#virome — Public Fediverse posts

Not just passengers: Phages as agents of genetic exchange in fecal #microbiota transplantation.

#Phage ‑mediated gene transfer may shape FMT outcomes by altering gut communities and microbial functions.

#bacteriophage #microbiology #virology #virome

https://davidojcius.blogspot.com/2026/04/not-just-passengers-phages-as-agents-of.html

Gut DNA #virome enterotype dictates #inflammation heterogeneity through tuning the phage-bacteria-sphingosine-intestine axis in #Crohn's disease

https://www.sciencedirect.com/science/article/abs/pii/S1931312826000417 #CrohnsDisease #microbiome

Our latest research article is a proof of concept protocol for combining #Nanopore sequencing with the #Twist Comprehensive Viral Research Panel. A great tool allowing us to study the #virome of clinical patient samples with a targeted #metagenomics approach.
#Research
#Science
#Biology
#Microbiology
#ClinicalDiagnostics

https://www.sciencedirect.com/science/article/pii/S0042682226000048

Our latest research article is a proof of concept protocol for combining #Nanopore sequencing with the #Twist Comprehensive Viral Research Panel. A great tool allowing us to study the #virome of clinical patient samples with a targeted #metagenomics approach.
#Research
#Science
#Biology
#Microbiology
#ClinicalDiagnostics

https://www.sciencedirect.com/science/article/pii/S0042682226000048

#Genetic characterization of the #marmot gut #virome in high-altitude #Qinghai Province and identification of novel #viruses with zoonotic potential, https://etidiohnew.blogspot.com/2025/07/genetic-characterization-of-marmot-gut.html

Why Scientists Are Puzzled By This #Virus - YouTube

https://www.youtube.com/watch?v=SbvAaDN1bpE

#Virome #Kurzgesagt

Highly divergent and diverse #viral #community infecting sylvatic #mosquitoes from Northeast #Brazil, J Virol.: https://journals.asm.org/doi/abs/10.1128/jvi.00083-24?af=R

Here, we characterized the #RNA #virome of 10 sylvatic mosquito species from Atlantic #forest remains at a sylvatic–urban interface in Northeast Brazil employing a metatranscriptomic approach. A total of 16 viral families were detected. The phylogenetic reconstructions of 14 viral families revealed that the majority of the sequences are putative ISVs.

The radiation of New Zealand’s skinks and geckos is associated with distinct viromes: https://doi.org/10.1186/s12862-024-02269-4

#virome #genomics #biodiversity #biogeography

#Virome #Sequencing Identifies #H5N1 Avian #Influenza in #Wastewater from Nine #Cities. MedRxIV, https://www.medrxiv.org/content/10.1101/2024.05.10.24307179v1

19 of 23 monitored sites had at least one detection event, and H5N1 serotype became dominant over seasonal influenza over time. A variant analysis suggests avian or #bovine origin but other potential sources, especially humans, could not be excluded.

Many studies have explored the role of bacteria in #IBD, but research has been more sparse on viruses, which may hold valuable clues to disease triggers and development.

#crohnsdisease #crohns #CrohnsColitis #crohnsandcolitis #inflammatoryboweldisease #virome #viruses

New preprint from Banfield lab. Curated project-specific #phage database essential to study.

Infant gut bacteriophage strain persistence during the first three years of life https://www.biorxiv.org/content/10.1101/2023.08.07.552389v1

#microbiome #virome

Excellent opportunity for anyone wanting to undertake a postdoc in #phage research, with Professor Andrey Shkoporov https://twitter.com/AShkoporov at University College Cork. Contact Andrey directly about this position.

#microbiome #virome #HGT

Excellent opportunity for anyone wanting to undertake a postdoc in #phage research, with Professor Andrey Shkoporov https://twitter.com/AShkoporov at University College Cork. Contact Andrey directly about this position.

#microbiome #virome #HGT

Excellent opportunity for anyone wanting to undertake a postdoc in #phage research, with Professor Andrey Shkoporov https://twitter.com/AShkoporov at University College Cork. Contact Andrey directly about this position.

#microbiome #virome #HGT

Excellent opportunity for anyone wanting to undertake a postdoc in #phage research, with Professor Andrey Shkoporov https://twitter.com/AShkoporov at University College Cork. Contact Andrey directly about this position.

#microbiome #virome #HGT

Excellent opportunity for anyone wanting to undertake a postdoc in #phage research, with Professor Andrey Shkoporov https://twitter.com/AShkoporov at University College Cork. Contact Andrey directly about this position.

#microbiome #virome #HGT

Small numbers of mice, but really interesting work. Metabolite-free, PEG/NaCl-preciptated material used for virome inocula.

Fecal virome transplantation is sufficient to alter fecal microbiota and drive lean and obese body phenotypes in mice https://www.tandfonline.com/doi/full/10.1080/19490976.2023.2236750

#microbiome #obesity #virome

My old lab from Cork, Ireland in Nature this week with "Structural atlas of a human gut crassvirus". Really great team, always so supportive, friendly and hard working, really well earned! Plus such nice pictures. (Damn maybe I should have stayed 🤣 )

https://www.nature.com/articles/s41586-023-06019-2

#microbiome #research #virome #microbiology #viruses #sciart

https://www.biorxiv.org/content/10.1101/2023.04.26.538077v1 Benchmarking of virus detection methods from WGS data. PPR-Meta seems best in environmental samples, while VirSorter2 is best in the gut. Which is good, because VirSorter2 is what we're using at the moment in the @BorkLab 😅

#bioRxiv #microbiome #virome

8/6
🦠 #RNA Viruses in Ticks that Feed on Farm Animals 🐮

In addition to the above studies ☝️, another one looked at the #virome of ticks that feed on livestock in Uganda.

