Faria Tryps Lab

A non-coding role for trypanosome VSG transcripts in allelic exclusion Abstract. Bloodstream-form African trypanosomes display antigenic variation. This requires mono-telomeric but switchable expression of a Variant Surface Gl

academic.oup.com/nar/article/...

Great to see this out! Big shout out to Douglas Escrivani, Seb Hutchinson & the Horn Lab!

@dundee.ac.uk
@ybri-uoy.bsky.social @york.ac.uk

An efficient eukaryotic cell-free expression and correlative cryo-electron tomography platform for structural biology of macromolecular complexes www.biorxiv.org/content/10.1101/2025.10.18.683253v1

Principles of protein abundance regulation across single cells in a mammalian tissue Protein synthesis and clearance are major regulatory steps of gene expression, but their in vivo regulatory roles across the cells comprising complex tissues remains unexplored. Here, we systematicall...

This article is a homecoming for me.

As a PhD student, I focused on the growth-rate transcriptional regulation in yeast.

Now, ~ 20 years later, we report protein regulation scaling with the growth rates of single cells in mammalian tissues.

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

New article on equitable reuse of public sequencing data, published in @natmicrobiol.nature.com!
Led by the Data reuse core team @lhug.bsky.social @environmicrobio.bsky.social Cristina Moraru, @geomicrosoares.bsky.social, @folker.bsky.social and with Anke Heyer and The Data Reuse Consotrium!

Why editors go to conferences - Nature Microbiology You may have spotted us at different conferences and wondered what we’re doing amid active researchers. Here, we demystify the editorial aims of conference attendance.

#Editorial

If you have ever been surprised by seeing an editor at a conference and wondered what they are doing there, this month's editorial has all the answers you need.

#MicroSky #AcademicChatter

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

This is figure 1, which shows the summary results from a survey of 306 scientists on data reuse.

In a Consensus Statement in Nature Microbiology, a consortium of #microbiome scientists discusses current sequencing data sharing policies and proposes the use of a Data Reuse Information tag to promote equitable and collaborative data sharing. go.nature.com/4o1Gl1f 🧪

Targets of the human antibody response to the variant surface glycoprotein of Trypanosoma brucei pubmed.ncbi.nlm.nih.gov/41040341/

🔬Fascinated by the unique mitochondrial biology that keeps deadly parasites alive?
🥼We have a fully funded NorthWestBio PhD just for you‼️
🌎 @blslancasteruni.bsky.social
📍Co-supervisor Kostas Tokatlidis @uofglasgow.bsky.social
⏰Deadline 21st Nov
📮Info and to apply👇
www.gla.ac.uk/postgraduate...

vsgseq2: an updated pipeline for analysis of the diversity and abundance of population-wide Trypanosoma brucei VSG expression www.biorxiv.org/content/10.1101/2025.09.12.675796v1

Calling all mitochondria enthusiasts, we are recruiting for a new project (and the post will be split between Glasgow and Helsinki)

www.jobs.gla.ac.uk/job/research...

Our 2025 Sep issue bit.ly/2N9R8Es reviews species sanitation & structural resilience in malaria control, animal trypanosomosis control, parasite genome organization, Leishmania attachment in sandflies, nonchemotherapeutic nematode control, tick & host microbiotas, parasitic neural manipulation &more

This is figure 3, which shows that BioMapAI identifies both disease- and symptom-specific biomarkers.

A study in Nature Medicine uses a supervised deep neural network to explain the network of concurrent molecular and macroscopic patterns related to insurgence and course of myalgic encephalomyelitis/chronic fatigue syndrome. go.nature.com/4mhoLpp #medsky 🧪

Drs @singh-parul.bsky.social @trypsleon.bsky.social‬ Maureen Cabahug @fariatrypslab.bsky.social & @jessmbryant.bsky.social review #Plasmodium & #Trypanosoma #genome organization.

#Trypanosome #Transcription #Chromatin #Epigenetics #Nuclear #Compartment

www.cell.com/trends/paras...

Pleased 2 share our new article: single-molecule replication mapping in Leishmania using DNAscent.
We show widespread stochastic origin firing and insights into genome variability.

www.cell.com/cell-reports...

Human cytomegalovirus long non-coding RNA counteracts nuclear cGAS to facilitate immune evasion - Nature Microbiology The authors identify a human cytomegalovirus long non-coding RNA, RNA4.9, that interacts with cGAS and prevents its activation in the nucleus, thereby suppressing virus-induced IFN expression and anti...

