Seafood symposium today at @roslininstitute.bsky.social Bringing together researchers working on stuff that lives underwater 🌊🐟🦐🦪 with colleagues from across campus who don't know much about fish and aquaculture #onehealth #blueeconomy

Jilly MacKay@jillymackay.bsky.social · 4mo ago

hearing from @clemencefraslin.bsky.social on immunology I'm aquaculture - fascinating work

📢 New paper alert! If you're into pop gen 🧬🌍 and mussels you should check out this new paper by @ambrechap.bsky.social & @timreganlab.bsky.social With a 60K SNP array Ambre investigated populations structures between farmed Scottish, Irish and Brittish mussels www.sciencedirect.com/science/arti...

Patterns of introgression in farmed mussels: A genomic study of Mytilus spp. in northern Scotland and Ireland

Understanding genetic diversity and gene flow, both within and between mussel populations, can inform population fitness and support sustainable aquac…

sciencedirect.com

📢 New Preprint alert 📢 A long overdue study on what reference panel to use for optimal genotype imputation and genomic prediction from the #AquaImpact project In silico imputation from 500 SNPs to 45K SNPs in Atlantic salmon was tested using many scenarios 🧬 💻 🐟 🧪👩‍🔬 www.biorxiv.org/content/10.1...

Optimization of reference population for imputation of low-density SNPs panel for genomic prediction in Atlantic salmon.

In recent years many advances have been made towards developing cost-efficient low-density genomic tools for a wider implementation of genomic selection in aquaculture breeding programmes. Genotype im...

biorxiv.org

It's time to revive this account with a 📢 New Paper Alert! Delighted to see this manuscript on AGD in salmon Investigated Through a Holo‐Omic Lens from Eiríkur Thormar's time in Roslin a few years ago published in Ecology and Evolution onlinelibrary.wiley.com/doi/10.1002/...

Amoebic Gill Disease (AGD) in Atlantic Salmon Investigated Through a Holo‐Omic Lens

In this exploratory study, we integrated 16S rRNA profiling with quantitative genetics to examine the gill microbiota of Atlantic salmon during infection with Neoparamoeba perurans, the causative age...

onlinelibrary.wiley.com

And @salisburyfish.bsky.social wins first prize for the beat on oral communication! 🎉🎉 Well done Sarah ! #ISGAXV

As always the presentation by @salisburyfish.bsky.social was great! Using Single nuclei RNAseq data she identified genes that seems to explain why some salmonids (such as coho or pink) are resistant to sealice when others (Atlantic and chum) are susceptible

Day 4 at #ISGAXV starting with José M. Yáñez (Universidad de Chile) presenting the achievements and future perspectives of genetic improvement in salmonids (coho and Atlantic salmons and rainbow trout) in Chile. From SNP array development to implementation of genomic selection 🧬🖥️🐟

Day 3 of #ISGA. I did not report in all the talks of yesterday. They were all super good I'll try to summarise a few here today but since everything is highly relevant I'm struggling to multitask... Today's plenary was an overview of oyster production and selection in France by Romain Morvezen

Really cool presentation at #ISGAXV from Batya Dorfman on disentangling the component of disease resistance (susceptibility transmissibility and survival) of Cyprind fish species to CyHV-3. They looks at infection response in multiple challenge models with 5 carps species

The Genetics and genomic of diseases session is going strong at #ISGAXV 🦐🐟🦪🧬🖥️ We heard from Duwage C.G. Rodrigo (Jeju Uni, Korea) about resistance to M avidus in olive flounders. Polygenic + heritable = genomic selection to improve resistance in the population ✅

Day 2 of #ISGAXV, in the plenary Anna Sonesson from Nofima (Norway) gave us her insights on how to design breeding programmes to integrate gene editing. GE is a very promising tool to increase disease resistance when the causal gene is known, to quickly fix a favourable allele in the population 🧬🐟

Have you heard about IPNv and salmonids? Maybe you know that there is a major QTL that was identified in A. Salmon in 2008/2009... Well this time there is major QTLs identified in rainbow trout for the same disease ! www.biorxiv.org/content/10.1...

Still at #ISGAXV and attending the last session of the day.🧬🖥️🐟🦪🦐 Earlier there was a presentation by Pierrick Haffray (SYSAAF) on accounting for molt stages in genetic evaluation of 🔵🦐. Showing that time to molt was heritable but molt stages wasn't in their dataset (late measurement)

Back from lunch at #ISGAXV and it's time for quantitative genetics and breeding 🧬🖥️ and we started with Cécile Massault presenting her model that captures the additive genetic host-donor interaction in pearl oyster, looking at incorporating it in breeding programme for pearl size 🦪

Disease resistance is key to sustainable aquaculture and increased animal welfare. In his talk today at #ISGAXV Zhi Weng (Tropical futures institute, James Cook uni) showed that barramundi resistance to SDDV is heritable and can be increasing, in field, through selection using controlled challenge

Does integrating functional annotation data in genomic prediction models improve the accuracy of the prediction? In livestock it depends on the trait, the species, and the type of functional data... With mixed results. We're more and more interested in testing this in aqua species #ISGAXV 🧬🖥️ 🐟

Back after coffee at #ISGAXV and another talk on feed efficiency, by Prof Peng Xu from Xiamen University. Using feeding stations inspired by the dry livestock world they developed an automatic real time model to measure individual feed intake in tanks and managed to improve FCR 🧬🖥️🐟

The final talk at #ISGAXV before the coffee break was about rocks, oh no sorry, oysters! Rodrigo Marín-Nahuelpi on assessing the genetic architecture and GS for growth related traits in eastern oyster 🦪 (C. virginica) A frist study in this population from Canada.

