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Peter Innes

@peterinnes1.bsky.social
109 followers 155 following 19 posts

plant evolutionary genomics 🌻 🧬 postdoc in the Kane lab at University of Colorado, Boulder peterinnes.net

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Reposted by Peter Innes
Dr. Sarah Carey @scarey.bsky.social · 29/09/2026
I am thrilled to share our pre-print for CBS-tools: a k-mer based analysis that utilizes whole-genome sequencing of a few sex-identified isolates to guide users from the discovery of the heterogametic sex through identifying the sex-determination region www.biorxiv.org/content/10.6...
biorxiv.org
Identifying, phasing, and structurally annotating sex chromosomes for genome assemblies using CBS-tools
A complete reference genome for species with chromosomally-determined separate sexes should contain scaffolds for all sex chromosome homologs. However, sex chromosomes present distinct computational c...
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FrontRangeWildflowers @frwildflowers.bsky.social · 11/08/2026
Clark’s Nutcracker at Emerald Lake today 🌿
Black, white and gray bird looking backward
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Ethan Gyllenhaal @ethanofthegulls.bsky.social · 11/08/2026
Group project from the @jdmanthey.bsky.social lab that I led is out in Molecular Ecology! We used whole-genome data to understand Pleistocene forest refugia in central Africa in Yellow-whiskered Greenbul, a species found across most forest habitat in the region: doi.org/10.1111/mec.... 🧵
Map showing the study taxon, an olive bird with yellow "whiskers" coming down from its bill, and a map of Africa with three colored points representing West, Central, and East populations.
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Ethan Linck @elinck.bsky.social · 04/08/2026
new paper (my first w/ a Tok Pisin abstract)! our 2024 camera trap record of the rare New Britain Thrush prompted a review of all known observations of the species since its description—a mere 15 total. led by MS student Jason Gregg for the brand-new Journal of Lost Species: doi.org/10.66264/3c8...
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Shelly Gaynor @shellygaynor.bsky.social · 31/07/2026
At #Botany2026, I was hoping to start recruiting for my lab group. If you are interested in polyploidy and population genetics, please reach out.
Interested in Polyploidy and Population Genetics?

Florida State University, Join the Gaynor Lab. My lab is open to both Ph.D. and master students through the Ecology and Evolution area in Biological Sciences at FSU - applications are due December 1st!
I also have funding to support a postdoctoral researcher and a technician during my first three years at FSU. The postdoctoral researcher will focus on polyploidy population genomics. The technician will help with lab work including flow cytometry for genome size estimation and DNA sequencing preparation.

If you are interested in joining the lab, please send me an email with a CV/resume and a brief explanation of your research interests and your career goals

Find out more at mlgaynor.com and email me at  shellyleegaynor at gmail.com
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Peter Innes @peterinnes1.bsky.social · 31/07/2026
Kudos to Forbes for covering this topic—I was interviewed and got to highlight recent work from our group led by Eliza Clark! www.forbes.com/sites/derekn...
forbes.com
The Next Green Revolution: Climate-Resilient Crops
American farmers face increasing climate volatility. Scientists are developing diverse solutions, integrating genetics, breeding, and engineering to adapt crops.
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Ethan Linck @elinck.bsky.social · 29/07/2026
grateful to have received the lab's first NSF grant to study cyclical processes of speciation with new theory and tools (applied to Melanesian birds). ad to come, but I'll be looking for a postdoc with computational biology chops—please reach out! (and repost) www.nsf.gov/awardsearch/...
screenshot of public abstract of NSF award, linked in post
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New Phytologist @newphyt.bsky.social · 22/06/2026
#Viewpoint: Using herbarium collections to study genetic responses to global change Eckert et al 👇 📖 nph.onlinelibrary.wiley.com/doi/10.1111/... #LatestIssue #PlantScience @lucaseckert.bsky.social @cameronso.bsky.social
Fig. 1 Using herbarium specimens to estimate historical metrics of genetic variation.
