Sign in

Allison G

@assemblerag.bsky.social
115 followers 193 following 9 posts

Postdoc in the Banfield Lab @ UCBerkeley | PhD from McMasterU | Gut microbiome | Soil microbiome | Metagenomics | AMR

PostsRepliesMedia
Reposted by Allison G
Gerry Wright @gdwantibiotics.bsky.social · 24/06/2026
Latest from the lab and a fantastic collaboration with Eric Brown's team at @mcmasteriidr.bsky.social. Screening for new antibiotics from actinomycete extracts under nutrient-deprived conditions identifies a megacluster of synergistic antibiotics that target biotin biosynthesis. rdcu.be/fqejG
rdcu.be
A Streptomyces megacluster encodes synergistic biotin-targeting antibiotics
Nature - In Streptomyces spp., a conserved biosynthetic gene megacluster produces an arsenal of distinct antimicrobials that converge on bacterial biotin biosynthesis as a naturally evolved...
03012
Reposted by Allison G
Gerry Wright @gdwantibiotics.bsky.social · 04/06/2026
The latest from the lab. Manikomycin, a new cyclic depsipeptide antibiotic from an 'old' source, the oxytetracycline producer Streptomyces rimosus. Still lots to be learned from this genus! Manikomycin blocks the E-site of the bacterial ribosome. A first. links.springernature.com/f/a/Q0JMeeZK...
links.springernature.com
A natural depsipeptide antibiotic binds the E-site of the bacterial ribosome - Nature
Improved fractionation strategies can identify antibiotics with previously unseen scaffolds and mechanisms, exemplified by manikomycin from Streptomyces rimosus, which acts by targeting the E-site of ...
0249
Allison G @assemblerag.bsky.social · 04/06/2026
A great review in @cp-trendsgenetics.bsky.social by Kiguchi and Suzuki on recently discovered large mobile elements, including our description of megabase-scale plasmids in Enterobacteriaceae www.cell.com/trends/genet...
cell.com
Giants within: a new class of microbial mobile elements
Prokaryotes harbor a diverse spectrum of extrachromosomal elements (ECEs), which are intracellular replicons maintained independently of the primary chromosome. Historically, the ECE research field ha...
181
Reposted by Allison G
Trends in Genetics @cp-trendsgenetics.bsky.social · 02/06/2026
"Giants within: a new class of microbial mobile elements" by Yuya Kiguchi & Yutaka Suzuki "Long-read (meta)genomics has discovered giant extrachromosomal elements that were overlooked by short-read sequencing..." FREE till July 19th at authors.elsevier.com/a/1nBJMcQbJI...
173
Reposted by Allison G
The Banfield Lab @banfieldlab.bsky.social · 24/05/2026
🧬 New preprint out from @lingdong-shi.bsky.social et al. on the origin and evolution of archaeal Borg extrachromosomal elements across different environments. Congratulations Ling-Dong and co-authors! 📄 doi.org/10.64898/202...
doi.org
0219
Reposted by Allison G
Shuai Wang @wshuai.bsky.social · 30/03/2026
Studying DNA modification in microbes shouldn't be limited by methodology. 🧬 We’re excited to introduce MODIFI, our new scalable method for detecting DNA modifications in PacBio metagenomic data and estimating ECE-host linkage. Check out the preprint: www.biorxiv.org/content/10.6...
biorxiv.org
41813
Reposted by Allison G
bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 29/03/2026
Metagenomic strain-resolved DNA modification patterns link extrachromosomal genetic elements to host strains www.biorxiv.org/content/10.64898/20…
032
Reposted by Allison G
Marjan Ghotbi @marjanghotbi.bsky.social · 31/12/2025
Think you need large volumes for microbial experiments? Our recent publication introduces HiMEx, a simple, scalable method for microbial ecology. academic.oup.com/ismecommun/a... 🦠 it provides an easy, efficient approach to capturing viral diversity, opening new opportunities for virome analysis.
academic.oup.com
From microscale to microbial insights: validating high-throughput microvolume extraction (HiMEx) methods for marine microbial ecology
Abstract. Extracting and directly amplifying DNA from small-volume, low-biomass samples would enable rapid, ultra-high-throughput analyses, facilitating th
12314
Reposted by Allison G
The Banfield Lab @banfieldlab.bsky.social · 28/11/2025
Out now in Nature Communications: Convergent evolution of viral-like Borg archaeal extrachromosomal elements and giant eukaryotic viruses www.nature.com/articles/s41... @luisvalentin.bsky.social @lingdong-shi.bsky.social @martianmicrobe.bsky.social @mschoelmerich.bsky.social
nature.com
Convergent evolution of viral-like Borg archaeal extrachromosomal elements and giant eukaryotic viruses - Nature Communications
Borgs are large extrachromosomal elements of anaerobic methane-oxidizing archaea. Here, via in silico protein structure prediction of ~10,000 Borg proteins, the authors reveal that Borgs share numerou...
07028
Reposted by Allison G
Veronika Kivenson @kivenson.bsky.social · 23/11/2025
New paper out: An archaeal genetic code with all TAG codons as pyrrolysine: www.science.org/doi/10.1126/...
science.org
An archaeal genetic code with all TAG codons as pyrrolysine
Multiple genetic codes developed during the evolution of eukaryotes and bacteria, yet no alternative genetic code is known for archaea. We used proteomics to confirm our prediction that certain archae...
16739
Reposted by Allison G
Owen Tuck @owentuck.bsky.social · 13/11/2025
Our nuclease-protease story is out! We explored a fascinating case of coevolution and modularity in prokaryotic immune systems: www.science.org/doi/10.1126/... Thanks to wonderful coauthors/collaborators/friends, the whole @doudna-lab.bsky.social and everyone at @innovativegenomics.bsky.social
science.org
Recurrent acquisition of nuclease-protease pairs in antiviral immunity
Antiviral immune systems diversify by integrating new genes into existing pathways, creating new mechanisms of viral resistance. We identified genes encoding a predicted nuclease paired with a trypsin...
58434
Allison G @assemblerag.bsky.social · 01/10/2025
Most plasmids described in E. coli are small compared to the megaplasmids we identified here! Check out the preprint if you want to learn about these mysterious large elements and their potential functions 🧬. I’m very grateful to have had the opportunity to work on this in @banfieldlab.bsky.social
23419
Allison G @assemblerag.bsky.social · 27/03/2025
Amazing work by the team at McMaster & the IIDR! Finding new antibiotics is not easy. Congrats to Manoj et al on this significant discovery!
030