Russ Corbett-Detig
@russcd.bsky.social
I like my data small.
corbett.ucsc.edu
corbett.ucsc.edu
Reposted by Russ Corbett-Detig
Our lab has an opening for a research technician to contribute to our efforts to understand RSV evolution & its impact on antibody countermeasures (see journals.asm.org/doi/full/10....). The tech will also help w lab management.
If interested, apply here: careers-fhcrc.icims.com/jobs/29940/job
If interested, apply here: careers-fhcrc.icims.com/jobs/29940/job
August 20, 2025 at 12:19 AM
Our lab has an opening for a research technician to contribute to our efforts to understand RSV evolution & its impact on antibody countermeasures (see journals.asm.org/doi/full/10....). The tech will also help w lab management.
If interested, apply here: careers-fhcrc.icims.com/jobs/29940/job
If interested, apply here: careers-fhcrc.icims.com/jobs/29940/job
Reposted by Russ Corbett-Detig
Super glad to see this out !
Lovely collaboration with @russcd.bsky.social @crouxevo.bsky.social and the groups of @meauxjuliette.bsky.social @plantadaptation.bsky.social
Lovely collaboration with @russcd.bsky.social @crouxevo.bsky.social and the groups of @meauxjuliette.bsky.social @plantadaptation.bsky.social
Diverging Arabidopsis populations quickly accumulate pollen-acting genetic incompatibilities
doi.org/10.1093/evle...
Now in @evolletters.bsky.social by Christopher Condon et al.
doi.org/10.1093/evle...
Now in @evolletters.bsky.social by Christopher Condon et al.
Diverging Arabidopsis populations quickly accumulate pollen-acting genetic incompatibilities
Abstract. The process by which species diverge from one another, gradually accumulate genetic incompatibilities, and eventually reach full-fledged reproduc
doi.org
June 13, 2025 at 4:53 PM
Super glad to see this out !
Lovely collaboration with @russcd.bsky.social @crouxevo.bsky.social and the groups of @meauxjuliette.bsky.social @plantadaptation.bsky.social
Lovely collaboration with @russcd.bsky.social @crouxevo.bsky.social and the groups of @meauxjuliette.bsky.social @plantadaptation.bsky.social
Hey! That's me! Check out my latest where I develop a method for pinpointing where mutation spectra change along phylogenies. Striking, nodes with large changes are significantly enriched for protein changes in the RdRp (catalytic domain of the polymerase) suggesting a causal role.
Using ~8M SARS-CoV-2 genomes, a new phylogenetic algorithm by @russcd.bsky.social detects 10 shifts in mutation patterns, some of them linked to changes in viral polymerase. This provides new perspectives on the evolution of mutational processes.
🔗 doi.org/10.1093/molb...
#molbio #evobio #covid
🔗 doi.org/10.1093/molb...
#molbio #evobio #covid
A Phylogenetic Method Identifies Candidate Drivers of the Evolution of the SARS-CoV-2 Mutation Spectrum
Abstract. The molecular processes that generate new mutations evolve, but the causal mechanisms are largely unknown. In particular, the relative rates of m
doi.org
May 1, 2025 at 3:02 AM
Hey! That's me! Check out my latest where I develop a method for pinpointing where mutation spectra change along phylogenies. Striking, nodes with large changes are significantly enriched for protein changes in the RdRp (catalytic domain of the polymerase) suggesting a causal role.
Would you consider applications from a slightly more senior postdoc? ... Asking for a friend, of course. :)
Excited to do a postdoc in beautiful Neuchatel / Switzerland🇨🇭?
We have several postdoc positions open at the moment!
Check our website for the full ads here: pathogen-genomics.org/jobs
Happy to answer any question and please spread the word to anyone who might be interested!
We have several postdoc positions open at the moment!
Check our website for the full ads here: pathogen-genomics.org/jobs
Happy to answer any question and please spread the word to anyone who might be interested!
April 25, 2025 at 1:36 PM
Would you consider applications from a slightly more senior postdoc? ... Asking for a friend, of course. :)
Reposted by Russ Corbett-Detig
So glad this is finally out. The method has been instrumental in allowing us to compress the AllTheBacteria data - ~2 million bacterial genomes shrink from 3Terabytes (gzipped) to 100Gb using phylogenetic compression. Great work by @brinda.eu
Our latest paper, in which @brinda.eu (along with @zaminiqbal.bsky.social and others) introduces phylogenetic compression for storage and search of enormous microbial genome libraries, was published today in @naturemethods.bsky.social:
rdcu.be/eg4OA
1/
rdcu.be/eg4OA
1/
Efficient and robust search of microbial genomes via phylogenetic compression
Nature Methods - Phylogenetic compression achieves performant and lossless compression of massive collections of microbial genomes, facilitating fast BLAST-like search and versatile alignment tasks.
rdcu.be
April 9, 2025 at 10:27 PM
So glad this is finally out. The method has been instrumental in allowing us to compress the AllTheBacteria data - ~2 million bacterial genomes shrink from 3Terabytes (gzipped) to 100Gb using phylogenetic compression. Great work by @brinda.eu
Reposted by Russ Corbett-Detig
Not really my announcement to make--I am but a lesser co-author--but IQ-TREE 3 has just been released!