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Peter Innes @peterinnes1.bsky.social · 16/06/2026
PSA this appears to be Linum perenne given the reverse herkogamy. It’s introduced from Europe and often mistaken for lewisii. Also, Lewis flax is typically not so deep blue, at least in the Boulder area
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Genetics Society of America @genetics-gsa.bsky.social · 12/06/2026
📢 NEW GENOME ALERT in #G3journal The first genome assembly for Nucifraga colombiana—a North American seed predator, aka Clark’s Nutcracker—will aid comparative and conservation genomics research. @mdcarling.bsky.social @peterinnes1.bsky.social @elinck.bsky.social 🔗 buff.ly/xdQeCOG
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New Phytologist @newphyt.bsky.social · 03/06/2026
Spatial inference of ancestor locations suggests northern refugia for canopy-forming #kelps in the Pacific Northwest Jordan B. Bemmels, et al. nph.onlinelibrary.wiley.com/doi/10.1111/... @gregowens.bsky.social #PlantScience #phylogeography
Population genetic structure in the Pacific Northwest for Nereocystis and Macrocystis.
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Kelsie Hunnicutt @kelsiehunnicutt.bsky.social · 12/05/2026
Thrilled that our new review article on animal hybridization is now up on EcoEvoRxiv! 🎉 Working on this review with @mollyschumer.bsky.social was a blast, and it was such a wonderful opportunity to catch up on all the amazing work in animal hybridization over the last few years!
A world map showing the distribution of species studied in hybridization research
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Science Magazine @science.org · 19/03/2026
Wild rice is a perennial, creeping plant. The secret to its perennial growth habit lies in a developmental reversal directed by small RNAs. This image illustrates how combining perennial genes with prostrate growth genes allows cultivated rice to mimic wild rice. Learn more: scim.ag/40GOjDb
This image illustrates how combining perennial genes with prostrate growth genes allows cultivated rice to mimic wild rice.
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Maria Stager @mstager.bsky.social · 09/03/2026
Spring is arriving, but there's still snow in the forecast! How do late #winter storms affect our migratory #birds? Out now in @natecoevo.nature.com, we ask that Q with 25+yrs of #CitizenScience data and ~400 museum specimens collected after the 2021 Great TX Freeze: rdcu.be/e7aUy #EcoEvo #evolution
rdcu.be
Storm-induced mass mortality results in both immediate and long-term consequences for a migratory songbird
Nature Ecology & Evolution - Combining 27 years of citizen science data with whole-genome sequencing, the authors show that mass mortality of purple martins caused by a severe winter...
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Dr. K. Lotterhos @drk-lo.bsky.social · 09/03/2026
In an era of highly partisan politics in the US, I want to highlight this promising bi-partisan bill to study biodiversity genomics in US National Parks. Consider sending a letter of support to these reps for the Living Library Act! www.padilla.senate.gov/newsroom/pre...
padilla.senate.gov
Padilla, Young, Bice, Khanna Introduce America’s Living Library Act to Strengthen U.S. Biotech Innovation - Senator Alex Padilla
WASHINGTON, D.C. — Today, U.S. Senators Alex Padilla (D-Calif.) and Todd Young (R-Ind.), along with U.S. Representatives Stephanie Bice (R-Okla.-05) and Ro Khanna (D-Calif.-17), Commissioners on the N...
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Peter Innes @peterinnes1.bsky.social · 04/03/2026
Thanks @elinck.bsky.social @mdcarling.bsky.social for the opportunity to assemble this genome, which will be an important resource for future comparative and pop gen work. Given its close and iconic mutualism with whitebark pine, Clark’s Nutcracker is basically a plant, hence my role in the project
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New Phytologist @newphyt.bsky.social · 02/03/2026
Geography and admixture shape the genome‐scale phylogeny of North American #Delphinium 📖 nph.onlinelibrary.wiley.com/doi/10.1111/... by Meek et al. Photo credit: Delphinium scaposum & Delphinium carolinianum www.wildflower.org/texas; Delphinium viridescens www.burkeherbarium.org
Phylogeny and biogeographic distribution of Delphinium sect. Diedropetala.