#NewResearch

A human cytomegalovirus long non-coding RNA, RNA4.9, that interacts with cGAS and prevents its activation in the nucleus, thereby suppressing virus-induced IFN expression and antiviral activity

#MicroSky 🦠

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

Streptomyces uses both polar and dispersed cell wall synthesis during exploratory growth - Nature Microbiology Streptomyces venezuelae requires MreB1-dependent dispersed peptidoglycan cell wall synthesis and DivIVA-mediated polar cell wall synthesis during its rapid exploratory growth phase.

#NewResearch

Streptomyces use both polar and dispersed cell wall synthesis during rapid, exploratory growth @mcmasteriidr.bsky.social

#BacteriaCellWall #MicroSky 🦠

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

#NewResearch

Cryo-EM structures of the full-length Junin virus and Machupo virus spike glycoprotein complexes stabilized in the prefusion conformation - analyses reveal features that regulate glycoprotein pH-dependent membrane fusion activity.

#MicroSky 🦠

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

RNA Pol II-based regulations of chromosome folding The spatial organization of eukaryotic genomes and its dynamics are of functional importance for gene expression, DNA replication, and segregation. St…

New work from @beckof.bsky.social and our lab's collaboration, with @alengronne.bsky.social! Multifaceted influence of transcription on yeast chromosome folding... loop extrusion of course but also active promoters making loops, bypassing centromeres boundaries
www.sciencedirect.com/science/arti...

A great team effort with @singh-parul.bsky.social Maureen Cabahug, @trypsleon.bsky.social & and the amazing @jessmbryant.bsky.social !!

Huge thanks to our funders @wellcometrust.bsky.social @yorkshirebiodtp.bsky.social @agencerecherche.bsky.social

How do parasites strategically organise their genomes to influence gene expression? If you’re curious, check our latest review in @cp-trendsparasitol.bsky.social !

@biologyatyork.bsky.social @ybri-uoy.bsky.social @pasteur.fr

www.sciencedirect.com/science/arti...

And what a pleasure it was!!!

Parasite genome organization: come together, right now! Links between genome organization and transcription have been extensively studied in model eukaryotes; however, recent application of state-of-the-art chromosome conformation capture techniques to kin...

We @singh-parul.bsky.social teamed up with the amazing @fariatrypslab.bsky.social @trypsleon.bsky.social to highlight how recent technological advances have revealed exciting new features of parasite genome architecture and its impact on survival and pathogenicity:

www.cell.com/trends/paras...

Beyond polyA: scalable single-cell total RNA-seq unifies coding and non-coding transcriptomics https://www.biorxiv.org/content/10.1101/2025.08.08.669394v1

Predicting the translation efficiency of messenger RNA in mammalian cells - Nature Biotechnology A deep convolutional neural network model predicts the influence of the full-length mRNA sequence on translation efficiency.

Predicting the translation efficiency of messenger RNA in mammalian cells go.nature.com/4mgXR0C

Generalizable direct protein sequencing with InstaNexus https://www.biorxiv.org/content/10.1101/2025.07.25.666861v1

The best things Biochemistry at York has to offer - Student Voices Biochemistry at York: A third-year student reflects on how studying biochemistry shaped her academic journey and career goals.

Over a week since Graduation already!

Débora shares her experience:
"Through all challenges I have had to overcome, very notably moving from the other side of the globe alone, I know I would not be here if it were not for my degree and the Department of Biology..."

Read more here - bit.ly/4fznGXD

Decoding post-transcriptional gene expression controls in trypanosomatids using machine learning pubmed.ncbi.nlm.nih.gov/40735494/

🚨 2-year post-doc position available in my lab. More details below. Please repost!

acrobat.adobe.com/id/urn:aaid:...

The essential host genome for Cryptosporidium survival exposes metabolic dependencies that can be leveraged for treatment An arrayed microscopy-based CRISPR screen revealed host genes affecting multiple infection phenotypes of the intracellular parasite Cryptosporidium. Hits in the host cholesterol biosynthesis pathway a...

Our paper has finally graduated from pre-print to peer-reviewed, pretty much unscathed, and is out now! www.cell.com/cell/fulltex...

Mapping multimodal phenotypes to perturbations in cells and tissue with CRISPRmap - Nature Biotechnology Optical pooled CRISPR screening is improved by combinatorial oligo hybridization for barcode detection.

Optical pooled CRISPR screening is improved by combinatorial oligo hybridization for barcode detection go.nature.com/481iCHt
rdcu.be/exfh8