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Andrew Millard

@milja001.bsky.social
754 followers 159 following 24 posts

phage, genomes & random news items. All views my own millardlab.org

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Reposted by Andrew Millard
bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 10/04/2026
Who Infects Whom? Exploiting Bacterial Minicells for Targeted Virome Enrichment and Phage-Host Interaction Analysis through an Integrated Metagenomic Approach www.biorxiv.org/content/10.64898/20…
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Professor Lesley Hoyles @bugsinyourguts.bsky.social · 13/09/2025
If you are UK-based and working on any aspect of microbiomes (human, plant, insect, soil, animal, ...), please do sign up to Microbiome-Net for details of networking, funding and training opportunities. forms.office.com/pages/respon...
forms.office.com
Microsoft Forms
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Andrew Millard @milja001.bsky.social · 25/08/2025
Got an email to say your manuscript had failed manuscripts checks as the corresponding author email was missing and is required ... I am the corresponding author 🤔..
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Andrew Millard @milja001.bsky.social · 11/08/2025
After a busy period , @ryancook94.bsky.social and I have have updated links to latest INPHARED dataset. With 37.5K genomes now. If some "iffy" genomes have got thought the automated and then out manual filters. Let us know the accession numbers so we can exclude millardlab.org/bacteriophage-…
millardlab.org
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Lucy Evans 🧫🦠👩🏻‍🔬 @biolucy.bsky.social · 31/05/2025
Submitted my first set of annual review stuff for my PhD (yes I started end of September but the annual review is due 1st June) and looking back on the past 8 months... Wow I have grown into even more of a badass girlie 😎🧪 #phd #microsky
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Adam Blanchard @addyblanch.bsky.social · 30/05/2025
New preprint up on the changes in the bovine virome though different life stages led by @milja001.bsky.social @ryancook94.bsky.social www.biorxiv.org/content/10.1...
biorxiv.org
Life-Stage Transitions Drive Distinct Gut Viral Communities in Dairy Cattle
Ruminant gut microbial communities profoundly influence host health and environmental impacts, yet their viral components remain poorly characterised across developmental transitions. Here, we analyse...
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Reposted by Andrew Millard
Ryan Cook @ryancook94.bsky.social · 25/05/2025
This is probably my last piece of work from my @medresfdn.bsky.social funded PhD at @uniofnottingham.bsky.social (thanks for all the support over the years!). Contributions from @milja001.bsky.social @evelienadri.bsky.social (and many others not yet on Bluesky) 13/13
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Ryan Cook @ryancook94.bsky.social · 25/05/2025
The dairy cow gut virome is a dynamic ecosystem that could be an under-studied player in sustainable agriculture 🔑 Preprint: www.biorxiv.org/content/10.1... #Microbiome #Virome #ClimateScience #Agriculture #Dairy #Cows #Methanogens 12/13
biorxiv.org
Life-Stage Transitions Drive Distinct Gut Viral Communities in Dairy Cattle
Ruminant gut microbial communities profoundly influence host health and environmental impacts, yet their viral components remain poorly characterised across developmental transitions. Here, we analyse...
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Reposted by Andrew Millard
Ryan Cook @ryancook94.bsky.social · 25/05/2025
1,338 vOTUs were predicted complete. @milja001.bsky.social and I agreed to manually inspect the annotations of every single one. I started at the top, he started at the bottom (I think he only did 50 though despite agreeing to do half 💁‍♂️). All of them looked viral in origin, and most were novel 4/13
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Ryan Cook @ryancook94.bsky.social · 25/05/2025
We profiled the faecal virome of dairy cows across key life stages with ultra-deep Nanopore and Illumina sequencing 🐮 We recovered over 30,000 vOTUs (approximate to species), and included shallow bulk metagenomes for each sample to place the viruses within the context of their microbial hosts 3/13
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Ryan Cook @ryancook94.bsky.social · 25/05/2025
Why does this matter? Dairy cows = 265 million worldwide, huge importance in food production and greenhouse gas emissions. Yet we know very little about their gut viral communities across key life stages 🐄 2/13
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Ryan Cook @ryancook94.bsky.social · 25/05/2025
🧬🐄 NEW PREPRINT: Really happy to finally share the last big piece of work from my PhD! Spoiler: Cows are great and so are their viromes 🧵1/13 www.biorxiv.org/content/10.1...
biorxiv.org
Life-Stage Transitions Drive Distinct Gut Viral Communities in Dairy Cattle
Ruminant gut microbial communities profoundly influence host health and environmental impacts, yet their viral components remain poorly characterised across developmental transitions. Here, we analyse...