(Most credit to Minh Bui and @roblanfear.bsky.social and their labs)
ecoevorxiv.org/repository/v...
(Most credit to Minh Bui and @roblanfear.bsky.social and their labs)
ecoevorxiv.org/repository/v...
IQ-TREE 3: Phylogenomic Inference Software using Complex Evolutionary Models
ecoevorxiv.org
April 10, 2025 at 2:13 PM
Not really my announcement to make--I am but a lesser co-author--but IQ-TREE 3 has just been released!
(Most credit to Minh Bui and @roblanfear.bsky.social and their labs)
ecoevorxiv.org/repository/v...
(Most credit to Minh Bui and @roblanfear.bsky.social and their labs)
ecoevorxiv.org/repository/v...
This is absolutely fascinating! Impressive analysis (3.2M TEs in 1.9K samples) and super interesting examples of locally adaptive TE insertions. Congrats to @tobybarilbio.bsky.social and all the authors.
Excited to share our latest preprint 🥳
Historic transposon mobilisation waves create distinct pools of adaptive variants in a major crop pathogen
@danielcroll.bsky.social
#TESky
www.biorxiv.org/content/10.1...
Historic transposon mobilisation waves create distinct pools of adaptive variants in a major crop pathogen
@danielcroll.bsky.social
#TESky
www.biorxiv.org/content/10.1...
Historic transposon mobilisation waves create distinct pools of adaptive variants in a major crop pathogen
Transposable elements (TEs) can drive the evolution of host-pathogen interactions and gains in antimicrobial resistance. However, how adaptive TEs arise in populations and historical contingencies aff...
www.biorxiv.org
April 10, 2025 at 2:31 AM
This is absolutely fascinating! Impressive analysis (3.2M TEs in 1.9K samples) and super interesting examples of locally adaptive TE insertions. Congrats to @tobybarilbio.bsky.social and all the authors.
Reposted by Russ Corbett-Detig
Our paper on fitting population genetic models to low-pass sequencing data is now out in Molecular Biology and Evolution! doi.org/10.1093/molb...
January 24, 2025 at 7:52 PM
Our paper on fitting population genetic models to low-pass sequencing data is now out in Molecular Biology and Evolution! doi.org/10.1093/molb...
Reposted by Russ Corbett-Detig
Building on the UShER tree of millions of SARS-CoV-2 genomes maintained by Angie Hinrichs, Hugh Haddox and Georg Angehrn (and others in @matsen.bsky.social lab and @jbloomlab.bsky.social) have looked into how the neutral mutation rate varies along the genome:
[1/N]
www.biorxiv.org/content/10.1...
[1/N]
www.biorxiv.org/content/10.1...
The mutation rate of SARS-CoV-2 is highly variable between sites and is influenced by sequence context, genomic region, and RNA structure
RNA viruses like SARS-CoV-2 have a high mutation rate, which contributes to their rapid evolution. The rate of mutations depends on the mutation type (e.g., A→C, A→G, etc.) and can vary between sites ...
www.biorxiv.org
January 11, 2025 at 5:37 PM
Building on the UShER tree of millions of SARS-CoV-2 genomes maintained by Angie Hinrichs, Hugh Haddox and Georg Angehrn (and others in @matsen.bsky.social lab and @jbloomlab.bsky.social) have looked into how the neutral mutation rate varies along the genome:
[1/N]
www.biorxiv.org/content/10.1...
[1/N]
www.biorxiv.org/content/10.1...
Reposted by Russ Corbett-Detig
Delighted to organize the Next-Wave Symposium again this year! If you are an awesome postdoc in genomics---very broadly defined---come tell us about your amazing science!
Calling all postdocs! We're hosting a symposium in beautiful Santa Cruz, CA, to showcase rising talent in genomics research. Travel expenses are covered for selected applicants ✈️😎🏖 The event will be held on April 15. Applications due Feb 15: bit.ly/NextWave25
December 16, 2024 at 10:10 PM
Delighted to organize the Next-Wave Symposium again this year! If you are an awesome postdoc in genomics---very broadly defined---come tell us about your amazing science!
Reposted by Russ Corbett-Detig
There's a lot of uncertainty about the future right now.
I'd like to do something constructive: if you teach students in #publichealth, #microbiology, #genomics, #bioinformatics, I'd be happy to talk about CDC AMD, #fellowships, gov sci and career paths. #microsky #blackinmicro 🧬🖥️
www.cdc.gov/amd
I'd like to do something constructive: if you teach students in #publichealth, #microbiology, #genomics, #bioinformatics, I'd be happy to talk about CDC AMD, #fellowships, gov sci and career paths. #microsky #blackinmicro 🧬🖥️
www.cdc.gov/amd
Advanced Molecular Detection (AMD)
CDC’s Advanced Molecular Detection program leads national efforts to develop and expand the use of
www.cdc.gov
November 14, 2024 at 12:19 AM
There's a lot of uncertainty about the future right now.
