Category Archives: yeast

Our group is participating in the SMBE Satellite Meeting on de novo gene birth

Cova Vara and Chris Papadopoulos have presented their research in this week’s Symposium on de novo genes celebrated in Texas A&M University (College Station, Nov 6-9 2023). The research aims to explore the evolution of new genes in populations and … Continue reading

Leave a Comment

Filed under de novo gene evolution, mammal, micropeptide, ribosome profiling, RNA-Seq, transcriptomics, yeast

Evolutionary trajectories of new duplicated and putative de novo genes

Completely new protein sequences in genomes can arise by gene duplication or de novo. How does the mechanism of origination influence the fate of the proteins? Do duplicated proteins tend to be retained at higher rates than de novo proteins? … Continue reading

Leave a Comment

Filed under de novo gene evolution, gene duplication, micropeptide, Uncategorized, yeast

Our group goes to ECCB 2022

We had a great time at the European Conference in Computational Biology celebrated in Sitges in September 2022. Mar gave a keynote talk on The emerging small proteome, and Marta, Lili and José Carlos presented their PhD research in the … Continue reading

Leave a Comment

Filed under lncRNA, ribosome profiling, transcriptomics, yeast

ERC Advanced Grant NovoGenePop

Our ERC Advanced Grant NovoGenePop has just started! This means we can already recruits scientists and start to gather data. The project will investigate how new genes arise in closely related species and populations. This will involve the development of … Continue reading

Leave a Comment

Filed under de novo gene evolution, ribosome profiling, RNA-Seq, transcriptomics, yeast

mRNA molecules one at a time

Fascinated by the potential of long read technologies to make a difference in our knowldege of the transcriptome, two years ago we started generating Nanopore dRNA data for different yeast species, including the yeast S. pombe. This organism is ideal … Continue reading

Leave a Comment

Filed under ribosome profiling, transcriptomics, yeast

Protein translation from uORFs: roles in stress

The current view of an mRNA is that of a central coding sequence (CDS) flanked by 5′ and 3′ untranslated regions (UTRs). But often UTRs contain open reading frames which, as revealed by ribosome profiling, can also be translated. The … Continue reading

Leave a Comment

Filed under ribosome profiling, yeast

Using ribosome profiling to improve our understanding of gene regulation

To measure changes in the expression of the genes we normally compare mRNA abundances using high throughput RNA sequencing data (RNA-Seq), as a proxy for the changes in the encoded proteins. However, it is well known that the correlation between … Continue reading

Leave a Comment

Filed under differential gene expression, proteomics, ribosome profiling, transcriptomics, yeast