Emilio Mármol Sánchez

The variability of goat microRNA genes is strongly shaped by functional constraints Background MicroRNAs (miRNAs) are a type of small non-coding RNAs involved in the post-transcriptional repression of target mRNA transcripts, and responsible for the fine-tuning of numerous molecular ...

Are you interested in microRNAs 🧬 and goats 🐐? We are!!

Then have a look at our preprint on how microRNA mutations segregate worldwide 🌍 in goat populations and the potentially derived consequences of prolonged inbreeding and geographical isolation.

www.biorxiv.org/content/10.1...

The rise of historical epigenomics and temporal analysis of gene regulation - Genome Biology Complex diseases driven by gene-environment interactions impose a heavy burden on human and animal health. Addressing these challenges requires innovative research. The emerging field of historical epigenomics offers a promising opportunity to link genotypes with phenotypes using preserved biological material. New methods such as historical chromatin profiling in museum specimens provide valuable insights into vertebrate genome regulation. Building on successful work with formalin-fixed paraffin-embedded (FFPE) samples, we expect growing interest in using historical specimens for biomedical, evolutionary, and ecological research. Applied to historical collections, these tools can provide critical baselines for understanding modern diseases, environmental stressors, and human adaptation.

genomebiology.biomedcentral.com/articles/10....

The world's oldest bacterial DNA found in a million-year-old mammoth!

New results from researchers at #CpgSthlm published in Cell!

Paper:
www.cell.com/cell/abstrac...

Have a look at our new 2025 Blog entry from @aarc-community.bsky.social where we interviewed Dr. Pascale Lubbe (@plubbe.bsky.social) about the research project she presented in July 2025 #AaRCTikTalks

www.animal-adna.org/blog/2025/08...

I am starting a computational lab at LIOS, Riga, Latvia, and going to recruit a few people. Please DM if you are interested in a postdoc or PhD position in my Metabolic Research Group within the TARGETWISE project. I can highly recommend Riga, it is a beautiful city with very good living conditions.

Have a look at our new 2025 Blog entry from
@aarc-community.bsky.social where we interviewed PhD Fellow Lydia Hildebrand Furness about the research project she presented in March 2025 #AaRCTikTalks

animal-adna.org/blog/2025/05...

#aDNA #Dugong #conservation

Have a look at our new 2025 Blog entry from
@AaRC_Community where we interviewed Dr. Alexander Salis and Dr. Anna Penna (@apenna.bsky.social‬) about the research project he presented in February 2025 #AaRCTikTalks.

animal-adna.org/blog/2025/05...
animal-adna.org/blog/2025/05...

#aDNA #museomics

On the ancestry and evolution of the extinct dire wolf Dire wolves (Aenocyon dirus) are extinct predators of Pleistocene North America. Although phenotypically similar to living wolves (Canis lupus), dire wolves have yet to be placed confidently in the ca...

www.biorxiv.org/content/10.1...

Have a look at our second 2025 Blog entry from @aarc-community.bsky.social where we interviewed Jesse Morin about the research project he presented in January 2025 #AaRCTikTalks.

www.animal-adna.org/blog/2025/03...

#ancientDNA #aDNA #salmon #Tsleil_Waututh

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MSCA Reviewers deffinitely did not like my research proposal.

I will keep trying other ways...

AaRC Talks, Friday 31st January 4pm GMT, 5pm CET, 11am EST

Next week we will got back to our schedule of #AaRCTikTalks, and this year starts strong with a talk about the population genomics of the extinct Darwin ground sloths of Chile and another about the salmon fisheries of the Coast Salish #aDNA 🧪🏺🧬

Have a look at our first 2025 Blog entry from @aarc-community.bsky.social where we interviewed @maridehasque.bsky.social and Ophélie Lebrasseur about the research projects they presented in the November 2024 #AaRCTikTalks.

animal-adna.org/blog/2025/01...

#ancientDNA #aDNA #mammoth #chicken

We have not shared a preprint so far, apologies.

It should come out at some point during 2025, hopefully!!

We have used KrakenUniq to do a classification of "what is there" but not used it to prefilter anything, just on reads >30nt. Our average length was rather short (~25nt cuz we were working on ancient RNA).

Would you recommend going to smaller kmer databases and prefilter? Kraken2 vs KrakenUniq?

We have a paper under review on ancient RNA where we used UMAP to cluster tissue-specific gene expression patterns as commonly seen for scRNA-seq and RNA-seq.

Interestingly, classical approaches such as PCA were good to distinguish old from modern stuff, but not much so to capture tissue identity.

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That feeling when that long overdue manuscript sitting in your table for longer than acceptable is finally submitted to a journal.

Inferring DNA methylation in non-skeletal tissues of ancient specimens - Nature Ecology & Evolution The authors show that DNA methylation patterns in one tissue can inform on those in another, under certain conditions, and devise an algorithm that allows identification of differential DNA methylatio...

A new algorithm for inferring DNA methylation patterns from ancient specimens demonstrates how this approach can reveal evolutionary changes in non-skeletal tissues, providing insights into epigenetics in archaic humans. #EvoBio #aDNA

www.nature.com/articles/s41...

The chromosome folding problem and how cells solve it All cells must fold their chromosomes. The combined action of a small set of conserved molecular and biophysical mechanisms fold chromosomes in a variety of ways across the cell cycle and tree of life...

www.cell.com/cell/fulltex...

The chromosome folding problem and how cells solve it

Great review by @jobdekker.bsky.social & Leonid Mirny

I've posted the notes/slides for my computational biology class at github.com/pachterlab/B... Topics were chosen based on appearing in >=3 bio areas, although for focus examples are all drawn from #scRNAseq. Homeworks include both theory and exploration of data (via GoogleColab).

35,000-year-old frozen saber-toothed cat mummy studied for first time ever
The cat's remains were found in Yakutia, Russia, and were determined to be those of a 3-week-old cub.

www.nbcnews.com/science/scie...

Small and long non-coding RNAs: Past, present, and future In this Review, Chen and Kim explore the exciting journey of discovering small and long non-coding RNAs. They also explain the current understanding as to how these RNAs are made, how they operate, an...

This looks like a comprehensive and timely review on microRNAs and lncRNAs by Ling-Ling Chen and Narry Kim:

www.cell.com/cell/fulltex...

Tasmanian tiger RNA is first to be recovered from an extinct animal Genetic sequences from a museum specimen offer fresh clues about the physiology of thylacines, which went extinct in the 1930s.

www.nature.com/articles/d41...

7 years ago, I met a junior fellow named Jason Buenrostro who blew me away with a vision of futuristic genomic technologies

Today, we (Ajay Labade, Caroline Comenho) are excited to share our first steps into that future: Expansion in situ genome sequencing

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🧬🐭🐴🐻Job Alert🐻🐴🐭🧬

We are hiring 3 postdoctoral researchers in DeepTime Palaeogenomics!

All positions are for 2 years (extension possible), & are fully funded both in terms of employment and project costs.

Deadline: 2 Dec 2024

Please RT!

Apply:
www.su.se/english/abou...