BenNicholson (@Ben_C_Nicholson) profile picture

BenNicholson

@Ben_C_Nicholson
Joined April 2016
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Photo by BenNicholson (@Ben_C_Nicholson)Photo by BenNicholson (@Ben_C_Nicholson)
📢Come work with us at EMBL Rome! If you're a student looking to get hands-on experience in epigenetics / CRISPR / oocytes, we've got you covered! ✉️Email or DM me or @hackettlab
Jamie Hackett (@hackettlab) profile pictureJamie Hackett@hackettlab4 Dec 2023
📢Come to Rome to work with CRISPR, oocytes and chromatin! ...we are looking for an intern or masters student for an exciting project 🧬🥚 Full training given & stipend available. DM or email me.
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To control transposable elements, fruit flies rely on piRNA clusters. Here, van Lopik et al. identify new piRNA clusters across Drosophila species with a specialised role in the control of endogenous retroviruses. @CRUK_CI @sus_bo @Ben_C_Nicholson nature.com/articles/s41467-0…
Unistrand piRNA clusters are an evolutionarily conserved mechanism to suppress endogenous retrovi...

Unistrand piRNA clusters are an evolutionarily conserved mechanism to suppress endogenous retrovi...

Nature Communications - To control transposable elements, fruit flies rely on distinct genomic regions called piRNA clusters. Here, new piRNA clusters were identified across diverse Drosophila...

nature.com
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We have some very exciting projects on mechanisms of DNA repair in the lab! Come join our team 🧬!
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Finally out! rdcu.be/dqZl4 Checkout our latest research! Big shout to the team, Jasper, @sus_bo et al!
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We are hiring TWO core-funded group leaders! Each position comes with a flexible start-up package: 👩‍🔬2 postdocs and a technician 🧑‍🎓2 PhD students 🔬budgets for our state-of-the-art core facilities. Ready to join our community of exceptional researchers? cruk.cam.ac.uk/jobs-and-stud…
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I'm excited to share our paper on repetitive elements in hundreds of insects just out in @genomeresearch 😀 genome.org/cgi/doi/10.1101/g…
Image from John Sproul (@John_S_Sproul)
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Excited about epigenetics, small RNAs and transposons? Join the Hannon lab piRNA team @Cambridge_Uni and @CRUK_CI ! We are looking to recruit postdocs and staff scientists interested in studying the molecular mechanisms of small RNA-mediated chromatin silencing.
Image from BenNicholson (@Ben_C_Nicholson)
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Interested in transposons, RNA and chromatin biology? Less than a week left to apply to join us as staff scientist/senior postdoc!
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🚨New preprint🚨 Here we reveal rapid promoter evolution and divergent expression of germline piRNA factors, likely affecting transposon silencing for fast-tracked speciation! Check it out here: biorxiv.org/content/10.1101/… #evobio #piRNA @BCGB_UoB @Impact_Aim_Mrc @UoBbiosciences
Promoters of germline transposon silencing genes evolve rapidly accompanied by diverging gene...

Promoters of germline transposon silencing genes evolve rapidly accompanied by diverging gene...

Background The piRNA pathway in animal gonads functions as an ‘RNA-based immune system’, serving to silence transposable elements and prevent inheritance of novel invaders. In Drosophila , this...

