Our PathogenSurveillance pipeline is out in bioRxiv. PathogenSurveillance is an open-source and automated Nextflow pipeline for population genomic analyses of WGS data. It is flexible, using both short and long read data, mixed samples of prokaryotes and eukaryotes. www.biorxiv.org/content/10.1...

A one-of-a-kind repeated natural experiment. Population Genomic Analysis of Two Independent Clonal Invasions of the Sudden Oak Death Pathogen into One Forest | Phytopathology® apsjournals.apsnet.org/doi/10.1094/...

If you admix barcodes in your Illumina library, use Demulticoder: An R Package for the Simultaneous Analysis of Multiplexed Metabarcodes | Phytopathology® apsjournals.apsnet.org/doi/10.1094/...

Novel insights into CAZY pathogenicity factor AA7 involved in plant immune-modulatory function: doi.org/10.1038/s414...

On this #WorldFoodDay, we celebrate the efforts of those who nourish our communities, protect our planet, and shape a better future through better food for all. Explore resources to learn more about food security and sustainability. #FAO80 https://bit.ly/4nqN3x7

Working on invasive organisms? Weeds, pests, pathogens or animals? Consider submitting your work to www.cabidigitallibrary.org/journal/ab/s...

Australia has one of the best and most rigorous approaches and we can all learn from your experience. I like the thought of strategies to build and maintain social license and trustworthiness before, and during any outbreak and the period of response.

I am leading an effort to identify gaps in plant biosecurity? Please let me know your thoughts on what is currently missing?

Microbial phenazines: biosynthesis, structural diversity, evolution, regulation, and biological significance journals.asm.org/doi/abs/10.1... #jcampubs

Jane Goodall has died at the age of 91. In 2020, Goodall spoke with Science Editor-in-Chief H. Holden Thorp for a #ScienceEditorial reflecting on the 60th anniversary of her arrival in Gombe to study wild chimpanzees. Read more: https://scim.ag/472Chb8

HHMI adopts Plan U journals.plos.org/plosbiology/...

@jpodwyer.bsky.social led this elegant and novel approach using genomic demography to make ecological predictions. I am excited to have played a small part in this elegant work: Genomic demography predicts community dynamics in a temperate montane forest | Science www.science.org/doi/10.1126/...

Genomic demography predicts community dynamics in a temperate montane forest | Science www.science.org/doi/10.1126/...

Just brilliant. Also works for bureaucrats, not just deans www.mcsweeneys.net/articles/fac...

Scientists are removing words like “diverse” and “disparities” from hundreds of federal grant renewals to avoid getting flagged in the Trump administration’s focus on eliminating diversity

Out-of-pocket ACA premium payments will likely increase about 75% on average next year due to Congressional actions.

ICYMI-- I did. A study of software developers found it took them 19% more time to do their work when they used AI tools. At the same time, they *perceived* they had saved time. They thought they would work faster and so they falsely "believed AI had sped them up by 20%."

#NatMicroPicks Hidden microbial world in trees🌳 Living wood hosts trillions of bacteria making trees a complex ecosystems with major roles in forest health and function. #PlantMicro #MicroSky www.nature.com/articles/s41...

Wonderful (and humble) essay on mentorship by Brandon Gaut, on occasion of Brandon receiving the inaugural Mentorship Award of @genetics-gsa.bsky.social. I hope this will be widely read! academic.oup.com/genetics/art...

Ben Hoyt conducting a population genomic analysis of the ‘bulldozer’ Phytophthora cinnamomi #planhealth2025

Happy to share that our Helixer deeplearning-based annotation of 230 superasterid genomes is now online on @datadryad.bsky.social 💻🌱 doi.org/10.5061/drya... Check out how we used 69 of them to study the molecular evolution of a plant immune receptor network here! 👇

Formatted pdf now available. Over 100 authors from across the world agree to protecting the genus Phytophthora against burdensome and unnecessary taxonomic change apsjournals.apsnet.org/doi/10.1094/...

UC Irvine keeps expanding its focus on microbial ecology and microbiome science - an exciting place to work for any early-career people on the hunt for a job!

