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Samuel Abalde

@saabalde.bsky.social
102 followers 139 following 15 posts

JSPS postdoctoral fellow at the Atmosphere and Ocean Research Institute, the University of Tokyo. Interested in phylogenomics, transcriptomics and comparative genomics. scholar.google.es/citations?user=6k…

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Reposted by Samuel Abalde
Iñaki Ruiz-Trillo @multicellgenome.bsky.social · 20/05/2026
Amazing to see so much data on Hox genes in #Xenacoelomoprhs! Showing great clade-specific Hox variation and providing insights on the possible ancestral state and evolution of the xenacoelomorph Hox complement. Congrats Ulf, Joseph @yannbuck.bsky.social @saabalde.bsky.social #evolution
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Reposted by Samuel Abalde
PCI Genomics @genomics.peercommunityin.org · 16/05/2026
📑 New @genomics.peercommunityin.org recommendation, by @saabalde.bsky.social genomics.peercommunityin.org/articles/rec... On the work of Guilio et al. (2026) Comparing DNA extraction methods for successful PacBio HiFi sequencing: a case study of the freshwater mussel Anodonta anatina (Bivalvia...
genomics.peercommunityin.org
High-quality HMW-DNA extractions from molluscs: comparing method...
High-quality reference genomes are increasingly recognized as essential resources in biodiversity genomics and conservation. However, successful DNA extraction and long-read sequencing remain highly…
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Samuel Abalde @saabalde.bsky.social · 30/04/2026
It seems it's already typeset. That was quick! doi.org/10.1093/gbe/...
doi.org
Patterns of Conservation and Loss of Hox Genes in Xenacoelomorph Lineage Since Divergence From Last Common Bilaterian Ancestor
Abstract. The explosion of body forms found in bilaterians is thought to be tied to the diversification of Hox transcription factors, which play a critical
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Reposted by Samuel Abalde
Ariane Buckenmeyer @yannbuck.bsky.social · 19/04/2026
some #xenacoelomorph Hox hijinks out now - was a blast of a project with an awesome crowd.
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Samuel Abalde @saabalde.bsky.social · 14/04/2026
New manuscript out, led by @yannbuck.bsky.social, about Xenacoelomorpha's Hox repertoire. This was fun :-) doi.org/10.1093/gbe/...
doi.org
Patterns of conservation and loss of Hox genes in xenacoelomorph lineage since divergence from last common bilaterian ancestor
Abstract. The explosion of body forms found in bilaterians is thought to be tied to the diversification of Hox transcription factors, which play a critical
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Samuel Abalde @saabalde.bsky.social · 09/09/2025
Friendly reminder this is next Monday.
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Reposted by Samuel Abalde
Iker Irisarri @ikeririsarri.bsky.social · 18/07/2025
Join us 15/09/2025 @mncn-csic.bsky.social for a symposium on various applications of #genomics to #biodiversity research Registration required for in-person participation (www.eventbrite.co.uk/e/museum-bio...); streamed through YouTube. Thanks to generous support by Conexión Genoma @csic.es
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Samuel Abalde @saabalde.bsky.social · 30/06/2025
Later this month I will visit the Asamushi Research Center for Marine Biology, in Aomori, where I will train undergraduate and graduate students in the use of low-coverage genomic data for studying diversity. I am very excited about this workshop! :-) www.biology.tohoku.ac.jp/lab-www/asam...
biology.tohoku.ac.jp
専門性の高い海洋生物学教育プログラム | 浅虫海洋生物学教育研究センター
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Samuel Abalde @saabalde.bsky.social · 27/05/2025
Happy to share my latest work with Ulf Jondelius. It was a blast to be involved in this project, the last one I was leading during my time at Naturhistoriska.
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Reposted by Samuel Abalde
PCI Genomics @genomics.peercommunityin.org · 07/05/2025
📑 New PCI Genomics recommendation, by @saabalde.bsky.social genomics.peercommunityin.org/articles/rec... On Ole K. Tørresen et al. (2025) Comparison of whole-genome assemblies of European river lamprey (Lampetra fluviatilis) and brook lamprey (Lampetra planeri) www.biorxiv.org/content/10.1...
biorxiv.org
Comparison of whole-genome assemblies of European river lamprey (Lampetra fluviatilis) and brook lamprey (Lampetra planeri)
We present haplotype-resolved whole-genome assemblies from one individual European river lamprey ( Lampetra fluviatilis ) and one individual brook lamprey ( Lampetra planeri ), usually regarded as…
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Samuel Abalde @saabalde.bsky.social · 07/05/2025
New recommendation at @genomics.peercommunityin.org. I'm very happy I had the chance to handle this interesting manuscript: doi.org/10.1101/2024... Phased genomes suggest that L. fluviatilis and L. planeri are two ecotypes of the same species: doi.org/10.24072/pci...
doi.org
Phased genomes suggest that *L. fluviatilis* and *L. planeri* ar...
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Samuel Abalde @saabalde.bsky.social · 05/02/2025
Circatidal control of gene expression in the deep-sea hot vent shrimp Rimicaris leurokolos doi.org/10.1098/rspb...
doi.org
Circatidal control of gene expression in the deep-sea hot vent shrimp Rimicaris leurokolos | Proceedings of the Royal Society B: Biological Sciences
Biological clocks are a ubiquitous feature of all life, enabling the use of natural environmental cycles to track time. Although studies on circadian rhythms have contributed greatly to the knowledge ...
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Samuel Abalde @saabalde.bsky.social · 14/01/2025
Finally, the typeset version of our latest paper is out. I hope you like it! A Phylogenomic Backbone for Acoelomorpha Inferred From Transcriptomic Data: doi.org/10.1093/sysb...
doi.org
A Phylogenomic Backbone for Acoelomorpha Inferred From Transcriptomic Data
Abstract. —Xenacoelomorpha are mostly microscopic, morphologically simple worms, lacking many structures typical of other bilaterians. Xenacoelomorphs—whic
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Reposted by Samuel Abalde
Wayne Maddison @waynemaddison.bsky.social · 06/12/2024
A new method for trimming alignments in #phylogenomics — PhyIN. It identifies and trims regions with high phylogenetic discord. Able to trim well even on single loci — an advantage for gene tree/species tree studies. #evolbiol #phylogeny 🧪http://doi.org/10.7717/peerj.18504 Some backstory... 🧵
doi.org
PhyIN: trimming alignments by phylogenetic incompatibilities among neighbouring sites
In phylogenomics, regions of low alignment reliability and high noise are typically trimmed from multiple sequence alignments before they are used in phylogenetic inference. I introduce a new trimming...
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Samuel Abalde @saabalde.bsky.social · 05/12/2024
I think it's about time I introduce myself. Hello 👋. I am a JSPS researcher at the Atmosphere and Ocean Research Institute, in Kashiwa, Japan. I intend to generate high-quality genomes to learn about miniaturisation in gastropods. Before that... (1/2)
Photo of the minute snail Skenea serpuloides. The diameter of the shell is 1.17 millimetres. It is a flat and white shell with a large aperture. The photo was taken by Kapeller and downloaded from WoRMS.
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Reposted by Samuel Abalde
Fabien Burki @fburki.bsky.social · 22/11/2024
Anyone looking for an assistant professor position in biodiversity research? Not one but three positions available at Stockholm U: www.su.se/department-o...
su.se
Faculty of Science is recruiting Assistant Professors in Biodiversity - Department of Ecology, Environment and Plant Sciences
Faculty of Science is recruiting Assistant Professors in Biodiversity - Department of Ecology, Environment and Plant Sciences
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