I'd like to do something constructive: if you teach students in #publichealth, #microbiology, #genomics, #bioinformatics, I'd be happy to talk about CDC AMD, #fellowships, gov sci and career paths. #microsky #blackinmicro 🧬🖥️
www.cdc.gov/amd
I'd like to do something constructive: if you teach students in #publichealth, #microbiology, #genomics, #bioinformatics, I'd be happy to talk about CDC AMD, #fellowships, gov sci and career paths. #microsky #blackinmicro 🧬🖥️
www.cdc.gov/amd
Reposted by Russ Corbett-Detig
Got milk virus genomes? (or any H5N1?) Throw them at usher.bio and see where they land in per-segment trees of tens of thousands of public Influenza A H5N1 sequences!
UCSC UShER: Upload
UCSC Genome Browser
usher.bio
June 21, 2024 at 10:16 PM
Got milk virus genomes? (or any H5N1?) Throw them at usher.bio and see where they land in per-segment trees of tens of thousands of public Influenza A H5N1 sequences!
Reposted by Russ Corbett-Detig
Horizontal transmission of functionally diverse transposons is a major source of new introns https://www.biorxiv.org/content/10.1101/2024.06.04.597373v1
Horizontal transmission of functionally diverse transposons is a major source of new introns https://www.biorxiv.org/content/10.1101/2024.06.04.597373v1
Specialized transposable elements (TEs), introners, are one of the major drivers of intron gain in d
www.biorxiv.org
June 6, 2024 at 8:00 AM
Reposted by Russ Corbett-Detig
So glad our paper on lethal hybrid incompatibilities is out at Nature today: rdcu.be/dvFcM ! @ben-moran.bsky.social moved mountains for this project: we identified two new incompatibilities in swordtail hybrids , characterize mechanisms of lethality, and their evolutionary history.
rdcu.be
January 10, 2024 at 6:49 PM
So glad our paper on lethal hybrid incompatibilities is out at Nature today: rdcu.be/dvFcM ! @ben-moran.bsky.social moved mountains for this project: we identified two new incompatibilities in swordtail hybrids , characterize mechanisms of lethality, and their evolutionary history.
Reposted by Russ Corbett-Detig
The Ecology & Evolution department at UC Santa Barbara is searching for an Assistant Professor of Evolutionary Biology. Please apply and/or spread the word! recruit.ap.ucsb.edu/JPF02635
November 29, 2023 at 9:56 PM
The Ecology & Evolution department at UC Santa Barbara is searching for an Assistant Professor of Evolutionary Biology. Please apply and/or spread the word! recruit.ap.ucsb.edu/JPF02635
Are you a postdoc doing awesome research in genomics?! Apply to present at the NextWave of Faculty in Genomics symposium! Also, please repost!
DEADLINE APPROACHING! We're hosting a postdoc symposium in beautiful beachside Santa Cruz, CA, to showcase rising talent in genomics research. Travel expenses are covered for selected applicants. The event will be held on March 12. Applications due Jan 12: genomics.ucsc.edu/calendar_eve...
January 4, 2024 at 9:43 PM
Are you a postdoc doing awesome research in genomics?! Apply to present at the NextWave of Faculty in Genomics symposium! Also, please repost!
UShER has been an amazing project, but we never really documented exactly how we maintain the 16M sample SARS-CoV-2 tree 😬... In a paper the came out over the break, we go back through our server logs to retrospectively walk through the major choices we made. Check it out here: rdcu.be/du5q5
rdcu.be
January 3, 2024 at 7:34 PM
UShER has been an amazing project, but we never really documented exactly how we maintain the 16M sample SARS-CoV-2 tree 😬... In a paper the came out over the break, we go back through our server logs to retrospectively walk through the major choices we made. Check it out here: rdcu.be/du5q5
Reposted by Russ Corbett-Detig
I'm pleased to share our new article in MBE! We dug deep into the molecular details of the classic Ruff inversion that mediates different plumage and mating display phenotypes. w/ Jason Hill and Huijan Bi and others with Leif Andersson
December 11, 2023 at 5:44 PM
I'm pleased to share our new article in MBE! We dug deep into the molecular details of the classic Ruff inversion that mediates different plumage and mating display phenotypes. w/ Jason Hill and Huijan Bi and others with Leif Andersson
Reposted by Russ Corbett-Detig
Registration for BAPG at Stanford Dec. 2, 2023 is now open. The registration is free but required: docs.google.com/forms/d/14ne...
Save the date: The Fall 2023 #BAPG (Bay Area Population Genomics Conference) will be hosted by the Petrov lab at Stanford on Dec 2, 2023. The details are to follow! As always registration is free and most speaking slots are reserved for graduate students and postdoctoral fellows.
October 30, 2023 at 8:34 PM
Registration for BAPG at Stanford Dec. 2, 2023 is now open. The registration is free but required: docs.google.com/forms/d/14ne...