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 ecosystems

^Nature

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

#marine #microbiology

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

A new episode of the EMBO podcast is out. I spoke with Hsiao-Han Chang, Gytis Dudas, and Hedvig Tamman about viruses, hosts, spillovers, public health... And also starting a new lab, the challenges of mobility, mentorship, and Die Hard Dracula.

#EMBOPodcast #scicomm #SciencePodcast #Virology #Evolution #Microbiology

https://www.embo.org/podcasts/its-viruses-all-the-way-down-a-conversation-with-hsiao-han-chang-gytis-dudas-and-hedvig-tamman/

It’s viruses all the way down: a conversation with Hsiao-Han Chang, Gytis Dudas, and Hedvig Tamman –

As COVID-19 and flu season descends, we talk with three new research group leaders who work on host-virus interactions.

^{Thiago Carvalho (EMBO)}

Lessons from Chloroviruses: the Complex and Diverse Roles of Viruses in Food Webs

https://doi.org/10.1128/jvi.00275-23

#viruses #virology #ecology #microbiology

Happy birthday to Antonie van Leeuwenhoek (1632 – 1723), the Dutch scientist & progenitor of #microbiology known for his improvements to microscope tech. He was a draper in Delft, then a politician with an interest in lensmaking. Using his handmade #microscopes, he was 1st to observe microorganisms, which he called tiny animals, or "animalcules". He also made pioneering microscopic observations on muscle fibres, bacteria, coffee & … 🧵1/n

#linocut #printmaking #sciart #histstm⁠ #MastoArt

Bacterial histones unveiled

https://www.nature.com/articles/s41564-023-01509-5

#microbiology #genomics #dna

Bacterial histones unveiled - Nature Microbiology

Computational, molecular and structural analyses reveal the presence of bacterial histones that bind DNA to form dense, DNA-enveloping fibres in Bdellovibrio bacteriovorus.

^Nature

Research Associate in #Benthic #DeepSea #Ecology (focus on #biogeochemistry and #microbiology) and Data Management (m/f/d)
🌊 🦠 🧪🔬 🖥️
3y full-time #tenure track position in #Bremerhaven 🇩🇪 @awi

https://www.awi.de/en/work-study/jobs/job-offer.html

Very interesting preprint by Ran Blekhman's lab (@blekhman): https://www.biorxiv.org/content/10.1101/2023.10.11.560955v1 on https://microbiomap.org/ , a resource integrating 168k human gut 16S samples for a global overview. Seems similar to https://microbeatlas.org/ , which combines >2 million samples (both 16S and WGS across all habitats)

#microbiome #microbiology

Integration of 168,000 samples reveals global patterns of the human gut microbiome

Understanding the factors that shape variation in the human microbiome is a major goal of research in biology.

^bioRxiv

Position announcement at #VirginiaTech - Looking for a light microscopy specialist to lead the VT imaging core:

https://careers.pageuppeople.com/968/cw/en-us/job/527077/light-microscopy-specialist

Please share!

#ScienceJobs #AcademicMastodon #microscopy #microbiology #imaging

Details | Light Microscopy Specialist | Careers | Division of Human Resources | Virginia Tech

^{careers.pageuppeople.com}

"We are in the midst of the "Platinum Age of Virus Discovery", an era characterized by the exponential growth in the discovery of virus biodiversity. "

A Parasite Odyssey: An RNA virus concealed in Toxoplasma gondii

https://www.biorxiv.org/content/10.1101/2023.09.17.558162v1?rss=1

#viruses #virology #microbiology

A Parasite Odyssey: An RNA virus concealed in Toxoplasma gondii

^bioRxiv

Top abundant deep ocean heterotrophic bacteria can be retrieved by cultivation

https://www.nature.com/articles/s43705-023-00290-0

#microbiology #marine #ocean #DeepBiosphere

Top abundant deep ocean heterotrophic bacteria can be retrieved by cultivation - ISME Communications

ISME Communications - Top abundant deep ocean heterotrophic bacteria can be retrieved by cultivation

^Nature

We are looking for a new colleague to lead the microbiology & immunology section of @PLOSBiology!!

Do you have micro/immuno expertise (including virology of course) & a passion for science away from the bench? This could be for you

Get in touch w/ any Qs!

Associate or Senior level

Applications will be assessed upon receipt

Boosts greatly appreciated!

#editing #careersinscience #microbiology #virology #immmunology

https://us232.dayforcehcm.com/CandidatePortal/en-US/plos/Posting/View/288

Cool paper! Also glad we are moving towards Patescibacteria and not CPR:

"Genetic manipulation of Patescibacteria provides mechanistic insights into microbial dark matter and the epibiotic lifestyle"

https://doi.org/10.1016/j.cell.2023.08.017

#microbiology #genomics #genetics

Antoni van Leeuwenhoek died #OTD in 1723.

