Tweets from Adam Arkin's Lab @UCBerkeley @LBNLBioSci. enigma.lbl.gov kbase.us cubes.space innovativegenomics.org Tweets represent personal views only.
Berkeley, CA, USA
- Tweets 179
- Following 178
- Followers 1,182
- Likes 136
AdamArkin_Lab retweeted
New Preprint 🥳
Here we wondered how phages that have been extensively studied in laboratory E. coli strains actually behave when they encounter a real pathogen such as O157:H7 strain...one with a far more complex cell surface & one of the most consequential foodborne pathogens
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AdamArkin_Lab retweeted
Lead by Edwin Rivera-Lopez & @LucasMoriniere
With @microdudley @PSUmBiome @LBNLBioSci @AdamArkinLab
Surface architecture of the bacterial envelope determines phage adsorption route in pathogenic Escherichia coli O157:H7 biorxiv.org/content/10.64898…
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AdamArkin_Lab retweeted
🔔 New Preprint 🎉 from phagefoundry.org/
🥳 Super excited to share our work on generating systematic 95 phage-99 MDR P. aeruginosa strain interaction dataset & use of ML to predict phage susceptibility & phage cocktails from target genome sequences alone, w validations.
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AdamArkin_Lab retweeted
🥳 Huge preprint 🔔 Today we share something our group has been working toward for a long time, led by
@LucasMoriniere We asked can we predict which receptor a phage targets from its genome sequence alone? For most phages, we couldn’t. So Lucas set out to do something crazy!
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This is the first of a powerful set of work from this amazing team! I am extremely grateful to work with these amazing young scientists-@AveryNoonan and @LucasMoriniere, my long time colleague and friend @vivek_mutalik and the EDGE and Phage Foundry teams. This group is on fire.
Posting here after a year to share:
📣 New preprint from phagefoundry.org team 📣🎊🎉
We developed a solid machine learning framework & to predict strain-level phage-host interactions across diverse bacterial genera from genome sequences alone.
biorxiv.org/content/10.1101/…
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AdamArkin_Lab retweeted
New article explores the intersection of biology and space exploration, highlighting fields like Astrobiology, Bioastronautics, and Space Bioprocess Engineering.
nature.com/articles/s41526-0…
@AdamArkinLab @CharlesCockell
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AdamArkin_Lab retweeted
#Phages are key drivers of #MicrobialEvolution, but many #phage genes are poorly understood. @denish_piya @AdamArkinLab @vivek_mutalik &co use arrayed genome-wide #CRISPRi to map gene the essentiality landscape in the iconic coliphages λ & P1. #PLOSBiology plos.io/3uLtzgU
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AdamArkin_Lab retweeted
If you are excited about gut microbiome, phages, & tools/tech to study their interactions, join/follow the awesome @_YHuang lab 🎊
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AdamArkin_Lab retweeted
In this work, we bring OrthoRep’s mutation rate up to 10^-4 substitutions per base, allowing us to durably hypermutate and evolve chosen genes in vivo at 1-million times the genomic mutation rate of the host yeast cell. What does this afford? biorxiv.org/content/10.1101/…
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AdamArkin_Lab retweeted
Today we released ModelSEED v2 in KBase (kbase.us). If you try the new tools any feedback is appreciated.
ModelSEED v2: High-throughput genome-scale metabolic model reconstruction with enhanced energy biosynthesis pathway prediction biorxiv.org/content/10.1101/…
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It was great to work with the NAS team helping to thing of the next decade of biology of in space. Just released!
Thriving in Space: Decadal Survey for the Biological and Physical Sciences in Space
Explore the digital interactive summary: nap.nationalacademies.org/re…
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The full report is:
nap.nationalacademies.org/ca…
For those of us interested in the bioengineering side check out "Bioregenerative Life Support Systems" (BLiSS) and "Manufacturing Materials and Processes for Sustainability in Space" (MATRICES)!
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AdamArkin_Lab retweeted
First round of positions open💥. If interested, please apply.
Project Scientist (Phage Foundry) - lbl.taleo.net/careersection/…
Postdoctoral Fellow (Phage Foundry) - lbl.taleo.net/careersection/…
Research Associate (Phage Foundry) - lbl.taleo.net/careersection/…
Congrats to @vivek_mutalik and colleagues, who have received funding from the BRaVE initiative (US Dept of Energy) to expand their #Phage Foundry, a platform for phage countermeasures against #AMR pathogens.
buff.ly/3RgTCFR
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Come join the next generation of open and collaborative biological data science with me and a great team! linkedin.com/jobs/view/37075…
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Seriously happy to have an excuse both to continue my long association with @vivek_mutalik, @DeutschbauerLab and @HansCarlson3 and these others that I have admired and can’t wait to learn from!
A dream team really. 🎉 @simroux_virus @AdamArkinLab @DeutschbauerLab @bkoskella @HansCarlson3 @bradyfcress @mark_mimee @AAthalassophile @cmageeney & Drs Elisabeth, Snijders & Mukundan at @LBNLBioSci
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Congrats @vivek_mutalik and the amazing BRaVe on our new phage foundry! Realization of a long held dream. energy.gov/science/articles/…
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AdamArkin_Lab retweeted
With an incredible cast of invited speakers @AdamArkinLab @LabSonnenburg @omalleylab @jennbrophy7 @Geneticdesigner @trentn @mark_mimee @ericmyces Venessa Ridaura (@gatesfoundation), Kara Nelson (@UCBerkeley), Seth Rakoff-Nahoum (@harvardmed), Zack Abbott (@ZBioticsCompany)!
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AdamArkin_Lab retweeted
A fast comparative genome browser for diverse bacteria and archaea
fast.genomics.lbl.gov
Super cool work from Morgan Price @LBNLBioSci @AdamArkinLab biorxiv.org/content/10.1101/…
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