FAIR Data Cube, a FAIR data infrastructure for integrated multi-omics data analysis.

Motivation: We are witnessing an enormous growth in the amount of molecular profiling (-omics) data. The integration of multi-omics data is challenging. Moreover, human multi-omics data may be privacy-sensitive and can be misused to de-anonymize and (re-)identify individuals.

Selection signatures associated with adaptation in South African Drakensberger, Nguni, and Tuli beef breeds.

In the present study 1,709 cattle, including 1,118 Drakensberger (DRB), 377 Nguni (NGI), and 214 Tuli (TUL), were genotyped using the GeneSeek® Genomic Profiler™ 150 K bovine SNP panel. A genomic data set of 122,632 quality-filtered single nucleotide polymorphisms (SNPs) were used to identify selection signatures within breeds based on conserved runs of homozygosity (ROH) and heterozygosity (ROHet) estimated with the detectRUNS R package. The mean number of ROH per animal varied across breeds ranging from 36.

Tracking the uptake of labelled host-derived extracellular vesicles by the human fungal pathogen .

Extracellular vesicles (EVs) have gained attention as facilitators of intercellular as well as interkingdom communication during host-microbe interactions. Recently we showed that upon infection, host polymorphonuclear leukocytes produce antifungal EVs targeting the clinically important fungal pathogen ; however, the small size of EVs (<1 µm) complicates their functional analysis. Here, we employed a more tractable, reporter-based system to label host alveolar epithelial cell-derived EVs and enable their visualization during interaction.

The impact of myostatin variants on growth traits in South African Bonsmara beef cattle.

Double muscling occurs when the myostatin (MSTN) gene is deactivated due to a series of mutations, leading to uncontrolled muscle growth and excessive muscle fiber accumulation, as the gene can no longer effectively regulate muscle development. This study aimed to assess the impact of MSTN variants and their combinations on growth traits, namely direct birth weight (BW), direct weaning weight (WW), average daily gain (ADG) and feed conversion ratio (FCR) in the South African (SA) Bonsmara. Genomically enhanced estimated breeding value (GEBVs) for traits of interest, and MTSN genotypes for SA Bonsmara animals were available for the study.