Common Ancestor of Ribosome-Encoding Organisms: Portrait of LUCA - Journal of Molecular Evolution
The existence of LUCA in the distant past is the logical consequence of the binary mechanism of cell division.SpringerLink
Ancient microbes offer clues to how complex life evolved
https://phys.org/news/2024-07-ancient-microbes-clues-complex-life.html
Ancient microbes offer clues to how complex life evolved
A new study published in Science Advances reveals a surprising twist in the evolutionary history of complex life.Science X (Phys.org)
How Viruses Shape Microbial Plankton Microdiversity
Stochasticity, determinism, and contingency shape genome evolution of endosymbiotic bacteria
https://www.nature.com/articles/s41467-024-48784-2
#evolution #microbiology #genomics
Stochasticity, determinism, and contingency shape genome evolution of endosymbiotic bacteria - Nature Communications
Endosymbionts often have small genomes that maintain minimal functions required to serve their hosts. This study examines cases of new endosymbiont acquisition and finds genome degeneration involves both stochastic and deterministic processes that sh…Nature
Space Station Research Advances NASA's Plans to Explore the Moon, Mars - NASA
Research on the Space Station is helping NASA scientists develop tools and processes to ensure success on future missions.Ana Guzman (NASA)
Distinct life cycle stages of an ectosymbiotic DPANN archaeon
https://academic.oup.com/ismej/article/18/1/wrae076/7660939
#archaea #symbiosis #microbiology
Distinct life cycle stages of an ectosymbiotic DPANN archaeon
Abstract. DPANN archaea are a diverse group of microorganisms that are thought to rely on an ectosymbiotic lifestyle; however, the cell biology of these ceGaisin, Vasil A (Oxford University Press)
Mesmerising microbes: bacteria as you’ve never seen it before – in pictures
“As a side hustle he manipulates and photographs the microbial world; his images are collected in a book, Beautiful Bacteria. Taking bacteria from substances such as wastewater, dental plaque or kimchi, Danino lets them multiply in a petri dish, adding dyes. The results are artworks differing from the digital enhancements often made in scientific photography to make images more informative.”
#News #Photography #Photo #Photos #Image #Images #Microbiology #Biology #Science #STEM #Bacteria #Microbes #Microbes @science @biology @microbiology
Mesmerising microbes: bacteria as you’ve never seen it before – in pictures
Scientist Tal Danino’s incredible images of the microbial worldThe Guardian
Never a Dull Enzyme
by Roberto — The tricarboxylic acid enzyme citrate synthase from Synechococcus elongatus has the remarkable feature that it self-assembles into multimeric fractal shapes, specifically Sierpiński triangles. As Arthur Kornberg would have said: "Never a dull enzyme!"...
Read more > https://tinyurl.com/m4zyt2h
#microbiology
Systematic identification of cargo-mobilizing genetic elements reveals new dimensions of eukaryotic diversity
A giant virus infecting the amoeboflagellate Naegleria
https://www.nature.com/articles/s41467-024-47308-2
#viruses #giantViruses #microbiology
A giant virus infecting the amoeboflagellate Naegleria - Nature Communications
This is the first report on a virus infecting the amoeboflagellate Naegleria, including the lethal human pathogen N. fowleri.Nature
Fascinating - I'll have to make time to dig into this one later.
"Many purported pseudogenes in bacterial genomes are bona-fide genes"
https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-024-10137-0
Many purported pseudogenes in bacterial genomes are bona fide genes - BMC Genomics
Background Microbial genomes are largely comprised of protein coding sequences, yet some genomes contain many pseudogenes caused by frameshifts or internal stop codons.BioMed Central
Who are giant viruses infecting in the ocean?
