V. Benes

Comprehensive analysis of the microbial consortium in the culture of flagellate Monocercomonoides exilis

This study characterizes the microbial community associated with Monocercomonoides exilis through metagenomic sequencing and metabolic analysis, revealing its reliance on bacterial partners for nutrient cycling.

Aging impairs skeletal muscle regeneration by promoting fibro/fatty degeneration and inhibiting inflammation resolution via fibro-adipogenic progenitors

This study shows aging impairs muscle regeneration by promoting fibro/fatty degeneration and inhibiting inflammation resolution through reduced Periostin in fibro/adipogenic progenitors.

Epigenetic deregulation of IFN and WNT pathways in AT2 cells impairs alveolar regeneration (in COPD)

This study identifies epigenetic changes in AT2 cells from COPD patients that disrupt IFN and WNT pathways, impairing lung regeneration.

Gut microbiome remains stable following COVID-19 vaccination in healthy and immuno-compromised individuals

This study shows that the gut microbiome remains stable after COVID-19 vaccination in both healthy and immuno-compromised individuals, with no significant changes in diversity, phylum, species, or functional capacity.

A signalling rheostat controls chromosome segregation fidelity during early lineage specification and neurogenesis by modulating DNA replication stress

The paper identifies a signalling rheostat involving WNT, BMP, and FGF that modulates DNA replication stress and chromosome segregation fidelity during lineage specification and neurogenesis.

Clonally resolved single-cell multi-omics identifies routes of cellular differentiation in acute myeloid leukemia

CloneTracer identifies differentiation routes in AML by adding clonal resolution to single-cell RNA-seq data, revealing disease-defining compartments and therapy response mechanisms.

High-resolution epigenetic profiling identifies novel regulators of COPD in human lung fibroblasts

This study identifies novel epigenetic and transcriptomic regulators of COPD in human lung fibroblasts across disease stages.

Drivers and Determinants of Strain Dynamics Following Faecal Microbiota Transplantation

This study identifies recipient and donor microbiome factors that determine strain dynamics after FMT, independent of clinical outcomes.

Single-cell proteo-genomic reference maps of the hematopoietic system enable the purification and massive profiling of precisely defined cell states

The paper generates single-cell proteo-genomic reference maps of human hematopoietic cells to enable precise cell state purification and functional profiling.

Identification of developmentally important genes in Silene latifolia through chemical genetics and transcriptome profiling

The paper identifies developmentally important genes in Silene latifolia by combining chemical genetics and transcriptome profiling to study sex-specific flower development.

A temperature-dependent translational switch controls biofilm development in Vibrio cholerae

This study identifies a temperature-dependent translational switch mediated by BipA that controls biofilm development in Vibrio cholerae.

Extensive 5'-Surveillance Guards Against Non-Canonical NAD-Caps of Nuclear mRNAs in Yeast

The paper identifies NAD-RNAs in yeast, showing they are abundant, short, and guarded by decapping enzymes, with in vitro evidence of translational rejection.

DNA damage independent inhibition of NF-κB transcription by anthracyclines

This study shows anthracyclines inhibit NF-κB transcription without DNA damage, affecting inflammation independently of their DNA-damaging effects.

Versatile workflow for cell type resolved transcriptional and epigenetic profiles from cryopreserved human lung.

This paper develops a cryopreservation workflow for human lung tissue that maintains cell viability and omics profiles, enabling single-cell and bulk sequencing for studying lung diseases.

Host-dependent induction of disease tolerance to infection by tetracycline antibiotics

This study shows tetracycline antibiotics protect against sepsis by inducing disease tolerance through mitochondrial protein synthesis inhibition, independent of their direct antibiotic effects.

Emergence of stable coexistence in a complex microbial community through metabolic cooperation and spatio-temporal niche partitioning

This study shows how kefir, a natural microbial community, achieves stable coexistence through spatio-temporal niche partitioning and metabolic cooperation during milk fermentation.

Unbiased classification of mosquito blood cells by single-cell genomics and high-content imaging

The paper uses single-cell genomics and imaging to classify mosquito blood cells, revealing transcriptional signatures and challenges to current morphology-based classification.