Research Reports – Microbial Cell

Research, Research Reports

Forced association of SARS-CoV-2 proteins with the yeast proteome perturb vesicle trafficking

Cinzia Klemm^1,#, Henry Wood^1,#, Grace Heredge Thomas^1,#, Guðjón Ólafsson^1,2, Mara Teixeira Torres¹ and Peter H. Thorpe¹

This work demonstrates that the yeast Synthetic Physical Interactions method is a rapid way to identify potential functions of ectopic viral proteins.

Airborne bacteria in show caves from Southern Spain

Irene Dominguez-Moñino¹, Valme Jurado¹, Miguel Angel Rogerio-Candelera¹, Bernardo Hermosin¹ and Cesareo Saiz-Jimenez¹

This study analyzes the factors conditioning the diversity of airborne bacteria recorded in three Andalusian show caves, subjected to different managements.

Landscapes and bacterial signatures of mucosa-associated intestinal microbiota in Chilean and Spanish patients with inflammatory bowel disease

Nayaret Chamorro^1,#, David A. Montero^1,2,#, Pablo Gallardo³, Mauricio Farfán³, Mauricio Contreras⁴, Marjorie De la Fuente², Karen Dubois², Marcela A. Hermoso², Rodrigo Quera^5,6, Marjorie Pizarro-Guajardo^7,8,9, Daniel Paredes-Sabja^7,8,9, Daniel Ginard¹⁰, Ramon Rosselló-Móra¹¹ and Roberto Vidal^1,8,12

This study investigates the landscapes and alterations of mucosa-associated intestinal microbiota in patients with inflammatory bowel diseases, which cause chronic inflammation of the gut, including ulcerative colitis and Crohn’s disease.

Genome, transcriptome and secretome analyses of the antagonistic, yeast-like fungus Aureobasidium pullulans to identify potential biocontrol genes

Maria Paula Rueda-Mejia¹, Lukas Nägeli¹, Stefanie Lutz², Richard D. Hayes³, Adithi R. Varadarajan², Igor V. Grigoriev^3,4, Christian H. Ahrens^2,5 and Florian M. Freimoser¹

This study highlights the value of a sequential approach starting with genome mining and consecutive transcriptome and secretome analyses in order to identify a limited number of potential target genes for detailed, functional analyses in Aureobasidium pullulans.

Barcode sequencing and a high-throughput assay for chronological lifespan uncover ageing-associated genes in fission yeast

Catalina A. Romila^1,#, StJohn Townsend^1,2,#, Michal Malecki^1,3, Stephan Kamrad^1,2,4, María Rodríguez-López¹, Olivia Hillson¹, Cristina Cotobal¹, Markus Ralser^2,5 and Jürg Bähler¹

This work presents two approaches to study chronological lifespan (CLS) for medium- to high-throughput applications, a method for Bar-seq to identify mutants showing altered CLS and a novel medium-throughput colony-forming units assay that can be largely automated by robotics.

Proanthocyanidin-enriched cranberry extract induces resilient bacterial community dynamics in a gnotobiotic mouse model

Catherine C. Neto^1,2,#, Benedikt M. Mortzfeld^3,#, John R. Turbitt^1,2, Shakti K. Bhattarai³, Vladimir Yeliseyev⁴, Nicholas DiBenedetto⁴, Lynn Bry⁴ and Vanni Bucci^2,3

This study investigates the effect of a water-soluble, proanthocyanidin-rich cranberry juice extract on the short-term dynamics of a human-derived bacterial community in a gnotobiotic mouse model.

Dry biocleaning of artwork: an innovative methodology for Cultural Heritage recovery?

Giancarlo Ranalli¹, Pilar Bosch-Roig², Simone Crudele¹, Laura Rampazzi^3,4, Cristina Corti³ and Elisabetta Zanardini⁵

This work proposes an innovative methodology based on applied biotechnology for the recovery of altered stonework: the "dry biocleaning", which envisages the use of dehydrated microbial cells without the use of free water or gel-based matrices.

