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Corey Holt

@coreyholt.bsky.social

Lecturer (Assistant Prof) at the University of Bath. Exploring all things microbiomes and protist diversity/evolution. πŸ§¬πŸ”¬πŸ¦€ https://theholtlab.com

390 Followers  |  445 Following  |  57 Posts  |  Joined: 06.02.2024
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Posts by Corey Holt (@coreyholt.bsky.social)


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We’re recruiting new Research Group Leaders!
We offer:
πŸ”¬ Core funding
πŸ’» Access to world-leading infrastructure
πŸ‘©πŸ½β€πŸ”¬A network of world-leading scientists
…and much more.
Apply by 11 April: embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
#ResearchCareers #Bioinformatics @timcoorens.bsky.social @embl.org

25.02.2026 10:24 β€” πŸ‘ 20    πŸ” 20    πŸ’¬ 0    πŸ“Œ 1

🀩 Woahhh! Sounds like a blast! Not to be missed!

26.02.2026 22:48 β€” πŸ‘ 2    πŸ” 1    πŸ’¬ 0    πŸ“Œ 0
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Phylogenomic tree of Cercozoa based on single-cell transcriptomes from 100 uncultured cells - BMC Biology Background Cercozoa are single-celled eukaryotes (protists) and are part of the supergroup Rhizaria. Cercozoans have vastly different morphologies and are defined by their phylogenetic affinity. While...

Great to see this paper in all its glory online: link.springer.com/article/10.1...

A huge effort from Gordon and the team at @pjkeelinglab.bsky.social!

Phylogenomic tree of Cercozoa based on single-cell transcriptomes from 100 uncultured cells

@ubcbotany.bsky.social @science.ubc.ca

26.02.2026 10:38 β€” πŸ‘ 25    πŸ” 11    πŸ’¬ 0    πŸ“Œ 2
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Be part of OMGN! Open to all researchers with an interest in oomycetes, from molecular genetics & genomics to biology, population biology, and ecology, at either an experimental or a computational level. Investigators new to the field are always welcome oomycetes.com

25.02.2026 20:06 β€” πŸ‘ 25    πŸ” 26    πŸ’¬ 1    πŸ“Œ 2
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Some more generative aRt for your eyeballs. You'll have to imagine the birdsong...
🌷geom_meadow

24.02.2026 21:33 β€” πŸ‘ 3    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

Have a novel protist's genome or transcriptome and want to predict it's mitochondrial proteome? Look no further than CoMR, this handy bioinformatic workflow to help you: www.biorxiv.org/content/10.6... #phylogenetics

23.02.2026 17:06 β€” πŸ‘ 18    πŸ” 11    πŸ’¬ 0    πŸ“Œ 0
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Postdoctoral Research Associate at University of Bath Searching for an academic job? Explore this Postdoctoral Research Associate opening on jobs.ac.uk! Click to view more details and browse other academic jobs.

New postdoc position available in the Tooke lab in our department. Perfect if you like molecular microbiology, structural biology and biochemistry!
www.jobs.ac.uk/job/DQP592/p...

24.02.2026 09:01 β€” πŸ‘ 3    πŸ” 6    πŸ’¬ 0    πŸ“Œ 0

πŸ—£οΈProtist friends! I'm looking to put together a list of key protistology resources for new students joining the lab. What are some of your favourite papers???
πŸ§ͺ #protistsonsky

16.02.2026 14:46 β€” πŸ‘ 9    πŸ” 5    πŸ’¬ 3    πŸ“Œ 0
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How specific are heritable symbioses?

And what can we learn from swapping obligate symbionts across host species?

We address this in our latest, led by @inespons.bsky.social & in our collaboration w/ @microbiome.bsky.social 🦠πŸͺ² Out today in @natcomms.nature.com!

1/n
www.nature.com/articles/s41...

16.02.2026 07:24 β€” πŸ‘ 108    πŸ” 69    πŸ’¬ 3    πŸ“Œ 3
Computational and experimental microbiomics The critical contribution of microbiota to animal, plant and environmental health is now widely accepted. Progress has been driven by two parallel approaches: in silico analyses of large -omics data …

Applications are now open for our EMBO Practical Course in Computational and Experimental Microbiomics! πŸ§«πŸ”¬πŸ–₯️

meetings.embo.org/event/26-mic...

Come learn a mix of computational and experimental microbiome techniques from 6-8th July in beautiful Bath, UK!

