#transposableelements — Public Fediverse posts

New publication out 🆕 📤

"No evidence of transposable element bursts in the Galápagos Scalesia adaptive radiation despite hybridization, diversification and ecological niche shifts"

https://mobilednajournal.biomedcentral.com/articles/10.1186/s13100-025-00362-z

🔍 Despite rapid speciation, niche shifts, & hybridization, we found no significant TE accumulation differences across species or hybrids.
🌵 Even in arid-adapted lineages—where genome downsizing may be expected—TEs didn’t decline.
#TransposableElements #Speciation #AdaptiveRadiation #Genomics

How tiny algae shaped the #evolution of giant clams https://phys.org/news/2025-01-tiny-algae-evolution-giant-clams.html https://www.nature.com/articles/s42003-024-07423-8

"T. maxima have evolved more genes for sensors to distinguish friendly #algae from harmful #bacteria, #viruses... it has tuned down some of its immune genes in a way that likely helps the #animals tolerate #microbes... As a result of the weakened #ImmuneSystem, its genome contains a large number of #TransposableElements left behind by viruses. These aspects highlight the tradeoffs of #symbiosis"

How tiny algae shaped the #evolution of giant clams https://phys.org/news/2025-01-tiny-algae-evolution-giant-clams.html https://www.nature.com/articles/s42003-024-07423-8

"T. maxima have evolved more genes for sensors to distinguish friendly #algae from harmful #bacteria, #viruses... it has tuned down some of its immune genes in a way that likely helps the #animals tolerate #microbes... As a result of the weakened #ImmuneSystem, its genome contains a large number of #TransposableElements left behind by viruses. These aspects highlight the tradeoffs of #symbiosis"

Where do new genes come from? @HassanZaman91 @barricklab &co show that within the timescale of the #LTEE experiment, the co-option of #promoters, mainly from #TransposableElements, serves as the major source of raw material for #DeNovoGenes #PLOSBiology https://plos.io/4a8p6DT

Where do new genes come from? @HassanZaman91 @barricklab &co show that within the timescale of the #LTEE experiment, the co-option of #promoters, mainly from #TransposableElements, serves as the major source of raw material for #DeNovoGenes #PLOSBiology https://plos.io/4a8p6DT

My paper just got accepted just before the end-of-the-year celebrations 🥳 Although modest, the story remains cool and promising for future investigations in the coming years!
I focused on how transposable elements behave while mouse fetal gonads differentiate as testes or ovaries.
https://www.frontiersin.org/articles/10.3389/fcell.2023.1327410
#TEs #TransposableElements #developmental_biology #SexDet #biology #bioinformatics #RStats

I can finally communicate about it! Here is my last preprint: https://www.biorxiv.org/content/10.1101/2023.10.23.563600v1
It is part of a collaborative project between my official lab from Tel-Aviv and my host lab in Montpellier. #SexDet #TransposableElements #stem #bioinformatics

I can finally communicate about it! Here is my last preprint: https://www.biorxiv.org/content/10.1101/2023.10.23.563600v1
It is part of a collaborative project between my official lab from Tel-Aviv and my host lab in Montpellier. #SexDet #TransposableElements #stem #bioinformatics

.@AnnaOsnato &co explore a #PLOSBiology study which reveals a previously undefined group of cells in the early human #embryo that diverges from the main lineages & undergoes apoptosis through the activity of young #TransposableElements https://plos.io/3CHIA45

.@AnnaOsnato &co explore a #PLOSBiology study which reveals a previously undefined group of cells in the early human #embryo that diverges from the main lineages & undergoes apoptosis through the activity of young #TransposableElements https://plos.io/3CHIA45

Many thanks to our incredible instructors (@clementgoubert and Valentina Peona) and this engaged group of attendees who made the Bioinformatic analysis of Transposable Elements course an absolute blast! 🌟👏
#Bioinformatics #TransposableElements #Genomics

Many thanks to our incredible instructors (@clementgoubert and Valentina Peona) and this engaged group of attendees who made the Bioinformatic analysis of Transposable Elements course an absolute blast! 🌟👏
#Bioinformatics #TransposableElements #Genomics

🎉We're thrilled to be underway with our "Bioinformatic Analysis of Transposable Elements" course with two 💫exceptional and emerging talents @clementgoubert and @valepeona in the field of Transposable Elements science.

