I study evolution of fungi using genomics
@stajichlab. Professor at UC Riverside. Comments & opinions shared are mine. He/him
Here's a #BioPerl blast from the past @hyphaltip - https://github.com/OBF/wp-content/blob/gh-pages/uploads/2006/01/bioperl_graffiti.jpg
(Spotted while working with @gedankenstuecke et al on the trial @OpenBio website migration from WordPress to Hugo on GitHub Pages)
@gedankenstuecke @pjacock @OpenBio oh no. I’m rapidly approaching senior bioinformatics scientist …
A yeast love triangle: multiple hybridizations shape genome evolution in the Pichia cactophila species complex. https://www.biorxiv.org/content/10.1101/2023.12.27.573426v1?med=mas
From my collaborator, who has front row seats to the gutting of a university:
https://twitter.com/imperfectfunguy/status/1702757943681192227?s=46
Counting dots or counting reads? Complementary approaches to estimate virus-to-microbe ratios
Roux, S., Brum, J.R.
ISME J (2023)
https://doi.org/10.1038/s41396-023-01468-z
A new high resolution microbial time #tree calibrated using the Great Oxidation Event (GOE) ~2.33 billion years ago highlights the evolution of aerobic lifestyles in #bacteria. Most bacteria were ancestrally anaerobic (Bacillota/Firmicutes are the oldest) and the transition to an aerobic lifestyle was initiated by Cyanobacteria, which seeded #oxygen production and consumption capabilities to the broader bacterial tree over hundreds of millions of years.
@ottiswimmers @marshomics we actually published a calibrated tree of life using similar approaches recently
https://elifesciences.org/reviewed-preprints/88268v1
We received some pushback for using the GOE for calibration (all reviews and responses are public). It will be interesting to see how that plays out here.
Data Carpentry Genomics Curriculum Advisory Committee is looking for new members -- info and application link here: https://carpentries.org/blog/2023/08/genomics-cac-recruitment/
The renewal of #VEuPathDB & #FungiDB contract is in preparation. The success is likely to depend on strong support from users worldwide.
Consider signing the support letter by Deb Bell-Pederson & the Fungal Genetics Policy Committee:
https://tinyurl.com/support4FungiDB
Responses must be received by 8 Aug 2023.
N.b. the team asks for signatures onky from lab heads. VEuPathDB users may wish to add their name to other community letters:
https://sites.google.com/view/VEuPathDB
https://recruit.ucdavis.edu/JPF05866 Assistant/Associate/Full Professor In-Residence/Professor (tenure track): Microbiome Sciences — deadline oct 1 #job #academic #faculty #microbiome #ucdavis
Faculty Job https://academicjobsonline.org/ajo/jobs/25224 “Harvey Mudd College, Hixon Center for Climate and the Environment”
New manuscript in Mycologia lead by @casettron w/ @KidTrid and others in our lab using RNASeq to study development in the dioecious chytrid fungus and mosquito pathogen Coelomomyces https://www.tandfonline.com/doi/full/10.1080/00275514.2023.2228182 🦟🍄🧬 @ucrcnas
"Evaluating the diversity of the enigmatic fungal phylum Cryptomycota across habitats using 18S rRNA metabarcoding"
https://www.sciencedirect.com/science/article/abs/pii/S1754504823000259
#cryptomycota #18S #metabarcoding #diversity #fungi #mycology
We're hiring for a postdoc position focused on metabolic modeling. Please share widely.
@alexcc I did an edit to the toot and it should be valid link now? posting it again https://authors.elsevier.com/a/1hTUb3QW8S2Q~9
Reposting from @extremefungi: Our Current Biology Primer on #fungi from extreme environments just came online!
Free access for the next 50 days: https://authors.elsevier.com/a/1hTUb3QW8S2Q%7E9 https://doi.org/10.1016/j.cub.2023.06.011
#extremefungi #extremophiles
new paper describing many new chytrid lineages using single cell genomics and microscopy — A combined microscopy and single-cell sequencing approach reveals the ecology, morphology, and phylogeny of uncultured lineages of zoosporic fungi - https://journals.asm.org/doi/10.1128/mbio.01313-23