Aeration mitigates endoplasmic reticulum stress in Saccharomyces cerevisiae even without mitochondrial respiration

Huong Thi Phuong¹, Yuki Ishiwata-Kimata¹, Yuki Nishi¹, Norie Oguchi¹, Hiroshi Takagi¹ and Yukio Kimata¹

This work demonstrates a scenario, in which aeration acts beneficially on Saccharmyces cerevisiae cells even under fermentative conditions.

A novel BR-SMAD is required for larval development in barber’s pole worm Haemonchus contortus

Fangfang Li¹, Peixi Qin¹, Lisha Ye¹, Nishith Gupta^1,2,3 and Min Hu¹

The herein presented results show a BMP-like receptor-regulated SMAD in Haemonchus contortus that is required for larval differentiation and underscore an adaptive functional repurposing of BMP-signaling in parasitic worms.

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A time-resolved high-throughput screening of fission yeast deletion mutants for oxidative stress resistance

July 22, 2026

By capturing dynamic trajectories rather than static outcomes, this study exposes hidden layers of growth under oxidative stress and identifies new genetic determinants of cellular resilience in fission yeast.

Uga3 influences nitrogen metabolism in Saccharomyces cerevisiae by modulating arginine biosynthesis

June 12, 2025

Nitrogen metabolism in Saccharomyces cerevisiae is tightly regulated to optimize the utilization of available nitrogen sources. Uga3 is a known transcription factor involved in the gamma-aminobutyric acid (GABA) pathway; however, its broader role in nitrogen metabolism remains unclear.

Microwave-assisted preparation of yeast cells for ultrastructural analysis by electron microscopy

November 18, 2024

Budding yeast Saccharomyces cerevisiae is widely used as a model organism to study the biogenesis and architecture of organellar membranes, which can be visualized by transmission electron microscopy (TEM).

Direct detection of stringent alarmones (pp)pGpp using malachite green

August 5, 2024

In this study, we demonstrate the surprising discovery of a commercially available, low-cost malachite green (MG) detection kit, originally designed for orthophosphate (Pi) detection, for detecting (p)ppGpp and its analogues, especially pGpp

Unresolved mystery of cyclic nucleotide second messengers, periplasmic acid phosphatases and bacterial natural competence

July 18, 2024

In this study we aimed to identify the promotors responsible for the expression of the non-specific acid phosphatase AphA during different starvation conditions, to confirm the requirement of the cAMP-dependent CRP regulon for aphA expression, and to finally identify regulators of its expression.

Yeast gene KTI13 (alias DPH8) operates in the initiation step of diphthamide synthesis on elongation factor 2

August 8, 2023

We show here that apart from its effector role for Elongator-dependent tRNA modification in yeast, Kti13 alias Dph8 also operates in step one of the diphthamide modification pathway.

Caspase 3 exhibits a yeast metacaspase proteostasis function that protects mitochondria from toxic TDP43 aggregates

July 10, 2023

Caspase 3 activation is a hallmark of cell death and there is a strong correlation between elevated protease activity and evolving pathology in neurodegenerative disease, such as amyotrophic lateral sclerosis (ALS). These results suggest that caspase 3 is not inherently pathogenic, but may act as a compensatory proteostasis factor, to limit TDP-43 protein inclusions and protect organelle function in aggregation related degenerative disease.

Metallothionein Cup1 attenuates nitrosative stress in the yeast Saccharomyces cerevisiae

July 10, 2023

Our findings suggest that the yeast metallothionein Cup1 contributes to nitrosative stress tolerance, possibly as a constitutive rather than an inducible defense mechanism.

Atg1, a key regulator of autophagy, functions to promote MAPK activation and cell death upon calcium overload in fission yeast

May 10, 2023

Here, we provide evidence that the fission yeast Atg1 regulates cell death responses upon intracellular calcium load in addition to its role in promoting Pmk1 MAPK.

Investigating the role of G-quadruplexes at Saccharomyces cerevisiae telomeres

May 19, 2022

In this study, the authors examine the in vivo relevance of telomeric G-quadruplexes in the budding yeast Saccharomyces cerevisiae by expressing a mutant telomerase RNA subunit (tlc1-tm) that introduces mutant telomeric repeats instead to the distal ends of telomeres. (...)