A largely self-taught man in science, he is commonly known as "the Father of Microbiology", and one of the first microscopists and microbiologists. Van Leeuwenhoek is best known for his pioneering work in microscopy and for his contributions toward the establishment of microbiology as a scientific discipline. via @wikipedia

Books by Antoni van Leeuwenhoek at PG:
https://www.gutenberg.org/ebooks/author/8336

#books #science #microbiology

Went to Mountain "Lake" yesterday for a faculty retreat and I had to get some samples to look for microbes while I was there. Pretty epic mud.

The claim to fame of this lake is that Dirty Dancing was filmed here (when the lake was full). It is one of two natural lakes in Virginia and it has highly unstable water levels.

#virginia #freshwater #microbiology

A genome catalogue of lake bacterial diversity and its drivers at continental scale

https://www.nature.com/articles/s41564-023-01435-6

#metagenomics #lakes #freshwater #microbiology

A genome catalogue of lake bacterial diversity and its drivers at continental scale - Nature Microbiology

A metagenomic compendium from lakes across Canada reveals bacterial metabolic potential and how it varies depending on land use in different regions.

^Nature

Hi again #Mastodon!
I joined the fediverse when a lot of my community had not migrated from the bird site, so could only partially reconstruct it here using automated tools. If I followed you there and don’t here, say hi and let’s reconnect!

For those who don’t know me, I am a #virologist by training with almost 20 years of experience as a #science #editor, a passion for #microbiology and all science really, #OpenScience #openaccess & people

Have a lovely day everyone

#introduction #fediverse

Evaluating the role of bacterial diversity in supporting soil ecosystem functions under anthropogenic stress

https://www.nature.com/articles/s43705-023-00273-1

#microbiology #soil #ecology

Evaluating the role of bacterial diversity in supporting soil ecosystem functions under anthropogenic stress - ISME Communications

ISME Communications - Evaluating the role of bacterial diversity in supporting soil ecosystem functions under anthropogenic stress

^Nature

Interesting: *Vaginal Microbiota Transplantation (VMT)*

We're probably going to start seeing a lot more of this as we appreciate how microbiomes of different organs impact health and disease.

Personally the key is to have clinical measures of success, as here, not just measuring % of different species changing.
#IDMastodon #MedMastodon #AMR #antibiotics #microbiology #microbiome #transplant

https://www.thelancet.com/journals/eclinm/article/PIIS2589-5370(23)00247-X/fulltext?dgcid=raven_jbs_aip_email

Amazing structural diversity of giant virus-like particles in forest soil

https://www.biorxiv.org/content/10.1101/2023.06.30.546935v1

#viruses #giantViruses #microbiology

Amazing structural diversity of giant virus-like particles in forest soil

Large DNA viruses of the phylum Nucleocytoviricota infect diverse eukaryotic hosts from protists to humans, with profound consequences for aquatic and terrestrial ecosystems.

^bioRxiv

New preprint on inter-plasmid competition via type IV-A3 CRISPR systems. Something to think about.

https://www.biorxiv.org/content/10.1101/2023.06.23.546257v1

#microbiology #preprint

Type IV-A3 CRISPR-Cas systems drive inter-plasmid conflicts by acquiring spacers in trans

Type IV-A CRISPR-Cas systems are primarily encoded on plasmids and form multi-subunit ribonucleoprotein complexes with unknown biological functions.

^bioRxiv

Accounting for 16S rRNA copy number prediction uncertainty and its implications in bacterial diversity analyses

https://www.nature.com/articles/s43705-023-00266-0

#microbiology #bioinformatics #microbiome

Accounting for 16S rRNA copy number prediction uncertainty and its implications in bacterial diversity analyses - ISME Communications

ISME Communications - Accounting for 16S rRNA copy number prediction uncertainty and its implications in bacterial diversity analyses

^Nature

High speciation rate of niche specialists in hot springs

https://www.nature.com/articles/s41396-023-01447-4

#microbiology

High speciation rate of niche specialists in hot springs - The ISME Journal

The ISME Journal - High speciation rate of niche specialists in hot springs

^Nature

My first "reviewed preprint" on @eLife !

A Timeline of Bacterial and Archaeal Diversification in the Ocean

https://elifesciences.org/reviewed-preprints/88268

Lots of hard work from former PhD student in my lab Carolina Martinez. Part of a collaboration with @pseudacris

We are enjoying the new process so far and working on revisions to address some of the concerns raised by reviewers.

#ocean #marine #microbiology #evolution #ecology