Figure 1

gPPIpred: A User-Friendly PPI Predictor Based on Protein Molecular Graphs #micropublication #biology #data #caltechlibrary #Zebrafish #Arabidopsis #Osativa #Scerevisiae #Escherichiacoli #Zeamays #Huma micropublication.org/journals/biology/micropu...

Figure 1

A cross-species rescue by mating method to interrogate gene essentiality across the Saccharomyces genus. #micropublication #biology #data #caltechlibrary #Scerevisiae #Suvarum #Methods #GeneticScreens micropublication.org/journals/biology/micropu...

Figure 1

The N-terminal α helix domain of the mitochondrial VDAC protein Por2 is dispensable for promoting the nuclear localization of yeast AMPK #micropublication #biology #data #caltechlibrary #Scerevisiae # micropublication.org/journals/biology/micropu...

Figure 1

Using Experimental Evolution to Correct Mother-Daughter Separation Defects in Brewing Yeast #micropublication #biology #data #caltechlibrary #Scerevisiae #EcologyAndEvolution #Genome #NewFinding micropublication.org/journals/biology/micropu...

Unraveling gene expression: a beginner’s guide from chromatin modifications to mRNA export in Saccharomyces cerevisiae Understanding gene expression requires grasping its multi-step processes, from chromatin remodeling to mRNA export. This manuscript provides an accessible entry point for PhD students and junior po...

#mRNA #mRNAProcessing #mRNAExport #Scerevisiae #RNA

www.tandfonline.com/doi/full/10....

Comprehensive analysis of Saccharomyces cerevisiae intron structures in vivo - Nature Structural & Molecular Biology Here, Rangan et al. characterize S. cerevisiae intron structures with in vivo transcriptome-wide structure probing, showing that certain introns exhibit structural features that distinguish pre-mRNA f...

Nice!
#RNA #Intron #Scerevisiae

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

Ribosomes modulate transcriptome abundance via generalized frameshift and out-of-frame mRNA decay Zhang et al. identify a regulatory mechanism for how cells adapt to nutrient scarcity through widespread −1 ribosomal frameshifts, culminating in accelerated mRNA decay. This process, dependent on cod...

#mRNADecay #Ribosome #Frameshift #Scerevisiae #NMD #CodonOptimality
Ribosomes modulate transcriptome abundance via generalized frameshift and out-of-frame mRNA decay: Molecular Cell www.cell.com/molecular-ce...

A kinetic ruler controls mRNA poly(A) tail length Poly(A) tails of newly synthesized mRNAs have uniform lengths, arising through cooperation between the cleavage and polyadenylation complex (CPAC) and poly(A) binding proteins (PABPs). In the budding ...

A tail of two Nab2’s….
Very interesting! Congrats!
#Nab2 #PolyATail #Length #BuddingYeast #Scerevisiae
#RNA

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

KCS1 and VIP1, the genes encoding yeast phosphoinositol pyrophosphate synthases, are required for Ca2+-mediated response to dimethylsulfoxide (DMSO)

👉 buff.ly/SZDkv9v

#DMSO #Scerevisiae #CalciumSignaling

Transcription termination promotes splicing efficiency and fidelity in a compact genome Splicing of terminal introns is coupled to 3′-end processing by cleavage and polyadenylation (CPA) of mRNAs in mammalian genes. Whether this functional coupling is universally conserved across eukaryo...

Just heard a great seminar from Guillaume Chanfreau discussing this work! @guillaumechanfreau.bsky.social
#TranscriptionTermination #Splicing #Efficiency #RNA #3'endProcessing #Scerevisiae #BuddingYeast

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

Parasitic plasmids are anchored to inactive regions of eukaryotic chromosomes through a nucleosome signal | The EMBO Journal imageimageThe naturally occurring S. cerevisiae 2µ plasmid is one of few documented cases of eukaryotic plasmids, undergoing equal distribution between mother and daughter cells during mitosis. Using ...

#2µ #Plasmid #BuddingYeast #Scerevisiae #Chromosome #Nucleosome

www.embopress.org/doi/full/10....

Ribosomal A-site interactions with near-cognate tRNAs drive stop codon readthrough - Nature Structural & Molecular Biology Transfer RNAs (tRNAs) serve as a dictionary for ribosomes translating the genetic message from mRNA into protein. Here, the authors show that understanding specific interactions of tRNAs in the riboso...

#tRNA #Ribosome #Asite #StopCodon #Readthrough #Scerevisiae

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

Formyl-methionine-mediated eukaryotic ribosome quality control pathway for cold adaptation Lee et al. describe the fMet-mediated ribosome quality control pathway. Cold exposure enhances cytosolic retention of Fmt1, promoting fMet translation. Nip1 then recognizes Nt-fMet and recruits Arf1, Hcr1, and Rli1 to stall and split ribosomes, forming stress granules that boost yeast cell resilience to cold stress by preventing toxic fMet-protein synthesis.

Interesting!

#Ribosome #QC #fMet #Scerevisiae #BuddingYeast #Cold

www.cell.com/molecular-ce...

Interesting!
#rDNA #Chromatin #Sir2 #Scerevisiae #BuddingYeast

#G6PD #Disease #Variants #Scerevisiae

Decapping activators Edc3 and Scd6 act redundantly with Dhh1 in post-transcriptional repression of starvation-induced pathways

#mRNA #Decapping #mRNADecay #Translation #Scerevisiae #GeneExpression

elifesciences.org/reviewed-pre...

#Scerevisiae #BuddingYeast

Excellent stuff! Cheers!
#Yeast #Tools #OpenAI #AI #Scerevisiae #Spombe

A census of RNA-dependent proteins in yeast Understanding the roles of RNA-associated protein complexes is essential to uncovering the mechanisms driving RNA metabolism and its impact on cellular function. Here, we present a comprehensive datas...

Cool!
#RNA #Protein #Scerevisiae #Spombe #Yeast
www.biorxiv.org/content/10.1...

Pleiotropic effects of PAB1 deletion: Extensive changes in the yeast proteome, transcriptome, and translatome Author summary Many human diseases are caused by having too much or too little of certain cellular proteins. The amount of an individual protein is influenced by the level of its messenger mRNA (mRNA)...

#Pab1 #PABP #PolyA #RNA #Scerevisiae #Yeast
#Ometastic
journals.plos.org/plosgenetics...

Nice! Excellent tools for #yeast #genomeengineering!
#CRISPR #Cas9 #Retron #Plasmid #Scerevisiae #buddingyeast

Rapid folding of nascent RNA regulates eukaryotic RNA biogenesis An RNA′s catalytic, regulatory, or coding potential depends on RNA structure formation. Because base pairing occurs during transcription, early structural states can govern RNA processing events and d...

Nice!
www.biorxiv.org/content/10.1...

#RNA #rRNA #Scerevisiae

The de novo design and synthesis of yeast chromosome XIII facilitates investigations on aging - Nature Communications The de novo design and synthesis of the Sc 2.0 chromosome XIII enable in-depth investigations into biology. Here the authors construct the 884 Kb synXIII of Saccharomyces cerevisiae to investigate rep...

www.nature.com/articles/s41...
#BuddingYeast #Scerevisiae #SyntheticBiology #Aging

Glad to have joined Bluesky yesterday! Great to have followed so many old and new friends/colleagues. Looking forward to all the great RNA biology and fun science chats!
#RNA #RNASky
P.S. Are there any Starter Packs for model organisms, especially, #BuddingYeast #Scerevisiae?