#Genomics #Bioinformatics #TransposableElements

🎉We're thrilled to be underway with our "Bioinformatic Analysis of Transposable Elements" course with two 💫exceptional and emerging talents @clementgoubert and @valepeona in the field of Transposable Elements science.

#Genomics #Bioinformatics #TransposableElements

🥁There are still a few seats available for some of our courses in May and June!
#Python #Rstats #singlecell #RNAseq #transposableElements #Metagenomics #GLMs #rspatial #Genomics #DataScience

🥁There are still a few seats available for some of our courses in May and June!
#Python #Rstats #singlecell #RNAseq #transposableElements #Metagenomics #GLMs #rspatial #Genomics #DataScience

Hi the fediverse!

Our lastest paper on the theoretical dynamics of transposable elements is out (in Theor Pop Biol: https://www.sciencedirect.com/science/article/pii/S0040580923000096 , in @biorxiv_evobio : https://www.biorxiv.org/content/10.1101/2022.07.05.498868v2). We derived population genetics models of TE amplification when regulated by piRNAs, accoding to the "trap model". -> Thread

#PopulationGenetics #TransposableElements #TheorPopBiol #piRNA #EvolutionaryBiology #EvoBio #Publication #Genomics

🥁Registration is now open for the course "Bioinformatic analysis of Transposable Elements" with Valentina Peona & @clementgoubert in June

🗓️ (online) June, 12-15

🔗https://physalia-courses.org/courses-workshops/course24/

💡 Attendees will learn how to conduct computational analyses of TEs, interpret the results in the light of TE biology, and improve TE annotations through manual curation

#TransposableElements #Genomics #Bioinformatics

🥁Registration is now open for the course "Bioinformatic analysis of Transposable Elements" with Valentina Peona & @clementgoubert in June

🗓️ (online) June, 12-15

🔗https://physalia-courses.org/courses-workshops/course24/

💡 Attendees will learn how to conduct computational analyses of TEs, interpret the results in the light of TE biology, and improve TE annotations through manual curation

#TransposableElements #Genomics #Bioinformatics

And here is the new version of the manuscript !
Have fun reading it #nanopore #TransposableElements #snakemake #drosophila

https://www.biorxiv.org/content/10.1101/2022.07.21.500944v2

With our colleague Mourdas Mohamed from IGH, we juste released the new version of TrEMOLO for TE identification on long reads data! #transposableelements #bioinformatics #structuralvariations #genomics #software
Release v2.2-beta1 · DrosophilaGenomeEvolution/TrEMOLO https://github.com/DrosophilaGenomeEvolution/TrEMOLO/releases/tag/v2.2-beta

Long-standing #genomics mystery about the origins of #introns explained in new study
https://phys.org/news/2022-11-long-standing-genomic-mystery-introns.html

#TransposableElements drive #intron gain in diverse eukaryotes https://www.pnas.org/doi/10.1073/pnas.2209766119

The researchers believe that #introners (specialized #transposons) are the only likely explanation for intron burst events, in which thousands of introns show up in a #genome seemingly all at once, and they find evidence of this in species across the eukaryotic tree of life.

Long-standing #genomics mystery about the origins of #introns explained in new study
https://phys.org/news/2022-11-long-standing-genomic-mystery-introns.html

#TransposableElements drive #intron gain in diverse eukaryotes https://www.pnas.org/doi/10.1073/pnas.2209766119

The researchers believe that #introners (specialized #transposons) are the only likely explanation for intron burst events, in which thousands of introns show up in a #genome seemingly all at once, and they find evidence of this in species across the eukaryotic tree of life.

The #Fediscience #mastodon instance kindly asks for an #introduction. Here it is:

I am an evolutionary biologist at #IDEEV (#CNRS #UniversiteParisSaclay, France). Wide interests in #Evolution, including #PopGen, #QuantitativeGenetics, #SystemsBiology, and #Genome evolution (in particular, #TransposableElements). Mostly #Theory and #DataAnalysis.

I am part of the recent #twitterMigration of #Academia, and very happy to find so many people #ESEBFolks here!