• Analyzed 2,754 ticks from 31 farms.
• Used semi-agnostic sequencing to detect all known #virus families.
• Found 22 viruses from 9 families, of which 5 were novel!
• Orthonairoviruses were notable, including Crimean-Congo Fever virus & a novel one.

https://doi.org/10.1101/2023.03.10.532017
#virology @virology #epidemiology #InfectiousDisease

@PeerCommunityIn Now published in Peer Community Journal, #Infections section: African #armyants at the forefront of #virome surveillance in a remote #tropicalforest https://doi.org/10.24072/pcjournal.249

7/6
🦠 RNA Viruses in Ticks — Ticks that Feed on Bats! 🦇

In addition to the above studies ☝️, a new study looked at the #RNA #virome of ticks— specifically ticks that feed on bats in Sweden.

• Found 16 viruses from 11 #virus families, of which 15 were novel!
• Authors suggest that such surveillance might help identify potential zoonoses.

"Substantial viral and bacterial diversity at the bat–tick interface"
https://doi.org/10.1099/mgen.0.000942
#virology @virology #epidemiology #InfectiousDisease @eddieholmes

A new #preprint #OpenScience #PeerReview by #PCI_Infections: Fritz M, et al (2023) African #armyants at the forefront of #virome surveillance in a remote #tropicalforest. #bioRxiv, #Infections https://doi.org/10.1101/2022.12.13.520061

🐝 It is worth noting that this study ☝️ specifically focused on those bees showing signs of disease.

So, did they find a 'smoking gun' to explain the collapse of colonies worldwide?

Well, besides the 20 novel bee viruses discovered, they also found "14 known pathogenic honeybee viruses" and "multiple viruses in almost 70% of the honeybee colonies."

The authors suggest more research, especially with regards to the newly discovered apis picorna-like virus 4 (APLV4)...

#virus #virology #virome

🐝 Bees have really had a hard couple of years.

Suggested factors leading to collapse of bee colonies worldwide include pesticides, bacteria, & parasitic mites.

But the picture would not be complete unless we looked into the possible role of viral infections, too.

And so, welcome to the bee #virome :

"Nationwide genomic surveillance reveals the prevalence and evolution of honeybee viruses in China"
https://doi.org/10.1186/s40168-022-01446-1

(shamelessly scooping @eddieholmes here 🤭)
#virus #virology @virology

1/6
😲 Two recent studies from China look at the truly wide diversity of RNA viruses found in ticks.

"Extensive diversity of RNA viruses in ticks revealed by meta #genomics in northeastern China"
https://doi.org/10.1371/journal.pntd.0011017

"Metavirome of 31 tick species provides a compendium of 1,801 RNA virus genomes"
https://www.nature.com/articles/s41564-022-01275-w

A lot of insights in these two studies, so I'll just point out a few things that I personally found interesting.

#virology @virology #RNA #virus #virome #InfectiousDisease

1/4
There are some fascinating insights in the new preprint by @ewyler on #RNA wastewater sampling using two kinds of enrichment.

(QIAseq xHYB Adventitious Agent Panel and ElementZero Biolabs MagIC beads)

#virus #virology @virology #virome #InfectiousDisease https://www.biorxiv.org/content/10.1101/2022.12.16.520800v1

Great PhD thesis from Sonia Underwood (nee Isaacs):

"Our data strengthen the rationale for development of vaccines and antivirals that target diabetogenic enteroviruses, for prevention of Islet Autoimmunity / Type 1 Diabetes."

https://papers.ssrn.com/sol3/papers.cfm?abstract_id=4308770
#type1diabetes #t1d #enterovirus
#vaccine #antiviral
#virus #virology #virome

Biologists Discover Over 100,000 New Types of RNA Viruses https://www.sci.news/biology/new-rna-viruses-11511.html

Expansion of the global RNA #virome reveals diverse clades of #bacteriophages https://www.cell.com/cell/fulltext/S0092-8674(22)01118-7

This allowed the researchers to reconstruct how the #viruses underwent diverse acclimation processes throughout their #evolution in order to adapt to different hosts. Some of the new viruses are suspected of infecting various pathogenic #microbes, thus opening up the possibility of using viruses to control them.

New preprint on the gut #virome

"To expand the viral genome reference and provide a more comprehensive view of the gut virome, we built a catalogue of gut viruses by processing over 11,000 fecal bulk or VLP-based viral metagenomes of Chinese origin [...] including 67,096 nonredundant viruses. [...] 48.3% [...] could be assigned into one or more prokaryotic hosts. [...] 70.2% [...] are not found in other catalogues."
https://www.biorxiv.org/content/10.1101/2022.12.27.522048v1
#virology #virus #genomics