A photo of Bruce Redden
🎉 Congratulations to Bruce Redden for being accepted into the @harvard.edu Medical School MD/PhD Summer Program! This summer, Bruce will work on a mentored research project at HMS and train with clinicians at Massachusetts General Hospital.
www.hms.harvard.edu/md_phd/heart...
Lots of great vector-borne disease research in our department here at #WSU in Pullman, WA. Come join the team!
Borrelia, Anaplasma, and more!
Veterinary Microbiology & Pathology Dept within the College of Veterinary Medicine.
#lymedisease #microsky #idsky 🧪🦠🧫
Scientists: scale of 1-10 how do you feel about the new required SciENcv biosketch format?
10=love
5=no difference to old
1=deep hatred
🧪🦠🧫🧬
Photo of people at hotel.
Enjoying the great science at STiM in Ventura, CA!
12+ years & multiple generations of scientists. We are excited to share a new preprint describing structure(s) of H. pylori transducer-like protein D (TlpD), a key chemotaxis protein and a model for a widespread class of soluble chemoreceptors.
▶️ Preprint: lnkd.in/gUw67dU8
🦠 🧪 #microsky #idsky
Heading to the Sensory Transduction in Microorganisms meeting shortly - looking forward to hearing the latest and greatest on bacterial motility and #chemotaxis
www.grc.org/sensory-tran...
🦠 #microsky 🧪
Photo shows the lab with christmas lights
A little lab holiday spirit
A view out the window
Snow outside
First major snowfall of the year in #CougarCountry! Perfect for writing papers and grants.
Photo of Bruce holding his award.
A big congratulations to future #IDsky physician-scientist Bruce Redden for his research presentation award at this year's ABRCMS. Lots of time and practice went into that presentation! Such a great meeting for the next generation of researchers to network & share discoveries! 🦠🧪 #medsky #medsky
Photo of the Baylink lab group that attended ASMNW.
ASM NW was wonderful this year! In addition to the great science, this trainee-focused meeting plays such an important role in providing the next generation of scientists, microbiologists, and clinicians an opportunity to learn, network, and share their own research.
🧪🦠
#BLAST A great lab to investigate bacterial locomotion and signal transduction!
#microsky
#idsky
🧪🦠🧫
You can also stop reviewing for that journal and not publish there yourself.
Of course there will be real scientific disagreements that an editor will need to make a judgement call for the appropriate course of action. Yours doesn’t sound like such a case.
Beautiful!
Good question. It is a cycle. Ticks feed on an infected animal and acquire the bacteria (from ingesting the blood), and then pass it on to other animals/humans.
Absolutely! In general, motile bacteria can literally swim circles around phagocytes...
I am sure it is complicated and situation dependent, but this study covers some of those topics:
journals.plos.org/plospathogen...
Unfortunately (as I am sure you know) many people are affected - a great reason for us to keep investigating potential new and more effective treatments.
An image that shows white wiggly lines that illustrate the paths of swimming bacteria.
The video captures frames every 1 s over a few minutes. The attached image shows a 'max' projection over 30 minutes that illustrates the path of their movement similar to a time-lapse.
You’ve heard of #Lymedisease, but have you ever seen the bacteria that causes it? 🦠 Borrelia burgdorferi, the spiral-shaped culprit transmitted by ticks, swims with a creepy wriggling motion and uses #chemotaxis to navigate. Both fascinating... and disgusting #Microsky 🧪 #IDsky @shawlab.bsky.social
Registration is open! Come join us at the sensory transduction in microorganisms GRC! Spread the word! www.grc.org/sensory-tran...
🚨 Postdoctoral Position 🚨
Investigate molecular mechanisms of protein homeostasis in Salmonella during infection! Strong background in biochemistry/molecular biology encouraged.
📩 Send CV, publications, and statement to Eduardo A. Groisman at Yale:
eduardo.groisman@yale.edu
🧪 #microsky 🦠 #BLAST
Link to new article in Nature:
Extreme armour in the world’s oldest ankylosaur
🧪🦖🦕
www.nature.com/articles/s41...
I’m Arden, and my lab is trying to develop new antibiotics to treat bacterial infections!
The lab is based at Washington State University in Pullman - Go Cougs!
Impact of erroneous user input on AlphaFold 3 modeling of variant sites. Overlays show variant sites between the KatASS1 crystal structure (yellow) and AlphaFold three models generated with: (A–D) single-site mutations (green); (E–H) a single distant Trp insertion at the N-terminus (light purple) or C-terminus (dark purple); and (I–L) the correct sequence modeled with incorrect oligomeric states: monomer (light orange), dimer (orange), and trimer (dark orange). (M–P) Root-mean-square deviation (RMSD) calculations for all heavy atoms when comparing the AlphaFold three models to the crystal structure.
Lots of new-to-protein-structure folks are using AF3, which is great! However, non-experts might be inclined to feed AF3 incorrect information, such as modeling a monomer when the biologically-relevant state is a dimer. We found this can decrease model accuracy due to missing tertiary interactions.
Antibiotic resistance and immunogenicity are impacted by small variations in protein sequence but it isn't feasible to experimentally determine structures for the many thousands of variants that exist in nature. In this particular system AF3 generated extremely accurate models for variant sites.
We had a crystal structure of Helicobacter catalase collecting dust, so decided to turn it into an Alphafold test case for modeling natural protein variants, i.e. proteins with small sequence differences.
Study published here: journals.asm.org/eprint/J45UR...
Comparisons of crystal structure and AlphaFold 3 models of KatASS1. (A) Overlay of crystal structure KatASS1 (two chains, yellow) and crystal structures of KatA26659 (light gray, four chains). Variant sites are noted in pink. (B–E) Poses of variant residues within KatASS1, as indicated. KatASS1 crystal structure chains are shown in yellow and KatA26995 crystal structure chains in light gray. Green mesh is mFo-DFc omit map electron density at 3.5 σ averaged over the two non-crystallographic symmetry (NCS) chains, and dark blue mesh is 2mFo-DFc NCS-averaged electron density at 1.0 σ of the final model. (F) Overlay of the KatASS1 crystal structure (yellow) with three AlphaFold 3 models (light blue, blue, and dark blue) using native sequence and tetramer oligomerization as input parameters. (G–J). Overlay of each variant residue comparing crystal structure (yellow) positions to AlphaFold three predictions (blue). (K). Global root-mean-square-deviation (RMSD) values for each structure and model in relation to crystal structure KatASS1 chain A.
Wonderful how Alphafold has opened up protein structure prediction to non-experts but you still have to feed it correct information (like oligomeric state!). A small test case shows AF3 makes excellent guesses on natural variants but inaccuracies occur from dubious user inputs.
#microsky #IDsky 🧪🦠
🚨 2 funded #PhD positions (ERC Adv Grant) in the Moissl-Eichinger Lab, Graz! Study Methanobrevibacter as a keystone in the gut microbiome.
💡 Omics, modeling, synthetic consortia
📅 Deadline: Sept 10, 2025
🌍 Int’l applicants welcome!
Application link below.
#microbiomesky #archaeasky #microsky