biorxiv.org
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Maternally inherited siRNAs initiate piRNA cluster formation dlvr.it/SyLtwv
Image from Molecular Cell (@MolecularCell)
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🚨x2: We are also 👀 for a #bioinformagician to drive our #PDAC #CAF projects! Extensive bioinformatics expertise in RNAseq, scRNAseq and/or spatial transcriptomics + an interest in our research are a must. Being nice also a must! Please RT 🤩 👇🏼👇🏼👇🏼 jobs.cam.ac.uk/job/43364/
Giulia Biffi (@BiffiGiulia) profile pictureGiulia Biffi@BiffiGiulia10 Oct 2023
🚨We are 👀 for a #postdoc to join our #CANCAN ⁦@CancerGrand⁩ team to 🛑 #cachexia @CRUK_CI⁩ ⁦@CRUKCamPancCan⁩⁩. #MouseModel & #PancreaticCancer experience + #ComputationalSkills are highly desirable. Being nice is a must 😊 Please RT 👇🏼 jobs.cam.ac.uk/job/43299/
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📢 Work with me @Cambridge_Uni @CRUK_CI 📢 Comparative genomics and bioinformatics (postdoc) jobs.cam.ac.uk/job/42842/ 🪰💻🧑‍🔬 Ideally a mixed wet- and dry-lab position, but please apply regardless if the project suits you! Closing Date 19 October Please RT
Image from Susanne Bornelöv (@sus_bo)
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Please get in touch if interested or directly apply here: Postdoc (closing 6th November): jobs.cam.ac.uk/job/43270/ Senior Staff Scientist (closing 12th November): jobs.cam.ac.uk/job/43362/ Senior Bioinformatician (closing 20th October): jobs.cam.ac.uk/job/42811/
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I would like to thank Greg Hannon and Ben Nicholson and everyone else that has been supporting me in the application process. If you want to learn more, please reach out or visit my new website: sblab.uk 3/3
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BenNicholson retweeted
Susanne Bornelöv (@sus_bo) profile picture
Susanne Bornelöv@sus_bo2 Mar 2023
Huge shoutout to everyone involved in this project, including Jasper van Lopik, Maria-Anna Trapotsi, Greg Hannon, and @Ben_C_Nicholson. 7/7
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BenNicholson retweeted
Susanne Bornelöv (@sus_bo) profile picture
Susanne Bornelöv@sus_bo2 Mar 2023
Scanning all genomes for regions enriched in LTR transposons with strong strand bias, we found at least four additional non-syntenic flam-like clusters (flamlike2-flamlike5) in widely different species. These all appear to control Gypsy-family transposons with an env gene. 5/7
Image from Susanne Bornelöv (@sus_bo)
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BenNicholson retweeted
Susanne Bornelöv (@sus_bo) profile picture
Susanne Bornelöv@sus_bo2 Mar 2023
Unexpectedly, we found a dual-strand cluster at the flam-syntenic region in D ficusphila and a 575 kb flam-like unistrand cluster (flamlike1) elsewhere in the genome. This supports the idea that unistrand piRNA clusters have emerged repeatedly and independently. 4/7
Image from Susanne Bornelöv (@sus_bo)
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BenNicholson retweeted
Susanne Bornelöv (@sus_bo) profile picture
Susanne Bornelöv@sus_bo2 Mar 2023
Using synteny analysis, we found that flam conservation extends into the suzukii and takahashii subgroups (diverged 13.3 million years ago). However, flam is clearly absent in D ficusphila, as well as in the elegans and rhopaloa subgroups (15.1 MYA). 3/7
Image from Susanne Bornelöv (@sus_bo)
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BenNicholson retweeted
Susanne Bornelöv (@sus_bo) profile picture
Susanne Bornelöv@sus_bo2 Mar 2023
We studied 193 genomes (massive thanks to @Bernard_Y_Kim and others for releasing these) spanning 119 Drosophilid species and found that Gypsy transposons are present across all Drosophila species and likely kept their ability to mobilise from ovarian somatic follicle cells. 2/7
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BenNicholson retweeted
Susanne Bornelöv (@sus_bo) profile picture
Susanne Bornelöv@sus_bo2 Mar 2023
For several species, we profiled soma-enriched and total ovary piRNAs. Our data confirm that these clusters produce highly abundant piRNAs against Gypsy-family transposons in somatic cells. Thus, this somatic function of the piRNA pathway is widely conserved in Drosophila. 6/7
Image from Susanne Bornelöv (@sus_bo)
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