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Andrew Millard @milja001.bsky.social · 16/05/2025
Interested in phages ? Want to work as team that will isolate, genome sequence and charachterise 1000s of phage to build a biobank . Come work with me and Martha Clokie at Leicester jobs.le.ac.uk/vacancies/va...
jobs.le.ac.uk
Vacancy Search Results - University of Leicester Recruitment Team
View our Latest Vacancies
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Andrew Millard @milja001.bsky.social · 11/05/2025
Take away coffees are served differently in Vietnam..bit fancier than standard Costa slop ,😁
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Andrew Millard @milja001.bsky.social · 07/05/2025
www.biorxiv.org/content/10.1... Searching for lytic phages in bacterial genome assemblies ..!
biorxiv.org
Hidden in plain sight: Bacterial genomes reveal thousands of lytic phages with therapeutic potential
Phages are typically classified as temperate, integrating into host genomes, or lytic, replicating and killing bacteria. Lytic phages are not expected in bacterial genome sequences, yet our analysis o...
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Andrew Millard @milja001.bsky.social · 15/04/2025
We @ryancook94.bsky.social , updated number of phage genomes we can find in NCBI .... Took longer than it should to do this months ... millardlab.org/home/bacteriop…
millardlab.org
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Antonia Sagona @antoniasagona.bsky.social · 02/04/2025
Many congratulations to Mickey @mickey-tad.bsky.social for successfully defending his viva today!! My warmest thanks to Andy @milja001.bsky.social and Lona Alkhalaf for being his examiners and to @nezislab.bsky.social for serving as Exam Advisor! @warwicklifesci.bsky.social @albertilab.bsky.social
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Branko Rihtman @cyanoney.bsky.social · 19/03/2025
Job claxon! Senior postdoc research associate position at the Becky Mayer Centre for Phage Research at the University of Leicester, working with @milja001.bsky.social and Martha Clokie. Brilliant opportunity! jobs.le.ac.uk/vacancies/11...
jobs.le.ac.uk
Senior Post Doctoral Research Associate– Protein Lead in Leicester | University of Leicester Recruitment Team
View details and apply for this Senior Post Doctoral Research Associate– Protein Lead vacancy in Leicester. You will lead an independent research project within the Becky Mayer Centre for Pha...
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Andrew Millard @milja001.bsky.social · 15/03/2025
taxMyPhage made Jans pick...in this month's Capsid and tail .. phage.directory ptax.ku.dk github.com/amillard/tax_m…
phage.directory
Phage Directory
Phage Directory curates a database of phage labs, phages, and host strains to advance research and phage therapy.
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Andrew Millard @milja001.bsky.social · 07/03/2025
we ( @ryancook94.bsky.social ) updated genomes in INPHARED millardlab.org/phage-genomes-… There are more genomes than last month! Shocker. Haven't had a chance to analyse yet
millardlab.org
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Andrew Millard @milja001.bsky.social · 01/03/2025
Great to have you involved @remidenise.bsky.social .might even meet in person at some point :-)
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Ellie Jameson @elliejameson.bsky.social · 20/02/2025
Phage taxonomy doesn’t have to be taxing, my latest cartoon for the Phage journal. To illustrate 𝘁𝗮𝘅𝗠𝘆𝗣𝗵𝗮𝗴𝗲 lnkd.in/dAXK4sSt @milja001.bsky.social
Black and white ink cartoon of a myovirus-like phage with eyes and eyebrows looking confused with “?!?” above its head. The page is hovering above a hexagonal child’s sorting toy with different shaped holes. On the front of the toy is a simple phylogenetic tree with shapes corresponding to the holes at the end of the branches
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Krishna Sanjay Chellappa @theks2k.bsky.social · 26/01/2025
Found a lot of use through phage genomics workshop hosted by @milja001.bsky.social and it was great learning so much from his genomic pipelines. Lots to learn for me in this field, and very complimentary to my work done in the labs (and scraping alpaca poop for phage isolations!)
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Ryan Cook @ryancook94.bsky.social · 03/01/2025
And I finally got round to updating the GitHub links... github.com/RyanCook94/i...
github.com
GitHub - RyanCook94/inphared: Providing up-to-date phage genome databases, metrics and useful input files for a number of bioinformatic pipelines.