Preprint on antimicrobial prediction pipeline: www.biorxiv.org/content/10.1...

In memory of our dear colleague, John McDowell, who left us all too early. RIP. doi.org/10.1094/MPMI...

We lost a Grangle family member, a friend, and a visionary scientist. “A note from Jeff Dangl: John McDowell was a former MPMI Editor and great membr of our community and that it is apt that his memory be recognized at the current #2025ISMPMI nam12.safelinks.protection.outlook.com?url=https%3A...

Quoting WSJ: A March 2025 survey by the journal Nature of more than 1,600 scientists in the U.S. found that three-quarters have considered leaving the country. Respondents specifically cited the Trump administration’s hostility to scientific research and those who practice it.

... and the famous Meselson-Stahl PNAS paper: www.pnas.org/doi/abs/10.1...

The most beautiful experiment in biology ... www.nytimes.com/2025/07/07/s...

Oregon has no reports so far of people contracting the virus. But it's still wise to cover up and prevent bites, health officials say.

Nuevos datos sobre la virulencia, temperatura y patosistemas de Xylella fastidiosa en olivo y arándano Fuente: www.oleorevista.com/texto-diario... @blancaracol.bsky.social @iascsic.bsky.social

New Independent Fellowship position in Microbiology to launch your lab in our department @johninnescentre.bsky.social (UK). We are conducting a broad search in the area of plant-associated microbial interactions. Message me if you have any questions. Apply here: www.jic.ac.uk/vacancies/in...

I can't stress enough how close U.S. science is to the cliff. "Numbers released in May by the National Science Foundation (NSF) indicate that if Congress approves the cuts to the agency proposed by the White House, the number of early-career researchers it supports could fall by 78%" (@science.org)

We are now in the time of year where should be seeing dramatic increases in NIH notices of awards (NOAs) Graphs: New SBIR and RO1 award notifications in 2025 compared to prior years. Data from NIH RePORTER, code to reproduce here: gist.github.com/chasemc/fda6...

BPP @ Oregon State is hiring an open rank tenure track position in any area of plant systematics, ecology, and evolution and to direct our herbarium. Come join us in a great department and beautiful Oregon! bpp.oregonstate.edu/bpp/about/op...

No news since December except for an email two weeks ago with the reviews saying they were still evaluating administration priorities. No new funding calls released either. Way more clamped down then NIH or NSF.

BEAST X for Bayesian phylogenetic, phylogeographic and phylodynamic inference www.nature.com/articles/s41... 🧬🖥️🧪 github.com/beast-dev/be...

Measles Cases Hit Record High, 25 Years After U.S. Eliminated the Disease. Gift link: nyti.ms/4kxfY0V

We are thrilled to announce gt-extras, a collection of helper functions for creating beautiful tables with the great-tables package in #Python! Add plots, icons, color gradients, and more to your tables. Learn more here: posit-dev.github.io/gt-extras/ar...

Staff scientist position (computational): I am looking for a computational scientist to join my genomics lab at Stanford. They should have an outstanding skillset in ML/statistical methods for genomic applications, postdoc experience and a strong publication record. #sciencejobs

The situation is such a stupid self sabotage. Although I *think* my lab will survive the chaos, most of my trainees - who are truly excellent- plan to look for their next positions outside of the US. This shift was rare before the last year. www.science.org/content/arti...

For “Reflections on the history of modeling and theory”, @sarperotto.bsky.social and I met with Joel Cohen. We learn how he navigated math and biology, the value of embracing ignorance, and what is a population. Or really, what _isn't_ a population: www.youtube.com/watch?v=RCt9... @smtpb.bsky.social

I'm recruiting a 2-yr postdoc to start in October or November of 2025! I'm looking for applicants interested in exploring amphibian disease ecology as it relates to climate change. Strong quantitative skills preferred, interviews start late July. More info: erinsauer.com

First release of our @nextflow.io #PathogenBiosurveillance population genomic pipeline that can identify known and unknown pathogen & pests as well as variants. nf-co.re/pathogensurv.... 🧬🖥️🦠🔬🧪