Very good presentation of Zhi Ye from Ocean University of China on using histone modifications markers to improve the accuracy of genomic selection in white leg shrimps. Using a BayesA model and SNPs located in histone modifications regions they improved GS accuracy by 5-7% compared to random SNP

Bing Liang from Tropical Futures Institute and James Cook University (Singapore) showed that for an optimal genomic selection for harvest traits in Malabar red snapper we need 5000 SNP and between 1200 and 1600 fish in the reference population. BayesR performed better than GBLUP for some traits

Now at #ISGAXV it's the Genomic selection section, with a first talk from @marc-vdp-inrae.bsky.social presenting their results of selecting for feed efficiency in European sea bass. Starting with the individual recording of FCR and DGC in their cool "single fish per aquarium" system in Palavas

Good morning from Cadiz and from the #ISGAXV The conference started yesterday with a nice reception and it's great to see so many familiar faces and catch up with friends! Today is the first day of the official business: talking about aquaculture, genetics and genomics 🧪 🐟 🖥️🧬

I'm in Spain to attend #ISGA next week in Cadiz. Taking the time to visit Seville y Cordoba before a week of presentations and discussions on genomics in aquaculture. Excited to be here! I'll be reporting talks on this account, so hang around if you wanna know more. For now I'm enjoying the sun! ☀️

New paper alert 🧬💻🐟 We finaly got our follow up study on fine mapping of QTL associated with spontaneous malness in XX-rainbow trout out in PlosOne! Check it out: dx.plos.org/10.1371/jour... It's a much improved version of the preprint (thanks to reviewers and editors and to Florence Phocas (INRAe)

I've just checked the programme of a symposium that I am attending in 2 weeks #ISGAXV. As usual with ISGA, the talks are super promissing with really good speakers and I'm expecting high quality presentations! HOWEVER (and that is a big however) we are a long long way from gender balance... 🙄 👩‍🔬

📢 A really great study by Dr Robert Mukiibi and colleagues from #AQUAFAANG on seabass resistance to VNN virus: bmcbiol.biomedcentral.com/articles/10.... Using multi-omics approached they detected a major QTL and identified causative mutations in the promoter regions of IFI27L2A genes! 🧬💻 🐟 🧪

Integrated functional genomic analysis identifies regulatory variants underlying a major QTL for disease resistance in European sea bass - BMC Biology

Background Viral nervous necrosis (VNN) is an important viral disease threatening global aquaculture sustainability and affecting over 50 farmed and ecologically important fish species. A major QTL fo...

bmcbiol.biomedcentral.com

Working on my first teaching material and getting inspiration from my courses back in AgroParisTech... Things moved fast in 10 years but the breeders equation is still the root of it all! 👩🏻‍🔬🐟 I need to find jokes that translate in English, not sure they know who Le Capitaine Haddock is... 🧬🖥️

📢 New preprint alert! In 2022 Eirikus Thormar visited our group at @roslininstitute.bsky.social to work on host genetic and microbiota interaction in an disease context (AGD) in Atlantic salmon. This manuscript is the result of his visit, exciting to see it out 🧬💻 🐟 🧪 www.biorxiv.org/content/10.1...

Amoebic gill disease (AGD) in Atlantic salmon investigated through a holo-omic lens

Interactions between host genetics and the resident microbiota are complex. Understanding these interactions offers interesting alternatives for addressing gill health and disease resistance in salmon...

biorxiv.org

📢 Check out our new study on genetic background of ammonia stress tolerance in fugu 🐡 www.sciencedirect.com/science/arti... We investigated the genetic architecture of tolerance and showed that we can breed for this trait in aquaculture system for more sustainable production! 🧬💻 #GWAS #breeding 🧪

First genome-wide association and genomic prediction of ammonia‑nitrogen tolerance in tiger pufferfish (Takifugu rubripes)

Ammonia‑nitrogen stress is a significant threat to the growth and survival of tiger pufferfish (Takifugu rubripes), especially in high-density stockin…

sciencedirect.com

📺 On Tuesday Dr @cammybeyts.bsky.social spoke with us on "Behavioural ecology meets animal breeding: behavioural and genetic drivers of chick production in farmed Pekin ducks". If you missed it, you can watch it on our YouTube channel: youtu.be/hDp5dZPatVI 🐣🧬💻👩‍🔬🧪

Cammy Beyts: Behavioural ecology meets animal breeding: chick production in farmed Pekin ducks

YouTube video by CGDG - Computational Genetics Discussion Group

youtu.be