isaacmtzu.bsky.social
@isaacmtzu.bsky.social
Computational biology of non-coding genome.
Reposted by isaacmtzu.bsky.social
Now online! Direct cell-to-cell transmission of retrotransposons
Direct cell-to-cell transmission of retrotransposons
Retrotransposons can infect neighboring cells using a mechanism that relies on a small fusogen-like protein rather than on the envelope protein that is typically required for infection.
dlvr.it
September 23, 2026 at 10:38 PM
Now online! Direct cell-to-cell transmission of retrotransposons
Reposted by isaacmtzu.bsky.social
We reengineered the TIR-Learner for 60-100 times faster de novo search of Terminal Inverted Repeat transposons. We completed annotating 579 vertebrate genomes in 4 hours! Kenji Gerhardt did all the heavy lifting for this "side project".
July 27, 2026 at 4:51 PM
We reengineered the TIR-Learner for 60-100 times faster de novo search of Terminal Inverted Repeat transposons. We completed annotating 579 vertebrate genomes in 4 hours! Kenji Gerhardt did all the heavy lifting for this "side project".
Reposted by isaacmtzu.bsky.social
Mexico's first woman ref in a men's World Cup match!
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June 25, 2026 at 11:07 PM
Mexico's first woman ref in a men's World Cup match!
👑👑👑
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Reposted by isaacmtzu.bsky.social
Martinez-Ugalde et al. used comparative transcriptomics to show that argonaute protein exWAGO is part of an evolutionarily conserved pathway for LTR retrotransposon regulation.
🔗 doi.org/10.1093/gbe/evag117
🖌️ Laura Fabiola Espinosa Juárez / Isaac Martinez-Ugalde
#genome #evolution #celegans
🔗 doi.org/10.1093/gbe/evag117
🖌️ Laura Fabiola Espinosa Juárez / Isaac Martinez-Ugalde
#genome #evolution #celegans
May 26, 2026 at 8:59 AM
Martinez-Ugalde et al. used comparative transcriptomics to show that argonaute protein exWAGO is part of an evolutionarily conserved pathway for LTR retrotransposon regulation.
🔗 doi.org/10.1093/gbe/evag117
🖌️ Laura Fabiola Espinosa Juárez / Isaac Martinez-Ugalde
#genome #evolution #celegans
🔗 doi.org/10.1093/gbe/evag117
🖌️ Laura Fabiola Espinosa Juárez / Isaac Martinez-Ugalde
#genome #evolution #celegans
Reposted by isaacmtzu.bsky.social
Recursive Repeat Extender (RRE): A recursive approach to automatically extend repeat element models https://www.biorxiv.org/content/10.64898/2026.04.14.718546v1
April 17, 2026 at 8:04 PM
Recursive Repeat Extender (RRE): A recursive approach to automatically extend repeat element models https://www.biorxiv.org/content/10.64898/2026.04.14.718546v1
Reposted by isaacmtzu.bsky.social
RNAs outside of cells?! How did they get there?
(Thread coming soon 👀)
www.biorxiv.org/content/10.1...
(Thread coming soon 👀)
www.biorxiv.org/content/10.1...
Pseudouridine selects RNAs for extracellular transport
RNAs move through the extracellular space to transmit information between cells, including mammalian neurons, yet how specific RNAs are channeled into these extracellular routes is unknown. Using geno...
www.biorxiv.org
October 30, 2025 at 8:07 PM
RNAs outside of cells?! How did they get there?
(Thread coming soon 👀)
www.biorxiv.org/content/10.1...
(Thread coming soon 👀)
www.biorxiv.org/content/10.1...
Reposted by isaacmtzu.bsky.social
Improved spike-in normalization clarifies the relationship between active histone modifications and transcription https://www.biorxiv.org/content/10.1101/2025.11.25.690627v1
November 26, 2025 at 11:32 PM
Improved spike-in normalization clarifies the relationship between active histone modifications and transcription https://www.biorxiv.org/content/10.1101/2025.11.25.690627v1
Reposted by isaacmtzu.bsky.social
Programmed DNA elimination was present in the last common ancestor of Caenorhabditis nematodes https://www.biorxiv.org/content/10.1101/2025.10.23.681605v1
October 24, 2025 at 9:32 PM
Programmed DNA elimination was present in the last common ancestor of Caenorhabditis nematodes https://www.biorxiv.org/content/10.1101/2025.10.23.681605v1
Reposted by isaacmtzu.bsky.social
Argonautes and small RNAs associated with nematode programmed DNA elimination https://www.biorxiv.org/content/10.1101/2025.10.23.684123v1
October 24, 2025 at 2:19 AM
Argonautes and small RNAs associated with nematode programmed DNA elimination https://www.biorxiv.org/content/10.1101/2025.10.23.684123v1
Thrilled to share our preprint on the ancestral function of the secreted Argonaute exWAGO 🧬🐙
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Comparative transcriptomics reveals an extracellular worm argonaute as an ancestral regulator of LTR retrotransposons.