Registration Deadline: 11 May 2026

11.02.2026 09:53 β€” πŸ‘ 5    πŸ” 5    πŸ’¬ 0    πŸ“Œ 0
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Addressing pandemic-wide systematic errors in the SARS-CoV-2 phylogeny - Nature Methods This Resource paper presents a global SARS-CoV-2 phylogenetic tree of 4,471,579 high-quality genomes consistently constructed by Viridian, an efficient amplicon-aware assembler.

A long time ago in a galaxy far away, there was a SARS-CoV-2 pandemic. Our paper, led by @martibartfast.bsky.social
a) correcting errors in 4.5 million genomes & their phylogeny
b) improving representation of the Global South in public data
www.nature.com/articles/s41...
(thread 1/n)

09.02.2026 15:16 β€” πŸ‘ 135    πŸ” 65    πŸ’¬ 3    πŸ“Œ 6
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Spatial Proteomics Workshop for Protists

(see more in thread below)

Registration
Early Bird Monday 22nd June 2026.
Regular Monday 10th August 2026.
There will be a conference dinner on day 1. To register visit protistology.org.uk/autumn-meeti...

06.02.2026 18:11 β€” πŸ‘ 25    πŸ” 17    πŸ’¬ 1    πŸ“Œ 0

πŸ˜‚

06.02.2026 17:02 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

🫣

06.02.2026 16:43 β€” πŸ‘ 5    πŸ” 0    πŸ’¬ 1    πŸ“Œ 0
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(CODE M) How do Division of Labour and Gene Mobility Impact Microbial Bioremediation? at The University of Manchester on FindAPhD.com PhD Project - (CODE M) How do Division of Labour and Gene Mobility Impact Microbial Bioremediation? at The University of Manchester, listed on FindAPhD.com

Exciting new PhD programme CODE-M Control and Design of Engineered Microbial Systems @officialuom.bsky.social Projects now advertised!

Ours is on division of labour & horizontal gene transfer in microbial communities @biotechdixon.bsky.social @coytelab.bsky.social

www.findaphd.com/phds/project...

06.02.2026 14:04 β€” πŸ‘ 11    πŸ” 12    πŸ’¬ 0    πŸ“Œ 2
'Research Associate in Microbiome Ecology:Manchester We wish to appoint a PostDoctoral Research Associate to an exciting project exploring the assembly, stability and function of microbial decomposer communities.

New PDRA position with @knightjar.bsky.social @coytelab.bsky.social & me

Community assembly processes in soil microbiomes with focus on bioinformatics and computational modelling of data from field and lab experiments

www.jobs.manchester.ac.uk/Job/JobDetai...

06.02.2026 14:07 β€” πŸ‘ 10    πŸ” 20    πŸ’¬ 0    πŸ“Œ 0
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A Practical Approach to Study Uncultivated Protists Using Single‐Cell Techniques for Electron Microscopy Protists represent a significant portion of eukaryotic diversity with a wide range of ecological roles, lifestyles, and diverse morphological traits. Despite their widespread importance in ecological...

A great resource from Maia and friends! onlinelibrary.wiley.com/doi/10.1111/...

03.02.2026 07:50 β€” πŸ‘ 5    πŸ” 4    πŸ’¬ 0    πŸ“Œ 1
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Comparative Genomics of Unicellular Eukaryotes (San Feliu, Spain):
Abstract submission is open, with a short deadline! comparativegenomics2026.com

Join us as we explore the most diverse, surprising, and still largely uncharted branches of the eukaryotic tree.

02.02.2026 18:49 β€” πŸ‘ 20    πŸ” 12    πŸ’¬ 0    πŸ“Œ 1

The project is part of the NERC @redalertcdt.bsky.social , which brings together biologists, chemists, and engineers across academia, government, and the private sector to train the next generation of scientists working to protect animal, human, and environmental health.

@cwbe.bsky.social

13.01.2026 14:07 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

In collaboration with @ukceh.bsky.social and @cefasgovuk.bsky.social , the project will explore quantitative imaging approaches like the PlanktoScope (see image) and how they can support more conventional, sequence-based biodiversity assessments (i.e., metabarcoding).

13.01.2026 14:07 β€” πŸ‘ 0    πŸ” 0    πŸ’¬ 1    πŸ“Œ 0
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If you're interested in biodiversity in freshwater ecosystems, there's just a few days to apply for our PhD project: Ecological Surveillance using High-Throughput Quantitative Imaging at @uniofbath.bsky.social .