Providing up-to-date phage genome databases, metrics and useful input files for a number of bioinformatic pipelines. - RyanCook94/inphared
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Ryan Cook @ryancook94.bsky.social · 06/12/2024
First update of the Bluesky era! #PhageSky
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Andrew Millard @milja001.bsky.social · 01/01/2025
New year ... new lot of genomes. With @ryancook94.bsky.social updated what we can find in Genbank millardlab.org/phage-genome-j… With entire set annotated with PHROGs millardlab-inphared.s3.climb.ac.uk/GenomesDB_Jan2…
millardlab.org
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Ryan Wick @rrwick.bsky.social · 31/12/2024
New year, new assemblies! I'm excited to announce Autocycler, my new tool for consensus assembly of long-read bacterial genomes! It's the successor to Trycycler, designed to be faster and less reliant on user intervention. Check it out: github.com/rrwick/Autoc... (1/5)
github.com
Home
A tool for generating consensus long-read assemblies for bacterial genomes - rrwick/Autocycler
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Julia Willett @jlewillett.bsky.social · 23/12/2024
Published just in time for the holidays! I learned so much while writing about the past, present, and future of E. faecalis research with Gary. Check it out! 🦠🧫🧪🔬 journals.asm.org/doi/10.1128/...
journals.asm.org
Insights into ecology, pathogenesis, and biofilm formation of Enterococcus faecalis from functional genomics | Microbiology and Molecular Biology Reviews
SUMMARYEnterococcus faecalis is a significant resident of the gastrointestinal tract of most animals, including humans. Although generally non-pathogenic in healthy hosts, this microbe is adept at the exploitation of compromises in host immune functions, ...
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Phage papers @phagepapers.bsky.social · 22/12/2024
Isolation, characterization, and genomic analysis of BUCT627: a lytic bacteriophage targeting Stenotrophomonas maltophilia. DOI: 10.1093/femsle/fnae076 pubmed.ncbi.nlm.nih.gov/39349986
pubmed.ncbi.nlm.nih.gov
Isolation, characterization, and genomic analysis of BUCT627: a lytic bacteriophage targeting Stenotrophomonas maltophilia - PubMed
Stenotrophomonas infections pose significant therapeutic challenges due to escalating resistance to antibiotics and chemotherapeutic agents. Phages offer a potential solution by virtue of their specific bacterial targeting capabilities. In this study, we isolated a new Stenotrophomonas bacteriophage …
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Andrew Millard @milja001.bsky.social · 19/12/2024
We are getting a new name and a £4 Million donation . Thanks to Jimmy Mayer, we will become the " Becky Mayer Centre for Phage Research " le.ac.uk/news/2024/de...
le.ac.uk
Pioneering centre receives £4 million boost | News | University of Leicester
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Andrew Millard @milja001.bsky.social · 06/12/2024
We ( @ryancook94.bsky.social ) updated number complete phage genomes we can find in Genbank. downloads and links on millardlab.org/phage-genomes-…
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Andrew Millard @milja001.bsky.social · 16/11/2024
We updated complete genomes we can find in Genbank . Big increase this month with lots of new Microviridae from what looks like a single study . All links on millardlab.org/phages-genomes… and github.com/RyanCook94/inp  to download latest data
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Paul Hoskisson 🧫 🦠🐸 @paulhoskisson.bsky.social · 05/04/2024
Two Post-Doc positions in my group in collaboration with Claudio Avignone-Rossa & GSK using #engineeringbiology to improve #sustainability of industrial #Streptomyces fermentations strathvacancies.engageats.co.uk/Vacancies/W/... pls RT-happy to chat MicrobioSoc conference next wk,reach out by email
strathvacancies.engageats.co.uk
Research Associates x 2 posts (606597)
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Bede Constantinides @bede.im · 23/01/2024
Hostile 1.0.0 released and live on Bioconda - Adds human genomes masked against bacteria, viruses and phage (thanks for phage genomes @milja001.bsky.social!) - Improved automatic index download - Improved genome masking - Bug fixes
github.com
GitHub - bede/hostile: Accurate host read removal
Accurate host read removal. Contribute to bede/hostile development by creating an account on GitHub.
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Professor Lesley Hoyles @bugsinyourguts.bsky.social · 03/12/2023
Christina Hazard gave us a great talk on this work a few weeks ago. Really nice study.
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Willem van Schaik @wvschaik.bsky.social · 28/11/2023
New PhD position in the MRC Doctoral Training Programme for an Oct 2024 start with @milja001.bsky.social and myself as supervisors. The gut phageome as a driver for microbiome dynamics in critically ill patients Scroll down on more.bham.ac.uk/mrc-aim/phd-... for details
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