Safeguarding the genome from non-self elements is essential for reproduction, development, and ageing. One of the major threats to genome integrity is Transposable Elements (TEs), which can be post–tr...
www.biorxiv.org
September 25, 2025 at 1:46 PM
Thrilled to share our preprint on the ancestral function of the secreted Argonaute exWAGO 🧬🐙
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by isaacmtzu.bsky.social
The impact of rearing environment on C. elegans: Phenotypic, transcriptomic and intergenerational responses to 3D enriched habitats https://www.biorxiv.org/content/10.1101/2025.09.07.674770v1
September 9, 2025 at 2:45 PM
The impact of rearing environment on C. elegans: Phenotypic, transcriptomic and intergenerational responses to 3D enriched habitats https://www.biorxiv.org/content/10.1101/2025.09.07.674770v1
Reposted by isaacmtzu.bsky.social
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Evolution of developmental bias explains divergent patterns of phenotypic evolution in two nematode clades
www.pnas.org/doi/10.1073/...
Evolution of developmental bias explains divergent patterns of phenotypic evolution in two nematode clades
www.pnas.org/doi/10.1073/...
Evolution of developmental bias explains divergent patterns of phenotypic evolution in two nematode clades | PNAS
Rates of phenotypic evolution vary across traits, and these evolutionary patterns
themselves evolve. Understanding how development contributes to s...
www.pnas.org
August 23, 2025 at 1:47 PM
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Evolution of developmental bias explains divergent patterns of phenotypic evolution in two nematode clades
www.pnas.org/doi/10.1073/...
Evolution of developmental bias explains divergent patterns of phenotypic evolution in two nematode clades
www.pnas.org/doi/10.1073/...
Reposted by isaacmtzu.bsky.social
Emergence and stabilisation of a neo-Y chromosome in nematode species with rare males https://www.biorxiv.org/content/10.1101/2025.07.25.666552v1
July 29, 2025 at 11:32 PM
Emergence and stabilisation of a neo-Y chromosome in nematode species with rare males https://www.biorxiv.org/content/10.1101/2025.07.25.666552v1
Reposted by isaacmtzu.bsky.social
🧬June's most-read Genetics paper independently validates previous research showing that #CElegans can inherit learned pathogen avoidance: buff.ly/HQgprLp
July 24, 2025 at 8:01 PM
🧬June's most-read Genetics paper independently validates previous research showing that #CElegans can inherit learned pathogen avoidance: buff.ly/HQgprLp
Reposted by isaacmtzu.bsky.social
#TREnD2025 virtual day is here!! First talk starting now! 🥳
We are excited to announce that registration for this year's Toronto RNA Enthusiasts' Day (TREnD) is now open!
July 10th, 1pm-4pm ET ONLINE for everyone
July 11th, 9am-7pm ET ONLINE across Canada and IN PERSON in Toronto
event.fourwaves.com/trend25/regi...
July 10th, 1pm-4pm ET ONLINE for everyone
July 11th, 9am-7pm ET ONLINE across Canada and IN PERSON in Toronto
event.fourwaves.com/trend25/regi...
July 10, 2025 at 5:12 PM
#TREnD2025 virtual day is here!! First talk starting now! 🥳
Reposted by isaacmtzu.bsky.social
Super excited to see our work shared with the scientific community! We know #Argonaute proteins can be extracellular, but can they be transferred to recipient cells and can they function? Happy reading!
A non-vesicular Argonaute protein is transmitted from nematode to mouse and is important for parasite survival https://www.biorxiv.org/content/10.1101/2025.04.01.646544v1
April 2, 2025 at 11:05 AM
Super excited to see our work shared with the scientific community! We know #Argonaute proteins can be extracellular, but can they be transferred to recipient cells and can they function? Happy reading!