Deadline: January 16th!
Apply: is.gd/svXBcr

Image: www.planktoscope.org/how-it-works

13.01.2026 14:07 β€” πŸ‘ 14    πŸ” 9    πŸ’¬ 1    πŸ“Œ 0
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DDLS Research School Postdoc call 2026 Call for Academic and Industrial Postdoctoral Fellowships in Data-Driven Life Science 2026 Generic Description of the DDLS Postdoc Program The SciLifeLab and Wallenberg National Program for Data-Drive...

New postdoc funding opportunity in Sweden! If you're interested in applying for this 'Data-Driven Life Sciences' fellowship, please get in touch, we'd be happy to host and help with the application (and talk options beyond the 2-year position). www.scilifelab.se/data-driven/...

13.01.2026 13:32 β€” πŸ‘ 6    πŸ” 6    πŸ’¬ 0    πŸ“Œ 0
Poster of the EM course in Naples with marine samples. The Electron Microscopy Hands-On Course: sample preparation and imaging of marine environmental samples arises from a very strong and active collaboration between the Stazione Zoologica Anton Dohrn and the EMBL in Heidelberg.
The aim of the course is to provide a theoretical and practical training on electron microscopy starting from the basics to the preparation of samples with high pressure freezing and image acquisition using TEM and SEM.

Poster of the EM course in Naples with marine samples. The Electron Microscopy Hands-On Course: sample preparation and imaging of marine environmental samples arises from a very strong and active collaboration between the Stazione Zoologica Anton Dohrn and the EMBL in Heidelberg. The aim of the course is to provide a theoretical and practical training on electron microscopy starting from the basics to the preparation of samples with high pressure freezing and image acquisition using TEM and SEM.

If you are interested in electron microscopy, registration is still open for the

"Electron Microscopy Hands-On Course: sample preparation and imaging of marine environmental samples"

at Stazione Zoologica in Naples.

WIth great teachers from Naples […]

[Original post on biologists.social]

13.01.2026 07:07 β€” πŸ‘ 31    πŸ” 32    πŸ’¬ 0    πŸ“Œ 1
Identification of a deep-branching lineage of algae using environmental plastid genomes - Nature Communications Here, the authors leverage data from the Tara Oceans expeditions to perform a phylogeny-guided plastid genome-resolved metagenomic survey and provide 660 non-redundant plastid genomes from marine alga...

Just on time for the holidays! Happy to share the published version of the discovery of leptophytes, a new deep-branching and widespread group of microalgae based on plastid MAGs (ptMAGs). Now with additional support from a mitochondrial MAG (mtMAG) of leptophytes.
www.nature.com/articles/s41...

18.12.2025 09:48 β€” πŸ‘ 59    πŸ” 24    πŸ’¬ 2    πŸ“Œ 1

Great conference! Would definitely recommend!

15.12.2025 10:08 β€” πŸ‘ 2    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0

Those interested in performing maximum likelihood phylogenomic analysis on data sets made up of eukaryotic nuclear genes using site heterogeneous mixture models like C60, I suggest you use the ELM model in IQ-TREE instead of the LG model /1

09.12.2025 18:30 β€” πŸ‘ 16    πŸ” 12    πŸ’¬ 1    πŸ“Œ 1
Four opportunities to join the Holt lab New PhD projects for October 2026

Apologies! theholtlab.com/posts/ln5-21...

24.11.2025 18:17 β€” πŸ‘ 1    πŸ” 0    πŸ’¬ 0    πŸ“Œ 0
Bath city centre

Bath city centre

Pulteney weir in Bath

Pulteney weir in Bath

Bath city centre

Bath city centre

Bath cathedral

Bath cathedral

πŸŽ‰ There are currently 4 opportunities to join the Holt lab in beautiful Bath! πŸŽ‰

If you're interested in protists, parasites, and/or biodiversity then please check out our website:
theholtlab.com/posts/ln5-21...

🚨 Deadlines vary between project.
βœ‰οΈ Please reach out if you have any questions!

24.11.2025 14:30 β€” πŸ‘ 15    πŸ” 12    πŸ’¬ 1    πŸ“Œ 0
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We have a date for the free-to-attend #anvio workshop and ECR Symposium for 2026, and we look forward to meeting you at the @hifmb.de in Oldenburg, Germany!

Please find more information on the venue, program, and the application form here, and spread the word πŸ˜‡

anvio.org/workshops/20...

20.11.2025 18:42 β€” πŸ‘ 27    πŸ” 25    πŸ’¬ 1    πŸ“Œ 1