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New Phytologist @newphyt.bsky.social · 16/02/2026
Recombination suppression in plant adaptation and speciation #TansleyReview by Zhang et al. nph.onlinelibrary.wiley.com/doi/10.1111/... #plantscience
Evolutionary roles of recombination suppression.
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Ethan Linck @elinck.bsky.social · 29/01/2026
my Ph.D. student Lizzy & I contributed to this perspective on range-wide signatures of local adaptation in American Pika—her first coauthuored paper: doi.org/10.1111/mec....
doi.org
Genomic Evidence for Local Adaptation to Elevation and Climate Sheds New Light on Variable Responses to Global Change in American Pikas (Ochotona princeps)
Click on the article title to read more.
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Shelly Gaynor @shellygaynor.bsky.social · 26/01/2026
Just saw this new preprint - includes flow ctyometry on 45,000 silica-dried samples for 1135 species - this is amazing and such a great resource for anyone attempting to do flow cytometry: www.biorxiv.org/content/10.6...
biorxiv.org
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New Phytologist @newphyt.bsky.social · 11/01/2026
#TansleyInsight: Evolutionary #genetics of alternative splicing in #plants @peterinnes1.bsky.social, Nolan Kane & @chriscrsmith.bsky.social 👇 📖 nph.onlinelibrary.wiley.com/doi/10.1111/... #LatestIssue
Fig. 1 Evolution and potential contributions of alternative splicing (AS) along the speciation continuum.
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Evolution Letters @evolletters.bsky.social · 18/12/2025
Can we predict gene expression evolution? In flour beetles, transcriptome-wide selection predicts expression change, with indirect selection acting strongest on pleiotropic, network-central genes—linking co-expression architecture to adaptation. academic.oup.com/evlett/artic... Photo: Udo Schmidt
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Evolution Letters @evolletters.bsky.social · 19/12/2025
Why do selfing rates vary across a species’ range? In alpine monkeyflower, self-fertilization increases away from the range center, supporting the abundant center hypothesis over historical range expansion in shaping reproductive assurance. academic.oup.com/evlett/advan... Photo Credit: Brewbooks
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Ethan Linck @elinck.bsky.social · 22/12/2025
I've slowly been reformatting notes from my population and conservation genetics course at Montana State University into a web book—a rough draft is now live here: elinck.org/popgen_conge...
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New Phytologist @newphyt.bsky.social · 10/12/2025
Climate drives variation in optimal phenology Clark et al. nph.onlinelibrary.wiley.com/share/MCQ8GR...
Sites of sunflower multi-environment trials.
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angela oliverio @oliverio.bsky.social · 02/12/2025
Thanks nature news for featuring our recent preprint on 𝘐𝘯𝘤𝘦𝘯𝘥𝘪𝘢𝘮𝘰𝘦𝘣𝘢 led by @hbrappap.bsky.social (check out preprint here: doi.org/10.1101/2025...) #protistsonsky
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Jennifer Mandel @jennifermandel.bsky.social · 14/11/2025
🌻 Sharing this preprint where we assembled 3 new chromosome-level genomes, including the first for Asteraceae's South American sister Calyceraceae! Asteraceae uses all the tricks when it comes to being the most ecologically successful family of flowering plants. www.biorxiv.org/content/10.1...
biorxiv.org
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Chris Smith @chriscrsmith.bsky.social · 14/11/2025
Excited to share our review on alternative splicing evolution, with @peterinnes1.bsky.social and Nolan Kane!
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New Phytologist @newphyt.bsky.social · 14/11/2025
Evolutionary #genetics of alternative splicing in plants #TansleyInsight by @peterinnes1.bsky.social, Nolan C. Kane and @chriscrsmith.bsky.social nph.onlinelibrary.wiley.com/doi/10.1111/... #PlantScience #speciation
Evolution and potential contributions of alternative splicing (AS) along the speciation continuum.
