Samuel Abalde
@saabalde.bsky.social
JSPS postdoctoral fellow at the Atmosphere and Ocean Research Institute, the University of Tokyo. Interested in phylogenomics, transcriptomics and comparative genomics.
https://scholar.google.es/citations?user=6k6mGNcAAAAJ&hl=es
https://scholar.google.es/citations?user=6k6mGNcAAAAJ&hl=es
Pinned
Samuel Abalde
@saabalde.bsky.social
· May 27
@saabalde.bsky.social & Jondelius characterize opsins and phototransduction genes in Xenacoelomorpha, identifying cnidarian-like and lineage-specific opsins.
🔗 doi.org/10.1093/gbe/evaf078
#genome #evolution #bilateria
🔗 doi.org/10.1093/gbe/evaf078
#genome #evolution #bilateria
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.
Friendly reminder this is next Monday.
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
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
September 9, 2025 at 7:39 AM
Friendly reminder this is next Monday.
Reposted by Samuel Abalde
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
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
July 18, 2025 at 10:00 AM
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
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
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...
I am very excited about this workshop! :-)
www.biology.tohoku.ac.jp/lab-www/asam...
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
www.biology.tohoku.ac.jp
June 30, 2025 at 7:22 AM
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...
I am very excited about this workshop! :-)
www.biology.tohoku.ac.jp/lab-www/asam...
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.
@saabalde.bsky.social & Jondelius characterize opsins and phototransduction genes in Xenacoelomorpha, identifying cnidarian-like and lineage-specific opsins.
🔗 doi.org/10.1093/gbe/evaf078
#genome #evolution #bilateria
🔗 doi.org/10.1093/gbe/evaf078
#genome #evolution #bilateria
May 27, 2025 at 10:57 PM
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.
Reposted by Samuel Abalde
📑 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...
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...
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…
www.biorxiv.org
May 7, 2025 at 7:01 AM
📑 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...
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...
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...
Phased genomes suggest that L. fluviatilis and L. planeri are two ecotypes of the same species: doi.org/10.24072/pci...
Phased genomes suggest that *L. fluviatilis* and *L. planeri* ar...
doi.org
May 7, 2025 at 1:54 AM
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...
Phased genomes suggest that L. fluviatilis and L. planeri are two ecotypes of the same species: doi.org/10.24072/pci...
Circatidal control of gene expression in the deep-sea hot vent shrimp Rimicaris leurokolos
doi.org/10.1098/rspb...
doi.org/10.1098/rspb...
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 ...
doi.org
February 5, 2025 at 8:38 AM
Circatidal control of gene expression in the deep-sea hot vent shrimp Rimicaris leurokolos
doi.org/10.1098/rspb...
doi.org/10.1098/rspb...
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...
A Phylogenomic Backbone for Acoelomorpha Inferred From Transcriptomic Data: doi.org/10.1093/sysb...
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
doi.org
January 14, 2025 at 12:45 AM
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...
A Phylogenomic Backbone for Acoelomorpha Inferred From Transcriptomic Data: doi.org/10.1093/sysb...
Reposted by Samuel Abalde
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... 🧵
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...
doi.org
December 6, 2024 at 12:56 AM
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... 🧵
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)
December 5, 2024 at 1:05 AM
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)
Reposted by Samuel Abalde
Anyone looking for an assistant professor position in biodiversity research? Not one but three positions available at Stockholm U:
www.su.se/department-o...
www.su.se/department-o...
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
www.su.se
November 22, 2024 at 2:46 PM
Anyone looking for an assistant professor position in biodiversity research? Not one but three positions available at Stockholm U:
www.su.se/department-o...
www.su.se/department-o...