In a collaborative paper with the Vardi lab, we were able to link many giant virus lineages to protist hosts using #SingleCell #RNASeq. One #protist host (leucocryptos) made up less than 1% of the community, but we could still identify a cryptic viral lineage infecting it, leading to population collapse.
https://www.nature.com/articles/s41564-024-01669-y
#marine #viruses #microbiology
Single-cell RNA-seq of the rare virosphere reveals the native hosts of giant viruses in the marine environment - Nature Microbiology
Active infections of giant viruses in their marine protists hosts are tracked at single-cell resolution, showing that, despite being rare, these viruses still impact microbial population dynamics.Nature
Our latest commentary about a cool recent paper on virophage-mediated defense against giant #viruses!
March of the proviruses
There's a new minimap2 release with ONT specific accurate long reads setting. Looking forward to giving it a test run!
https://github.com/lh3/minimap2/releases/tag/v2.27
Release Minimap2-2.27 (r1193) · lh3/minimap2
Notable changes to minimap2: New feature: added the lr:hq preset for accurate long reads at ~1% error rate. This was suggested by Oxford Nanopore developers (#1127). It is not clear if this prese...GitHub
The Simons Foundation has amazing #postdoc #fellowships for anyone interested in #marine microbial #ecology or #evolution.
I'd love to sponsor anyone interested in viral diversity!
Please spread the word!
Simons Postdoctoral Fellowships in Marine Microbial Ecology | Simons Foundation
The Simons Foundation invites applications for postdoctoral fellowships to support candidates who intend to pursue a career in basic research on fundamental problems in marine microbial ecology, with an emphasis on understanding the role of microorga…Simons Foundation
Looking for some suggestions - I'm working with Archaeal genomic regions whose optimally fitting model seems to be Tamura-Nei (https://doi.org/10.1093/oxfordjournals.molbev.a040023).
Would it be too much to suspect the Archaeal region is under similar types of evolutionary pressure?
#archaea #microbiology #evolution #phylogenetics #bioinformatics
Cool paper looking at biomass degradation in leaf cutter ant fungus gardens:
Mapping microhabitats of lignocellulose decomposition by a microbial consortium
https://www.nature.com/articles/s41589-023-01536-7
#microbiology #fungi #cellulose
Mapping microhabitats of lignocellulose decomposition by a microbial consortium - Nature Chemical Biology
Metabolome-informed proteome imaging provides a comprehensive view of underlying biological pathways within micrometer-scale microhabitats of the fungal garden, informing the understanding of metabolic fungal pathways in plant matter degradation.Nature
Station Science 101: Epigenetics Research in Space - NASA
A growing body of research suggests a link between epigenetic mechanisms and a wide variety of illnesses and behaviors, including cancer, cardiovascular andAna Guzman (NASA)
Investigating antifungal tolerance
A refined single-cell sequencing technique provides insight into how pathogenic fungi respond to drugs.eLife Sciences Publications, Ltd
French chemist and microbiologist Louis Pasteur was born #OTD in 1822
He is renowned for his discoveries of the principles of vaccination, microbial fermentation, and pasteurization, the last of which was named after him. His research in chemistry led to remarkable breakthroughs in the understanding of the causes & preventions of diseases, which laid down the foundations of hygiene, public health & much of modern medicine.
Louis Pasteur at PG:
https://www.gutenberg.org/ebooks/search/?query=louis+pasteur&submit_search=Go%21
Books: louis pasteur (sorted by popularity)
Project Gutenberg offers 72,437 free eBooks for Kindle, iPad, Nook, Android, and iPhone.Project Gutenberg
#microbiology #myxomycetes #Physarum #leBlob
Apply for our Phd project on "Discovering and characterising novel defence systems in pathogenic Serratia spp using microbiology and genomics"
#genomics #microbiology #omics
FindAPhD : Pathogens and Host Defences Doctoral Training Partnership PhD Studentships at University of Sussex
https://www.findaphd.com/phds/program/pathogens-and-host-defences-doctoral-training-partnership-phd-studentships/?p6353
FindAPhD : Pathogens and Host Defences Doctoral Training Partnership PhD Studentships at University of Sussex
Apply for a PhD: Pathogens and Host Defences Doctoral Training Partnership PhD Studentships at University of Sussexwww.FindAPhD.com
https://doi.org/10.1038/s43705-023-00333-6
#microbiology #bioinformatics
Contrasting drivers of abundant phage and prokaryotic communities revealed in diverse coastal ecosystems - ISME Communications
ISME Communications - Contrasting drivers of abundant phage and prokaryotic communities revealed in diverse coastal ecosystemsNature
Happy to share our latest paper, in which we examined the timing at which different microbial groups colonized the ocean!
