Evan Mann, PhDad 🧸

Out!!!! Top abundant deep ocean heterotrophic bacteria can be retrieved by cultivation | ISME Communications ⁦@ICMCSIC⁩ ⁦@AcinasL⁩ ⁦@carlosduartephd⁩ ⁦@pepgppepgp⁩ and more! nature.com/articles/s4370…

Do you need to annotate a genome, metagenome, or metatranscriptome fast at scale? Take a look at MetaCerberus for functional annotation (KOs, COGs, CAZy, PHROGs, VOGs etc). All HMM based. #rawlab #teamraw Paper: biorxiv.org/content/10.110… Code: github.com/raw-lab/MetaCe…

In this study, AI was more accurate than two thirds of radiologists, yet when radiologists had AI help their diagnoses did not improve. Why? Humans ignored the AI’s advice when it conflicted with their views. A big barrier to future human-AI collaboration blueprintcdn.com/wp-content/upl…

I'm very excited to present the latest type VII secretion system research from the @JohnWhitneyIIDR which is out now at @biorxiv_micrbio. In this work, we look deeper into how toxins are recognized and secreted by this Gram +ve secretion system. biorxiv.org/content/10.110…

Intestinal mucus & their glycans: A habitat for thriving #microbiota. @AnaSofLuis & Hansson @goteborgsuni review how commensal #bacteria can be selected by & utilize complex O-glycans of colonic mucins--while being kept at distance by inner mucus layer cell.com/cell-host-micr…

We thought we were done with the structure of Klebsiella O1, but it turns out there is a non-reducing pyruvate modification that has gone unidentified until now! Thanks to all involved in this fun collaboration. #CAZy #glycotime pnas.org/doi/10.1073/pn…

The new edition of one of the most popular machine learning textbooks is coming in summer 2023 and unlike all the previous editions is in Python 🐍 and available for free as PDF book. hastie.su.domains/ISLP/ISLP_webs… When it comes to machine learning Python is clearly taking over, for time series it already did couple of years ago, see my Medium article “Python vs R for time-series forecasting” @valeman/python-vs-r-for-time-series-forecasting-395390432598" target="_blank" rel="nofollow noopener">medium.com/@valeman/pytho… #machinelearning #python

Glycosylation is critical to the efficacy, safety and half life of more than half of the top drugs by sales right now, but also important to emerging gene and and cell therapies. Check out our latest review. authors.elsevier.com/a/1hMU22d7IrAY…

1/19 I was asked to comment to @Nature on a paper in @CellCellPress on ultra-deep seq of fecal samples from Hadza African foragers. Reading glaring ethical problems was a shock for a paper green-lit through peer & editorial review in a prestigious journal doi.org/10.1016/j.cell…

How do gut pathogens establish themselves, escape from the intestinal lumen, and traverse the colonic mucus to reach the host epithelium? My PhD study from @BruceVallance lab shows sialic acid facilitates this process! @PNASNews pnas.org/doi/10.1073/pn…

MetaPhlAn 4 is published today OA in Nature Biotechnology @NatureBiotech nature.com/articles/s4158… We added GTDB output, improved performance and comparative analyses w.r.t. the preprint version. Huge thanks to @AitorBM for the eroic effort and to all @nsegata and @hutlab

In case you missed the epub version, the article describing the @MGnifyDB genome catalogues is out: doi.org/10.1016/j.jmb.… Dedicated work by @tgurbich and others to start providing dereplicated catalogues of MAGs for different biomes.

In science we are in denial about how, like in everything else in life, a huge part, maybe the largest part, of being successful is just being the right person at the right place at the right time. Instead we pretend it's all about being a genius & hand out prestigious awards.

So there is this @TaraOceans_Sci expedition. Collecting samples from the ocean all over the 🌎. Then these authors "searched for fast-carboxylating #Rubisco variants by systematically mining #genomic and #metagenomic data from the samples". Results👇😎 embopress.org/doi/full/10.15…

Out now in @NatureMicrobiol: Bdellovibrio predation cycle characterized at nanometre-scale resolution with cryo-electron tomography @MMMKaplan_ @theJensenLab @yiweichang nature.com/articles/s4156…

Out now in @CellCellPress: Ultra-deep sequencing of Hadza hunter-gatherers recovers vanishing gut microbes By Matthew Carter, Matthew Olm, Bryan Merrill, Erica Sonnenburg, Justin Sonnenburg & colleagues @MattagenOlmics @bryan_d_merrill @LabSonnenburg cell.com/cell/fulltext/…

📢Out now in @NatureMicrobiol: A genetic system for Akkermansia muciniphila reveals a role for mucin foraging in gut colonization and host sterol biosynthesis gene expression By Lauren Davey, Raphael Valdivia & colleagues. @valdi001, @lauren282012 nature.com/articles/s4156…

A very cool animation of atmospheric CO₂ for the year 2021: * Fossil fuels, orange * Burning biomass, red * Land ecosystems, green * Ocean, blue For a well-mixed GHG, it takes some time for CO₂ to distribute globally from the sources in the North! svs.gsfc.nasa.gov/5110