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Peter Innes @peterinnes1.bsky.social · 14/11/2025
Thanks to @chriscrsmith.bsky.social for the invitation to write this Tansley Insight together! First pub in one of my favorite journals @newphyt.bsky.social 🌱 🥹
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ybrandvain.bsky.social @ybrandvain.bsky.social · 24/10/2025
Proud of the latest edition of my free intro biostats book. gitrepo: github.com/ybrandvain/b... book: ybrandvain.github.io/biostats/ Not complete but at a good point to take a break, and I think its quite usable dm me with comments , ideas etc
ybrandvain.github.io
Applied Biostatistics
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Peter Innes @peterinnes1.bsky.social · 13/10/2025
@ecoevorxiv.bsky.social Excited to read this review, “Genomic insights into the origin of ecotypes”, by Johannesson et al ecoevorxiv.org/repository/v...
ecoevorxiv.org
Genomic insights into the origin of ecotypes
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Joanna Rifkin they/them @joannarifkin.bsky.social · 29/09/2025
Check out our new preprint! This was such a great paper to work on with @stairwaytokevin.bsky.social and the rest of the team!
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Ana Bedoya @botana-bedoya.bsky.social · 19/08/2025
Plant genome sequencing needs to go tropical. Check out this commentary I wrote with Felipe Zapata (UCLA) and María José Sanín (Montgomery Botanical Center) out today in Nature Reviews Biodiversity 1/5 www.nature.com/articles/s44...
nature.com
Plant genome sequencing needs to go tropical
Nature Reviews Biodiversity - Whole-genome plant sequencing is heavily biased towards species from temperate regions and species with utilitarian values. An expansion of efforts to include tropical...
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Marco Todesco @mtodesco.bsky.social · 12/08/2025
The Todesco lab at MSL UBC is looking for a Research Tech to help us run the lab and do fancy science! Good wet lab skills and enthusiasm for plant research are required, experience with genomics and bioinformatics is a plus. See ad below, please spread the voice! 🧬🌻🧪🌱🔬🧫 tinyurl.com/5bnfyadw
ubc.wd10.myworkdayjobs.com
Research Assistant/Technician 3
Staff - Non Union Job Category Non Union Technicians and Research Assistants Job Profile Non Union Salaried - Research Assistant /Technician 3 Job Title Research Assistant/Technician 3 Department Rese...
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Chris Smith @chriscrsmith.bsky.social · 11/08/2025
Hello bluesky community! I'm hiring a postdoc to do machine learning in population genetics. Starting to build up a lab at Indiana University Bloomington where I just started a faculty position. Apply with the below link: indiana.peopleadmin.com/postings/30325
indiana.peopleadmin.com
Postdoctoral Research Fellow
The department of Biology is a large, unified department with strong undergraduate degrees, nationally-ranked graduate programs, and world-class research spanning the breadth of biological questions a...
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Stacey D. Smith @iochromaland.bsky.social · 11/08/2025
Big news! We are recruiting a postdoc to work on tomatillo evolution: jobs.colorado.edu/jobs/JobDeta.... The clade containing tomatillos and its allies (ca 300 spp) has evolved lantern fruits at least 25 times - we want to know why! Join us @rociodeanna.bsky.social & @caschenck-bio.bsky.social
jobs.colorado.edu
Postdoctoral Fellow in Tomatillo Evolution
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Tanja Slotte @tanjaslotte.bsky.social · 21/07/2025
The final version of our paper on the evolution of supergenes and mechanisms underlying distyly in Linum is now up at New Phytologist doi.org/10.1111/nph....
doi.org
Genomic studies in Linum shed light on the evolution of the distyly supergene and the molecular basis of convergent floral evolution
Distyly, an example of convergent evolution, is governed by a supergene, the S-locus, in several species. Recent studies highlight similar genomic architectures of independently evolved S-loci, but ...