The first author (Carolina Martinez) is starting her lab at UC Santa Barbara in 2024 and is looking to recruit postdocs and PhD students, so if this looks interesting to you, please reach out to her!
A timeline of bacterial and archaeal diversification in the ocean
https://elifesciences.org/articles/88268
#microbiology #ocean #marine #evolution
A timeline of bacterial and archaeal diversification in the ocean
Phylogenomics reveals the timeline over which marine bacteria and archaea colonized the oceans and shows the geological context of their diversification.Carolina A Martinez-Gutierrez (eLife Sciences Publications, Ltd)
Contrasting drivers of abundant phage and prokaryotic communities revealed in diverse coastal ecosystems
https://www.nature.com/articles/s43705-023-00333-6
#marine #viruses #phages #ocean #microbiology #virology
Contrasting drivers of abundant phage and prokaryotic communities revealed in diverse coastal ecosystems - ISME Communications
ISME Communications - Contrasting drivers of abundant phage and prokaryotic communities revealed in diverse coastal ecosystemsNature
Postdoctoral Fellow in Phylogenomics/Bioinformatics
#academicjobs #postdocjobs #genomics #evolution #microbiology
https://jobrxiv.org/job/uc-santa-barbara-27778-postdoctoral-fellow-in-phylogenomics-bioinformatics/
Postdoctoral Fellow in Phylogenomics/Bioinformatics
Post a job in 3min, or find thousands of job offers like this one at jobRxiv!jobRxiv
🎉 New preprint from the (MDM) lab:
🔗 https://www.biorxiv.org/content/10.1101/2023.11.22.567924v1
❓ How accurately can we predict diverse #bacteriophage bacteria-interactions from their #genomes only ?
🦠 We created a matrix of >38k #phage-#bacteria interactions to find out (=> AUROC 86%) & used our predictions to recommend tailored phage cocktails.
Predicting which phages infect which specific strains would allow to better fight bacterial infections and understand #microbial ecology.
1/n
#microbiology #virus #phagotherapy
Predicting phage-bacteria interactions at the strain level from genomes
Predicting how phages can selectively infect specific bacterial strains holds promise for developing novel approaches to combat bacterial infections and better understanding microbial ecology.bioRxiv
New #ISEPpapers! The #protist #Aurantiochytrium has universal subtelomeric rDNAs and is a host for #mirusviruses: Jackie Collier et al. https://www.cell.com/current-biology/fulltext/S0960-9822(23)01368-4
#protists #microbes #protistology #microbiology #viruses #virology #genomics
Nice #oceanography study on particles and #carbon export
Planktonic #microbial signatures of sinking particle export in the open ocean’s interior
https://www.nature.com/articles/s41467-023-42909-9
Planktonic microbial signatures of sinking particle export in the open ocean’s interior - Nature Communications
Sinking of organic particles to the deep seafloor is fundamental to ocean carbon cycling. Here, the authors investigate prokaryotic communities in sinking and suspended particles, identifying depth-specific signatures of particle export and carbon cy…Nature
*Slime mould appreciation post*
Slime moulds usually live as single celled organisms, but will occasionally perform an astonishing feat of cooperation - gathering together as a collective ‘organism’ to form structures such as fruiting bodies. They may resemble fungi, but are really a unique group of amoebozoa.
#Macrophotography #microbiology #slimemould #soilbiodiversity