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Ethan Linck @elinck.bsky.social · 11/06/2025
maybe my favorite paper I've written, I have a synthesis out today early access in @asn-amnat.bsky.social today that attempts to answer a simple but slippery question: what is an elevational range? doi.org/10.1086/737130
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Maureen Kearney @maureenmkearney.bsky.social · 31/05/2025
In case you couldn't bear to read all the way to the end (understandable), here is the proposed picture for the BIO Directorate.
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Joshua Weitz @joshuasweitz.bsky.social · 31/05/2025
How bad will it be? Catastrophic. Proposed cuts to #NSF, #NIH, and #NASA will set the US R&D landscape back 25 yrs+, cause economic and job loss now, and undermine innovations to come. But, this is the WH's *proposed* budget. Speak up now before it is too late. (inflation adjusted $-s below)
NSF, NASA and NIH budgets per year, inflation adjusted from 2000-2025 along with the proposed cuts. NSF includes research component only. Massive cuts across all sectors, well below support spanning 25 years.
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FrontRangeWildflowers @frwildflowers.bsky.social · 05/05/2025
Nine years ago today 🌿 Linum lewisii, our Lewis Flax, blooming on the Mesa Trail #nativeplants
Five petal blue flower with large white anthers
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Peter Innes @peterinnes1.bsky.social · 02/05/2025
Great writing from @elinck.bsky.social touching on the biological, philosophical, and legal questions surrounding “de-extinction” and the Endangered Species Act www.hcn.org/articles/de-...
hcn.org
‘De-extinction’ isn’t real, but the conservation questions it raises are - High Country News
In the age of gene editing, what does it mean to protect a species?
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Daniel Bolnick @danielbolnick.bsky.social · 02/05/2025
Upset about federal funding cuts in the US? Want some ideas of what to do? I wrote a long-ish blog post about it here ecoevoevoeco.blogspot.com summarizing things I learned meeting with Senate & House aides this week with the @aibsbiology.bsky.social Congressional Visits Day event.
ecoevoevoeco.blogspot.com
Eco-Evo Evo-Eco
Academic musing by Hendry, Bolnick, Gotanda, and awesome guests. Opinions and statements expressed on this blog are the views of the author(s) and do not necessarily represent endorsement by the blog...
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Patrick McKenzie @patrickmckenzie.bsky.social · 14/04/2025
Hot off the presses and so so thrilled. Thanks to @inaturalist.bsky.social + computer vision we found something beautifully simple: Red and orange flowers bloom later than all the other colors in the eastern United States. Paper here: authors.elsevier.com/a/1kwzh3QW8S...
Visual abstract: “we test hypotheses about floral diversity with community science data and an advanced computer vision model. Red/orange flowers have delayed flowering that matches hummingbird migratory patterns”
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Marco Todesco @mtodesco.bsky.social · 03/04/2025
Oh, but fortunately there is this handy News and Views that makes everything clear! 🌻🫄 @ubcbotany.bsky.social rdcu.be/ef9aW
nature.com
Sunflower ‘virgin births’ enable accelerated crop breeding
The discovery that sunflower seeds can develop without fertilization reveals a pathway to accelerate improvement of this crop — and potentially others.
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Matt Carling @mdcarling.bsky.social · 31/01/2025
Some additional #NSF thoughts. As always, these thoughts are mine alone. But here goes, It seems the damage this situation has already caused to the research enterprise in the US may be catastrophic (and irreparable?).
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Dr. Sarah Carey @scarey.bsky.social · 12/12/2024
It's been a busy year! The second thing I'd like to share is our is our pre-print on the evolution of the exquisitely cool Cannabaceae sex chromosomes! www.biorxiv.org/content/10.1...
biorxiv.org
The evolution of heteromorphic sex chromosomes in plants
Ancient heteromorphic sex chromosomes are common in mammals, but not in plants. Sex chromosomes in the plant family Cannabaceae, which includes species like hops and hemp, were identified a century ag...
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